From f97d7e1e44361a1a6f64b2f65400ee1689cb2a4a Mon Sep 17 00:00:00 2001
From: Rachel Heyard <rachel.heyard@uzh.ch>
Date: Wed, 25 Jan 2023 21:53:31 +0100
Subject: [PATCH] I think I got the right data now

---
 data/prepped_outcome_level_data.csv | 113 ++++++++++++++++
 rsAbsence.Rnw                       | 200 ++++++++++++++++------------
 2 files changed, 227 insertions(+), 86 deletions(-)
 create mode 100644 data/prepped_outcome_level_data.csv

diff --git a/data/prepped_outcome_level_data.csv b/data/prepped_outcome_level_data.csv
new file mode 100644
index 0000000..e46d16f
--- /dev/null
+++ b/data/prepped_outcome_level_data.csv
@@ -0,0 +1,113 @@
+X.3,X.2,X.1,X,pID,eID,oID,internalID,Effect.description,origDirection,Observed.difference.in.replication.,origN,repN,testReported,What.statistical.test.was.reported.,Statistical.test.applied.to.original.data,Original.test.statistic.type,Original.test.statistic.value,Original.df1,Original.df2,Original.p.value,Replication.statistical.test,Replication.test.statistic.type,Replication.test.statistic.value,Replication.df1,Replication.df2,Replication.p.value,Was.original.data.representative.,origRawDiff,Replication.raw.difference..if.original.reported.representative.data.,Replication.raw.difference.type..mean.or.median.,Replication.raw.diference.standard.error,Replication.raw.difference.lower.CI,Replication.raw.difference.upper.CI,Effect.size.type,Original.effect.size,Original.standard.error,Original.lower.CI,Original.upper.CI,Replication.effect.size,Replication.standard.error,Replication.lower.CI,Replication.upper.CI,Meta.analysis.effect.size,Meta.analysis.lower.CI,Meta.analysis.upper.CI,Meta.analysis.p.value,repDirection,Statistical.test.applied.to.original.data..SMD.,Original.test.statistic.type..SMD.,Original.test.statistic.value..SMD.,origdf1,origdf2,origPval,Replication.statistical.test..SMD.,Replication.test.statistic.type..SMD.,Replication.test.statistic.value..SMD.,repdf1,repdf2,repPval,repRawDiff,Replication.raw.difference.type..mean.or.median...SMD.,Replication.raw.diference.standard.error..SMD.,Replication.raw.difference.lower.CI..SMD.,Replication.raw.difference.upper.CI..SMD.,EStype,origES,origSE,origESLo,origESHi,repES,repSE,repESLo,repESHi,Meta.analysis.effect.size..SMD.,Meta.analysis.lower.CI..SMD.,Meta.analysis.upper.CI..SMD.,Meta.analysis.p.value..SMD.,Notes.x,Original.paper.figure,Was.experiment.originally.identified.by.RP.CB.team,Did.experiment.continue.after.sharing.with.labs..before.submitting.protocol.to.eLife.,Did.the.experiment.protocol.get.submitted.to.eLife,Did.the.experiment.protocol.get.accepted.and.published.in.eLife,infoNeeded,infoQuality,Data.shared.by.original.authors,Code.shared.by.original.authors,Key.materials.asked.to.be.shared,materialsSharedProse,Key.materials.shared,expType,What.types.of.experimental.techniques.were.utilized.,What.category.of.experimental.techniques.were.utilized.,Number.of.lab.s..contracted.for.the.experiment,labsContracted,Registered.Report.protocol,Experiment.description,Original.sample.number..reported.,Replication.sample.number..power.,Replication.sample.number..reported.,Replication.experiment.attempted,Replication.experiment.completed,If.experiment.incomplete..why.,changesNeededRaw,If.modifications.were.needed.for.experiment.to.proceed..what.were.they.,changesSuccess,If.modifications.unable.to.be.fully.implemented..why.,Replication.study.figure,Were.materials.shippped.between.replicating.labs.,If.a.material.was.shipped.between.replicating.labs..what.was.it.,Was.the.original.experiment.blinded.,Was.the.replication.experiment.blinded.,Was.the.original.experiment.randomized.,Was.the.replication.experiment.randomized.,Was.the.original.experiment.sample.size.determined.a.priori.,Was.the.replication.experiment.sample.size.determined.a.priori.,Was.a.statistical.test.reported.in.the.original.paper..y,What.statistical.test.s..was.reported.,Was.variation.of.biological.repeats.reported.in.the.original.experiment.,Notes.y,Original.paper.title,Year,Original.paper.journal,Number.of.original.authors,OSF.project.link,Draft.protocol.shared.with.original.authors.date,Budget.per.paper.at.project.onset.when.originally.identified.by.RP.CB.team,Anticipated.budget.when.Registered.Report.manuscript.ready.for.submission.to.eLife,Anticipated.budget.when.Registered.Report.accepted.and.published.in.eLife,Actual.budget.at.completion.of.replication.attempt,Registered.Report.submission.date,Registered.Report.acceptance.date,Link.to.Registered.Report,Experimental.work.start.date,Experimental.work.end.date,Replication.study.fully.completed,If.Replication.study.incomplete..why.,Replication.study.submission.date,Replication.study.acceptance.date,Link.to.Replication.study,Did.original.authors.respond.to.any.emails.,Did.the.original.paper.have.a.potential.conflict.of.issue.statement.,Did.the.replication.study.have.a.potential.conflict.of.issue.statement.,Number.of.lab.s..contracted.for.the.entire.paper,Contracted.lab.s..for.the.entire.paper,Notes,repSignif,origSignif,changes,changes_a..GTE.moderate.success,changes_b..LT.moderate.success,changes_c..No.changes.needed,materialsShared,materialsShared_a.No,materialsShared_b.Yes,materialsShared_c..Not.requested,hasCROLab,hasCoreLab,expAnimal,quantPair,peoID,nInternal,peID,origES2,ES2type,origESLo2,origESHi2,repES2,repESLo2,repESHi2,origSE2,repSE2,origVar2,repVar2,origES3,origESLo3,origESHi3,repES3,repESLo3,repESHi3,origSE3,repSE3,origVar3,repVar3
+2,2,2,2,1,2,1,1,DU145 cell proliferation between siLuc and siPTEN,Positive,Null-positive,6,10,No,,contrast of between-subjects ANOVA,t,17.07533,,8,1.405839e-07,contrast of between-subjects ANOVA,t,0.3848225,,16,0.7054361,No,,,,,,,Cohen's d,15.55022,6.807295,5.257552,26.05874,0.2433831,0.7103716,-1.009143,1.481106,0.4082767,-0.9765064,1.79306,0.5633602,Null-positive,contrast of between-subjects ANOVA,t,17.07533,,8,1.405839e-07,contrast of between-subjects ANOVA,t,0.3848225,,16,0.7054361,,,,,,Cohen's d,15.55022,6.807295,5.257552,26.05874,0.2433831,0.7103716,-1.009143,1.481106,0.4082767,-0.9765064,1.79306,0.5633602,,2F,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),microscopy (bright-field, fluorescence)","cell,immuno",1,CRO1,2.0,DU145 cell proliferation after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,0,,6,,1.0,No,,No,No,No,No,No,Yes,No,,Yes,,A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,FALSE,FALSE,TRUE,p1e2o1,1,p1e2,15.55022,Cohen's d,5.257552,26.05874,0.2433831,-1.009143,1.481106,6.807295,0.635279275446581,46.339265217025,0.403579757811934,15.55022,5.257552,26.05874,0.2433831,-1.009143,1.481106,5.30652301880982,0.635279275446582,28.1591865491584,0.403579757811934
+3,3,3,3,1,2,2,1,DU145 cell proliferation between siLuc and siPTENP1,Positive,Positive,6,10,No,,contrast of between-subjects ANOVA,t,6.757534,,8,0.0001439379,contrast of between-subjects ANOVA,t,2.733096,,16,0.0147371,No,,,,,,,Cohen's d,6.153975,2.846206,1.768501,10.52976,1.728561,0.8564062,0.1992304,3.185692,2.095962,0.4886227,3.703302,0.01059493,Positive,contrast of between-subjects ANOVA,t,6.757534,,8,0.0001439379,contrast of between-subjects ANOVA,t,2.733096,,16,0.0147371,,,,,,Cohen's d,6.153975,2.846206,1.768501,10.52976,1.728561,0.8564062,0.1992304,3.185692,2.095962,0.4886227,3.703302,0.01059493,,2F,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),microscopy (bright-field, fluorescence)","cell,immuno",1,CRO1,2.0,DU145 cell proliferation after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,0,,6,,1.0,No,,No,No,No,No,No,Yes,No,,Yes,,A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,FALSE,FALSE,TRUE,p1e2o2,1,p1e2,6.153975,Cohen's d,1.768501,10.52976,1.728561,0.1992304,3.185692,2.846206,0.761866448454367,8.100888594436,0.58044048528047,6.153975,1.768501,10.52976,1.728561,0.1992304,3.185692,2.23505612070112,0.761866448454367,4.99547586268353,0.58044048528047
+4,4,4,4,1,2,3,1,DU145 cell proliferation between siLuc and siPTEN+siPTENP1,Positive,Positive,6,10,No,,contrast of between-subjects ANOVA,t,25.52191,,8,5.954225e-09,contrast of between-subjects ANOVA,t,2.897103,,16,0.01050397,No,,,,,,,Cohen's d,23.24239,10.11381,7.984998,37.9749,1.832289,0.8730909,0.2738955,3.317114,1.990663,0.2857768,3.695548,0.02210856,Positive,contrast of between-subjects ANOVA,t,25.52191,,8,5.954225e-09,contrast of between-subjects ANOVA,t,2.897103,,16,0.01050397,,,,,,Cohen's d,23.24239,10.11381,7.984998,37.9749,1.832289,0.8730909,0.2738955,3.317114,1.990663,0.2857768,3.695548,0.02210856,,2F,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),microscopy (bright-field, fluorescence)","cell,immuno",1,CRO1,2.0,DU145 cell proliferation after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,0,,6,,1.0,No,,No,No,No,No,No,Yes,No,,Yes,,A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,FALSE,FALSE,TRUE,p1e2o3,1,p1e2,23.24239,Cohen's d,7.984998,37.9749,1.832289,0.2738955,3.317114,10.11381,0.77634551553103,102.2891527161,0.602712359485141,23.24239,7.984998,37.9749,1.832289,0.2738955,3.317114,7.6506257861258,0.77634551553103,58.532074919333,0.602712359485141
+5,5,5,5,1,2,4,1,DU145 cell proliferation between siPTEN+siPTENP1 and siPTEN,Positive,Positive,6,10,No,,contrast of between-subjects ANOVA,t,8.446582,,8,2.947534e-05,contrast of between-subjects ANOVA,t,2.51228,,16,0.02309614,No,,,,,,,Cohen's d,7.692164,3.47768,2.372797,13.04715,1.588906,0.8350066,0.09712672,3.010802,1.921581,0.3302259,3.512935,0.0179484,Positive,contrast of between-subjects ANOVA,t,8.446582,,8,2.947534e-05,contrast of between-subjects ANOVA,t,2.51228,,16,0.02309614,,,,,,Cohen's d,7.692164,3.47768,2.372797,13.04715,1.588906,0.8350066,0.09712672,3.010802,1.921581,0.3302259,3.512935,0.0179484,,2F,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),microscopy (bright-field, fluorescence)","cell,immuno",1,CRO1,2.0,DU145 cell proliferation after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,0,,6,,1.0,No,,No,No,No,No,No,Yes,No,,Yes,,A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,FALSE,FALSE,TRUE,p1e2o4,1,p1e2,7.692164,Cohen's d,2.372797,13.04715,1.588906,0.09712672,3.010802,3.47768,0.743298168482355,12.0942581824,0.552492167269223,7.692164,2.372797,13.04715,1.588906,0.09712672,3.010802,2.72309927228203,0.743298168482355,7.4152696467029,0.552492167269223
+6,6,6,6,1,2,5,1,DU145 cell proliferation between siPTEN+siPTENP1 and siPTENP1,Positive,Null-positive,6,10,No,,contrast of between-subjects ANOVA,t,18.76438,,8,6.720672e-08,contrast of between-subjects ANOVA,t,0.1640072,,16,0.8717794,No,,,,,,,Cohen's d,17.08841,7.466766,5.806536,28.61677,0.1037272,0.7077009,-1.140048,1.341146,0.2549468,-1.125933,1.635827,0.7174559,Null-positive,contrast of between-subjects ANOVA,t,18.76438,,8,6.720672e-08,contrast of between-subjects ANOVA,t,0.1640072,,16,0.8717794,,,,,,Cohen's d,17.08841,7.466766,5.806536,28.61677,0.1037272,0.7077009,-1.140048,1.341146,0.2549468,-1.125933,1.635827,0.7174559,,2F,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),microscopy (bright-field, fluorescence)","cell,immuno",1,CRO1,2.0,DU145 cell proliferation after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,0,,6,,1.0,No,,No,No,No,No,No,Yes,No,,Yes,,A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,FALSE,FALSE,TRUE,p1e2o5,1,p1e2,17.08841,Cohen's d,5.806536,28.61677,0.1037272,-1.140048,1.341146,7.466766,0.632969284020355,55.752594498756,0.400650114513241,17.08841,5.806536,28.61677,0.1037272,-1.140048,1.341146,5.81904417120014,0.632969284020355,33.8612750663783,0.400650114513241
+7,7,7,7,1,3,1,1,PTEN mRNA expression between siLuc and siPTEN,Positive,Positive,6,10,Yes,Student's t test,Welch's t test,t,5.949749,,2.271316,0.01991732,Student's t test,t,4.625078,,8,0.001698913,No,,,,,,,Glass' delta,3.550201,1.95388,0.01023859,7.121244,2.113865,0.9790572,0.1901405,3.943944,2.402128,0.686541,4.117715,0.006064023,Positive,Welch's t test,t,5.949749,,2.271316,0.01991732,Student's t test,t,4.625078,,8,0.001698913,,,,,,Glass' delta,3.550201,1.95388,0.01023859,7.121244,2.113865,0.9790572,0.1901405,3.943944,2.402128,0.686541,4.117715,0.006064023,"methods state unpaired t-test, assumed to be Student's t-test",2G,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,RNA extraction,qRT-PCR,microscopy (bright-field, fluorescence)","cell,immuno,molecular",2,"Core1,CRO1",3.0,PTEN and PTENP1 mRNA expression after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,2,Melting curves for PTEN and PTENP1 were inconsisent and required repeating measuring,5,,2.0,Yes,RNA,No,No,No,No,No,Yes,Yes,Student's t test,Yes,"methods state unpaired t-test, assumed to be Student's t-test",A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,FALSE,TRUE,p1e3o1,1,p1e3,3.550201,Glass' delta,0.01023859,7.121244,2.113865,0.1901405,3.943944,1.95388,0.957620530175433,3.8176470544,0.917037079813477,3.550201,0.01023859,7.121244,2.113865,0.1901405,3.943944,1.81406532622301,0.957620530175433,3.29083300780459,0.917037079813477
+8,8,8,8,1,3,2,1,PTEN mRNA expression between siLuc and siPTENP1,Positive,Null-positive,6,10,Yes,Student's t test,Welch's t test,t,4.069874,,2.470459,0.03834298,Student's t test,t,0.5771,,8,0.5797451,No,,,,,,,Glass' delta,2.485944,1.48716,-0.3100871,5.194378,0.3524805,0.6446164,-0.9296733,1.593941,0.6899221,-0.4692893,1.8491335,0.2434115,Null-positive,Welch's t test,t,4.069874,,2.470459,0.03834298,Student's t test,t,0.5771,,8,0.5797451,,,,,,Glass' delta,2.485944,1.48716,-0.3100871,5.194378,0.3524805,0.6446164,-0.9296733,1.593941,0.6899221,-0.4692893,1.8491335,0.2434115,"methods state unpaired t-test, assumed to be Student's t-test",2G,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,RNA extraction,qRT-PCR,microscopy (bright-field, fluorescence)","cell,immuno,molecular",2,"Core1,CRO1",3.0,PTEN and PTENP1 mRNA expression after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,2,Melting curves for PTEN and PTENP1 were inconsisent and required repeating measuring,5,,2.0,Yes,RNA,No,No,No,No,No,Yes,Yes,Student's t test,Yes,"methods state unpaired t-test, assumed to be Student's t-test",A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,FALSE,TRUE,p1e3o2,1,p1e3,2.485944,Glass' delta,-0.3100871,5.194378,0.3524805,-0.9296733,1.593941,1.48716,0.643790987973746,2.2116448656,0.414466836196211,2.485944,-0.3100871,5.194378,0.3524805,-0.9296733,1.593941,1.40422608359606,0.643790987973745,1.97185089385152,0.414466836196211
+9,9,9,9,1,3,3,1,PTEN mRNA expression between siLuc and siPTEN+siPTENP1,Positive,Positive,6,10,Yes,Student's t test,Welch's t test,t,5.420708,,2.288098,0.02393541,Student's t test,t,4.299836,,8,0.002616336,No,,,,,,,Glass' delta,3.240964,1.81456,-0.07688066,6.554284,2.056528,0.9636718,0.1604913,3.857627,2.317098,0.6489831,3.9852124,0.006479168,Positive,Welch's t test,t,5.420708,,2.288098,0.02393541,Student's t test,t,4.299836,,8,0.002616336,,,,,,Glass' delta,3.240964,1.81456,-0.07688066,6.554284,2.056528,0.9636718,0.1604913,3.857627,2.317098,0.6489831,3.9852124,0.006479168,"methods state unpaired t-test, assumed to be Student's t-test",2G,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,RNA extraction,qRT-PCR,microscopy (bright-field, fluorescence)","cell,immuno,molecular",2,"Core1,CRO1",3.0,PTEN and PTENP1 mRNA expression after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,2,Melting curves for PTEN and PTENP1 were inconsisent and required repeating measuring,5,,2.0,Yes,RNA,No,No,No,No,No,Yes,Yes,Student's t test,Yes,"methods state unpaired t-test, assumed to be Student's t-test",A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,FALSE,TRUE,p1e3o3,1,p1e3,3.240964,Glass' delta,-0.07688066,6.554284,2.056528,0.1604913,3.857627,1.81456,0.943164193108275,3.2926279936,0.889558695161584,3.240964,-0.07688066,6.554284,2.056528,0.1604913,3.857627,1.6916547223076,0.943164193108275,2.8616956995056,0.889558695161584
+10,10,10,10,1,3,4,1,PTENP1 mRNA expression between siLuc and siPTEN,Positive,Null-positive,6,10,Yes,Student's t test,Student's t test,t,4.303794,,4,0.01260772,Student's t test,t,0.81783,,8,0.4371327,No,,,,,,,Cohen's d,3.514033,1.820805,0.6315354,6.298304,0.5172411,0.721735,-0.7623987,1.766394,0.9241595,-0.3908741,2.2391931,0.1683905,Null-positive,Student's t test,t,4.303794,,4,0.01260772,Student's t test,t,0.81783,,8,0.4371327,,,,,,Cohen's d,3.514033,1.820805,0.6315354,6.298304,0.5172411,0.721735,-0.7623987,1.766394,0.9241595,-0.3908741,2.2391931,0.1683905,"methods state unpaired t-test, assumed to be Student's t-test; Cohen's d is used here while the Replication study reported Glass' delta",2G,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,RNA extraction,qRT-PCR,microscopy (bright-field, fluorescence)","cell,immuno,molecular",2,"Core1,CRO1",3.0,PTEN and PTENP1 mRNA expression after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,2,Melting curves for PTEN and PTENP1 were inconsisent and required repeating measuring,5,,2.0,Yes,RNA,No,No,No,No,No,Yes,Yes,Student's t test,Yes,"methods state unpaired t-test, assumed to be Student's t-test",A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,FALSE,TRUE,p1e3o4,1,p1e3,3.514033,Cohen's d,0.6315354,6.298304,0.5172411,-0.7623987,1.766394,1.820805,0.645112032656415,3.315330848025,0.416169534678091,3.514033,0.6315354,6.298304,0.5172411,-0.7623987,1.766394,1.44563079849904,0.645112032656415,2.08984840556898,0.416169534678091
+11,11,11,11,1,3,5,1,PTENP1 mRNA expression between siLuc and siPTENP1,Positive,Positive,6,10,Yes,Student's t test,Student's t test,t,6.984537,,4,0.00221037,Student's t test,t,3.550234,,8,0.007506881,No,,,,,,,Cohen's d,5.702851,2.664201,1.585428,9.796224,2.245365,0.9454523,0.5624174,3.851844,2.632081,0.8857317,4.3784303,0.003136443,Positive,Student's t test,t,6.984537,,4,0.00221037,Student's t test,t,3.550234,,8,0.007506881,,,,,,Cohen's d,5.702851,2.664201,1.585428,9.796224,2.245365,0.9454523,0.5624174,3.851844,2.632081,0.8857317,4.3784303,0.003136443,"methods state unpaired t-test, assumed to be Student's t-test; Cohen's d is used here while the Replication study reported Glass' delta",2G,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,RNA extraction,qRT-PCR,microscopy (bright-field, fluorescence)","cell,immuno,molecular",2,"Core1,CRO1",3.0,PTEN and PTENP1 mRNA expression after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,2,Melting curves for PTEN and PTENP1 were inconsisent and required repeating measuring,5,,2.0,Yes,RNA,No,No,No,No,No,Yes,Yes,Student's t test,Yes,"methods state unpaired t-test, assumed to be Student's t-test",A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,FALSE,TRUE,p1e3o5,1,p1e3,5.702851,Cohen's d,1.585428,9.796224,2.245365,0.5624174,3.851844,2.664201,0.839154858442956,7.097966968401,0.704180876448417,5.702851,1.585428,9.796224,2.245365,0.5624174,3.851844,2.09462930563156,0.839154858442956,4.38747192801056,0.704180876448417
+12,12,12,12,1,3,6,1,PTENP1 mRNA expression between siLuc and siPTEN+siPTENP1,Positive,Positive,6,10,Yes,Student's t test,Student's t test,t,4.014579,,4,0.01593591,Student's t test,t,2.556429,,8,0.03383443,No,,,,,,,Cohen's d,3.27789,1.736262,0.5188403,5.931193,1.616828,0.8391836,0.1176913,3.045573,1.93138,0.4505105,3.4122502,0.01058148,Positive,Student's t test,t,4.014579,,4,0.01593591,Student's t test,t,2.556429,,8,0.03383443,,,,,,Cohen's d,3.27789,1.736262,0.5188403,5.931193,1.616828,0.8391836,0.1176913,3.045573,1.93138,0.4505105,3.4122502,0.01058148,"methods state unpaired t-test, assumed to be Student's t-test; Cohen's d is used here while the Replication study reported Glass' delta",2G,Yes,No,No,Yes,2,2,0,0,,,,Cell-based,"transfection (siRNA),cell culture,RNA extraction,qRT-PCR,microscopy (bright-field, fluorescence)","cell,immuno,molecular",2,"Core1,CRO1",3.0,PTEN and PTENP1 mRNA expression after PTEN and/or PTENP1 knockdown,3.0,5,5,Yes,Yes,,2,Melting curves for PTEN and PTENP1 were inconsisent and required repeating measuring,5,,2.0,Yes,RNA,No,No,No,No,No,Yes,Yes,Student's t test,Yes,"methods state unpaired t-test, assumed to be Student's t-test",A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,FALSE,TRUE,p1e3o6,1,p1e3,3.27789,Cohen's d,0.5188403,5.931193,1.616828,0.1176913,3.045573,1.736262,0.746922321811716,3.014605732644,0.557892954820605,3.27789,0.5188403,5.931193,1.616828,0.1176913,3.045573,1.38072759058124,0.746922321811716,1.90640867939228,0.557892954820605
+18,18,18,18,1,5,1,1,PTENP1 mRNA expression between pCMV and PTEN 3'UTR,Positive,Null-negative,6,6,Yes,Student's t test,Student's t test,t,5.603317864,,4,0.004981447,Student's t test,t,-0.4572643,,4,0.6712144,No,,,,,,,Cohen's d,4.57509,2.219154,1.110656,7.977567,-0.3733547,1.012984,-1.971197,1.268137,0.4799412,-1.326197,2.28608,0.6024943,Null-negative,Student's t test,t,5.603317864,,4,0.004981447,Student's t test,t,-0.4572643,,4,0.6712144,,,,,,Cohen's d,4.57509,2.219154,1.110656,7.977567,-0.3733547,1.012984,-1.971197,1.268137,0.4799412,-1.326197,2.28608,0.6024943,"methods state unpaired t-test, assumed to be Student's t-test",4A(left),Yes,Yes,Yes,Yes,2,2,0,0,Plasmids,Plasmids,No,Cell-based,"transfection (plasmid),cell culture,RNA extraction,qRT-PCR","cell,molecular",3,"Core1,CRO2,CRO3",5.0,PTENP1 mRNA expression after PTEN 3'UTR expression,3.0,3,3,Yes,Yes,,3,"Melting curves for PTEN and PTENP1 were inconsisent and required repeating measuring; Plasmids were going to be shared, but ended up not, so plasmids were remade during replication",5,,4.0,Yes,"Plasmid,RNA",No,No,No,No,No,Yes,Yes,Student's t test,Yes,"methods state unpaired t-test, assumed to be Student's t-test",A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,TRUE,FALSE,TRUE,p1e5o1,1,p1e5,4.57509,Cohen's d,1.110656,7.977567,-0.3733547,-1.971197,1.268137,2.219154,0.826375899136784,4.924644475716,0.682897126674128,4.57509,1.110656,7.977567,-0.3733547,-1.971197,1.268137,1.75179519985197,0.826375899136784,3.06878642222439,0.682897126674128
+19,19,19,19,1,6,1,1,DU145 cell proliferation between pCMV and PTEN 3'UTR,Positive,Positive,6,6,No,,Student's t test,t,19.85322,,4,3.797672e-05,Student's t test,t,9.248205,,4,0.000759987,No,,,,,,,Cohen's d,16.21008,7.090048,5.49337,27.15589,7.551127,3.419234,2.318417,12.81552,9.652992,2.376767,16.929217,0.009317403,Positive,Student's t test,t,19.85322,,4,3.797672e-05,Student's t test,t,9.248205,,4,0.000759987,,,,,,Cohen's d,16.21008,7.090048,5.49337,27.15589,7.551127,3.419234,2.318417,12.81552,9.652992,2.376767,16.929217,0.009317403,,4A(right),Yes,Yes,Yes,Yes,2,2,0,0,Plasmids,Plasmids,No,Cell-based,"transfection (plasmid),cell culture,cell proliferation/viability assay (Crystal violet)",cell,2,"CRO2,CRO3",6.0,DU145 cell proliferation after PTEN 3'UTR expression,3.0,3,3,Yes,Yes,,1,"Plasmids were going to be shared, but ended up not, so plasmids were remade during replication",5,,5.0,Yes,Plasmid,No,No,No,No,No,Yes,No,,Yes,,A coding-independent function of gene and pseudogene mRNAs regulates tumour biology.,2010,Nature,6,https://osf.io/yyqas/,2014-10-14,25000,15150,27845,70193.21,42115,42224,https://elifesciences.org/articles/08245,42247,43471,Partial,It was identified after results were obtained that the si-miR-19b adn si-miR-20a reagents listed in the Registered Report and used in the replication experiment were incorrect. The catalog numbers listed were for microRNA hairpin inhibitors not microRNA mimics.,43689,43881,https://elifesciences.org/articles/51019,Yes,Yes,Yes,4,"Core1,CRO1,CRO2,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p1e6o1,1,p1e6,16.21008,Cohen's d,5.49337,27.15589,7.551127,2.318417,12.81552,7.090048,2.67788160466208,50.268780642304,7.17104988858755,16.21008,5.49337,27.15589,7.551127,2.318417,12.81552,5.52625460744973,2.67788160466208,30.5394899863594,7.17104988858755
+41,41,41,41,5,1,1,1,Tie2 expression in GSC83 vs HMVEC cells,Positive,Positive,4,5,No,,contrast of between-subjects ANOVA,t,69.32522,,3,6.614115e-06,contrast of between-subjects ANOVA,t,2.757139,,5,0.03997007,No,,,,,,,Cohen's d,83.68295,59.18968,13.27957,155.2538,2.516912,1.774421,-0.1761535,5.0607545,2.589792,-0.8864471,6.066031,0.1442434,Positive,contrast of between-subjects ANOVA,t,69.32522,,3,6.614115e-06,contrast of between-subjects ANOVA,t,2.757139,,5,0.03997007,,,,,,Cohen's d,83.68295,59.18968,13.27957,155.2538,2.516912,1.774421,-0.1761535,5.0607545,2.589792,-0.8864471,6.066031,0.1442434,,S11C,Yes,Yes,Yes,Yes,2,5,2,0,Cells,Cells,Cells,Cell-based,"cell isolation,cell culture,RNA extraction,RT-PCR","cell,molecular",1,CRO6,1.0,"Tie2 expression in GSC83, U87MG, and HVEC cells",2.0,3,3,Yes,Yes,,0,,6,,,No,,,,,,,,No,,Yes,,Tumour vascularization via endothelial differentiation of glioblastoma stem-like cells,2010,Nature,11,https://osf.io/mpyvx/,2014-05-09,25000,43011.25,45205.51,49442.97,41865,42031,https://elifesciences.org/articles/04363,42031,42902,Partial,Expression of reporter cells at 80% or greater could not be reliably generated,,,Partial,Yes,Yes,,2,"CRO6,CRO7",,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p5e1o1,1,p5e1,83.68295,Cohen's d,13.27957,155.2538,2.516912,-0.1761535,5.0607545,59.18968,1.33597046713819,3503.4182185024,1.78481708906543,83.68295,13.27957,155.2538,2.516912,-0.1761535,5.0607545,36.218581341258,1.33597046713819,1311.78563437332,1.78481708906543
+42,42,42,42,5,1,2,1,Tie2 expression in U87MG vs HMVEC cells,Positive,Positive,4,6,No,,contrast of between-subjects ANOVA,t,70.23696,,3,6.359994e-06,contrast of between-subjects ANOVA,t,3.06384,,5,0.02797935,No,,,,,,,Cohen's d,84.78352,59.96768,13.45515,157.295,2.501615,1.474242,0.1266746,4.750934,2.551313,-0.3372749,5.4399017,0.08343102,Positive,contrast of between-subjects ANOVA,t,70.23696,,3,6.359994e-06,contrast of between-subjects ANOVA,t,3.06384,,5,0.02797935,,,,,,Cohen's d,84.78352,59.96768,13.45515,157.295,2.501615,1.474242,0.1266746,4.750934,2.551313,-0.3372749,5.4399017,0.08343102,,S11C,Yes,Yes,Yes,Yes,2,5,2,0,Cells,Cells,Cells,Cell-based,"cell isolation,cell culture,RNA extraction,RT-PCR","cell,molecular",1,CRO6,1.0,"Tie2 expression in GSC83, U87MG, and HVEC cells",2.0,3,3,Yes,Yes,,0,,6,,,No,,,,,,,,No,,Yes,,Tumour vascularization via endothelial differentiation of glioblastoma stem-like cells,2010,Nature,11,https://osf.io/mpyvx/,2014-05-09,25000,43011.25,45205.51,49442.97,41865,42031,https://elifesciences.org/articles/04363,42031,42902,Partial,Expression of reporter cells at 80% or greater could not be reliably generated,,,Partial,Yes,Yes,,2,"CRO6,CRO7",,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p5e1o2,1,p5e1,84.78352,Cohen's d,13.45515,157.295,2.501615,0.1266746,4.750934,59.96768,1.17967968709516,3596.1226445824,1.39164416414494,84.78352,13.45515,157.295,2.501615,0.1266746,4.750934,36.6945135560118,1.17967968709516,1346.48732511234,1.39164416414494
+43,43,43,43,5,1,3,1,Tie2 expression in GSC83 vs U87MG cells,Null,Null-negative,4,5,No,,contrast of between-subjects ANOVA,t,0.9117415,,3,0.4291293,contrast of between-subjects ANOVA,t,-0.01675784,,5,0.9872779,No,,,,,,,Cohen's d,1.100569,1.614195,-1.193241,3.20752,-0.01529775,1.178539,-1.803326,1.775138,0.3726999,-1.492874,2.238274,0.6953856,Null-negative,contrast of between-subjects ANOVA,t,0.9117415,,3,0.4291293,contrast of between-subjects ANOVA,t,-0.01675784,,5,0.9872779,,,,,,Cohen's d,1.100569,1.614195,-1.193241,3.20752,-0.01529775,1.178539,-1.803326,1.775138,0.3726999,-1.492874,2.238274,0.6953856,,S11C,Yes,Yes,Yes,Yes,2,5,2,0,Cells,Cells,Cells,Cell-based,"cell isolation,cell culture,RNA extraction,RT-PCR","cell,molecular",1,CRO6,1.0,"Tie2 expression in GSC83, U87MG, and HVEC cells",2.0,3,3,Yes,Yes,,0,,6,,,No,,,,,,,,No,,Yes,,Tumour vascularization via endothelial differentiation of glioblastoma stem-like cells,2010,Nature,11,https://osf.io/mpyvx/,2014-05-09,25000,43011.25,45205.51,49442.97,41865,42031,https://elifesciences.org/articles/04363,42031,42902,Partial,Expression of reporter cells at 80% or greater could not be reliably generated,,,Partial,Yes,Yes,,2,"CRO6,CRO7",,FALSE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p5e1o3,1,p5e1,1.100569,Cohen's d,-1.193241,3.20752,-0.01529775,-1.803326,1.775138,1.614195,0.912890243960213,2.605625498025,0.833368597517737,1.100569,-1.193241,3.20752,-0.01529775,-1.803326,1.775138,1.1226637414546,0.912890243960213,1.26037387637684,0.833368597517737
+46,46,46,46,6,1,1,1,Colony number of GNAO1-WT HMEC cells vs GNAO1-R243H HMEC cells,Positive,Positive,4,6,Yes,Student's t test,Student's t test,t,6.409596,,2,0.02348687,Student's t test,t,5.288382,,4,0.006135204,No,,,,,,,Cohen's d,6.409596,4.747785,0.5256721,12.56598,4.317946,2.120347,0.9980206,7.567011,4.665753,0.8711692,8.4603375,0.01595528,Positive,Student's t test,t,6.409596,,2,0.02348687,Student's t test,t,5.288382,,4,0.006135204,,,,,,Cohen's d,6.409596,4.747785,0.5256721,12.56598,4.317946,2.120347,0.9980206,7.567011,4.665753,0.8711692,8.4603375,0.01595528,Sample size of original study shared by original authors,"3D,3E,3F",Yes,Yes,Yes,Yes,3,0,2,0,Plasmids,No,No,Cell-based,"viral transduction,cell culture,FACS,Western blot assay,soft agar assay,microscopy (bright-field)","cell,immuno",1,CRO8,"1,2,3",Anchorage-independent colony formation in HMEC cells expressing wild-type GNAO1 or GNAO1-R243H mutant,2.0,3,3,Yes,Yes,,0,,6,,,No,,,,,,,,Yes,Student's t test,Yes,,Diverse somatic mutation patterns and pathway alterations in human cancers.,2010,Nature,32,https://osf.io/jpeqg/,2015-01-21,25000,27535.8,27535.8,64420.8,42262,42377,https://elifesciences.org/articles/11566,42391,43429,Partial,Colonies could not be reliably detected; Inefficiency of IP and/or expression,,,Partial,Yes,Yes,,2,"CRO8,Core2",,TRUE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,TRUE,FALSE,FALSE,TRUE,p6e1o1,1,p6e1,6.409596,Cohen's d,0.5256721,12.56598,4.317946,0.9980206,7.567011,4.747785,1.67579365024443,22.541462406225,2.80828435819956,6.409596,0.5256721,12.56598,4.317946,0.9980206,7.567011,3.07156355804811,1.67579365024443,9.43450269112917,2.80828435819956
+85,85,85,85,9,2,1,1,Clonogenic frequency between TOP-GFPlow vs TOP-GFPhigh (450 culture),Positive,Positive,18,18,No,,Chi-square test,chi-squared,173.4734,,1,1.290018e-39,Chi-square test,chi-squared,39.7963,,1,2.818784e-10,No,,,,,,,Cohen's w,0.9505299,0.0727393,0.9347403,0.962573,0.4552718,0.0727393,0.335279,0.5607297,0.586604,0.5378953,0.6314089,2.488411e-76,Positive,Student's t test,t,4.107667,,16,0.0008232143,Student's t test,t,3.503404,,16,0.000143363168048527,,,,,,Cohen's d,1.936373,0.6179156,0.7779388,3.05504,1.65152,0.5881236,0.5485481,2.717153,1.296639,0.7456893,1.847588,3.974687e-06,"methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies, but unclear if this was done in original study; effect size recalculated for meta-analysis",6D,Yes,Yes,Yes,Yes,3,3,0,3,Cells,Cells,Cells,Cell-based,"viral transduction,cell culture,cell isolation,FACS,microscopy (fluorescence)","cell,immuno",2,"CRO11,CRO12","1,3",Clonogenicity of TOP-GFP CSC cultures,18.0,18,18,Yes,Yes,,1,"CSCs were going to be generated, but one ended up needing to be commercially sourced due to low efficiency rate",5,,2.0,Yes,Cells,,,,,,,Yes,Chi-square test,Yes,"Methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies.",Wnt activity defines colon cancer stem cells and is regulated by the microenvironment.,2010,Nature Cell Biology,15,https://osf.io/pgjhx/,2014-09-17,25000,25500,70500,126870,42066,42217,https://elifesciences.org/articles/07301,42251,43271,Yes,,43488,43623,https://elifesciences.org/articles/45426,Yes,Yes,Yes,3,"CRO11,CRO12,CRO13",,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p9e2o1,3,p9e2,1.936373,Cohen's d,0.7779388,3.05504,1.65152,0.5485481,2.717153,0.6179156,0.553225701366372,0.38181968872336,0.306058676652314,1.936373,0.7779388,3.05504,1.13013910387278,0.5485481,2.717153,0.580903837509639,0.297225692862897,0.337449268433425,0.0883431124978295
+88,88,88,88,9,2,2,1,Clonogenic frequency between TOP-GFPlow vs TOP-GFPlow + HGF (450 culture),Positive,Null-positive,18,18,No,,Chi-square test,chi-squared,114.1497,,1,1.20834e-26,Chi-square test,chi-squared,1.485805,,1,0.2228685,No,,,,,,,Cohen's w,0.7710575,0.0727393,0.7066017,0.8228232,0.08796912,0.0727393,-0.0543158,0.2267527,0.339895,0.2753935,0.4013499,2.187719e-22,Positive,Student's t test,t,3.837212,,16,0.001454008,Student's t test,t,1.098149,,16,0.0283954092710823,,,,,,Cohen's d,1.808879,0.6041794,0.6759369,2.903011,0.5176725,0.5093342,-0.4309751,1.450844,0.8528067,0.3269738,1.37864,0.001479319,"methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies, but unclear if this was done in original study; effect size recalculated for meta-analysis",6D,Yes,Yes,Yes,Yes,3,3,0,3,Cells,Cells,Cells,Cell-based,"viral transduction,cell culture,cell isolation,FACS,microscopy (fluorescence)","cell,immuno",2,"CRO11,CRO12","1,3",Clonogenicity of TOP-GFP CSC cultures,18.0,18,18,Yes,Yes,,1,"CSCs were going to be generated, but one ended up needing to be commercially sourced due to low efficiency rate",5,,2.0,Yes,Cells,,,,,,,Yes,Chi-square test,Yes,"Methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies.",Wnt activity defines colon cancer stem cells and is regulated by the microenvironment.,2010,Nature Cell Biology,15,https://osf.io/pgjhx/,2014-09-17,25000,25500,70500,126870,42066,42217,https://elifesciences.org/articles/07301,42251,43271,Yes,,43488,43623,https://elifesciences.org/articles/45426,Yes,Yes,Yes,3,"CRO11,CRO12,CRO13",,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p9e2o2,3,p9e2,1.808879,Cohen's d,0.6759369,2.903011,0.5176725,-0.4309751,1.450844,0.6041794,0.480064714158921,0.36503274738436,0.230462129780486,1.808879,0.6759369,2.903011,0.618418336120597,-0.4309751,1.450844,0.568141587694181,0.282153495448379,0.322784863667665,0.0796105949937382
+91,91,91,91,9,2,3,1,Clonogenic frequency between TOP-GFPlow vs TOP-GFPlow + MFCM (450 culture),Positive,Null-positive,18,18,No,,Chi-square test,chi-squared,101.8046,,1,6.127699e-24,Chi-square test,chi-squared,1.959781,,1,0.1615367,No,,,,,,,Cohen's w,0.7281706,0.0727393,0.6539994,0.7884753,0.1010307,0.0727393,-0.0411666,0.2392165,0.3763132,0.3135471,0.4358053,1.41163e-27,Positive,Student's t test,t,3.827803,,16,0.001483146,Student's t test,t,1.160366,,16,0.00153975077343915,,,,,,Cohen's d,1.804444,0.603713,0.6723695,2.897745,0.5470018,0.5104108,-0.4040087,1.481726,1.103265,0.5646868,1.641843,5.946052e-05,"methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies, but unclear if this was done in original study; effect size recalculated for meta-analysis",6D,Yes,Yes,Yes,Yes,3,3,0,3,Cells,Cells,Cells,Cell-based,"viral transduction,cell culture,cell isolation,FACS,microscopy (fluorescence)","cell,immuno",2,"CRO11,CRO12","1,3",Clonogenicity of TOP-GFP CSC cultures,18.0,18,18,Yes,Yes,,1,"CSCs were going to be generated, but one ended up needing to be commercially sourced due to low efficiency rate",5,,2.0,Yes,Cells,,,,,,,Yes,Chi-square test,Yes,"Methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies.",Wnt activity defines colon cancer stem cells and is regulated by the microenvironment.,2010,Nature Cell Biology,15,https://osf.io/pgjhx/,2014-09-17,25000,25500,70500,126870,42066,42217,https://elifesciences.org/articles/07301,42251,43271,Yes,,43488,43623,https://elifesciences.org/articles/45426,Yes,Yes,Yes,3,"CRO11,CRO12,CRO13",,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p9e2o3,3,p9e2,1.804444,Cohen's d,0.6723695,2.897745,0.5470018,-0.4040087,1.481726,0.603713,0.481063610064888,0.364469386369,0.231422196928662,1.804444,0.6723695,2.897745,0.920635461932441,-0.4040087,1.481726,0.567708263405215,0.290688546950089,0.322292672338565,0.0844998313279542
+94,94,94,94,9,2,4,1,Clonogenic frequency between TOP-GFPlow + HGF vs TOP-GFPlow + HGF + PHA (450 culture),Positive,Null-positive,18,18,No,,Chi-square test,chi-squared,153.1947,,1,3.473082e-35,Chi-square test,chi-squared,0.3763904,,1,0.5395414,No,,,,,,,Cohen's w,0.8932464,0.0727393,0.8604814,0.9186533,0.04427603,0.0727393,-0.09794637,0.18472612,0.4806511,0.4239907,0.5335636,4.957346e-47,Positive,Student's t test,t,3.849805,,16,0.001415907,Student's t test,t,0.5812176,,16,0.0398687808361173,,,,,,Cohen's d,1.814815,0.604805,0.6807097,2.910062,0.2739886,0.5026322,-0.6589354,1.198508,0.8144881,0.2927061,1.33627,0.00221742,"methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies, but unclear if this was done in original study; effect size recalculated for meta-analysis",6D,Yes,Yes,Yes,Yes,3,3,0,3,Cells,Cells,Cells,Cell-based,"viral transduction,cell culture,cell isolation,FACS,microscopy (fluorescence)","cell,immuno",2,"CRO11,CRO12","1,3",Clonogenicity of TOP-GFP CSC cultures,18.0,18,18,Yes,Yes,,1,"CSCs were going to be generated, but one ended up needing to be commercially sourced due to low efficiency rate",5,,2.0,Yes,Cells,,,,,,,Yes,Chi-square test,Yes,"Methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies.",Wnt activity defines colon cancer stem cells and is regulated by the microenvironment.,2010,Nature Cell Biology,15,https://osf.io/pgjhx/,2014-09-17,25000,25500,70500,126870,42066,42217,https://elifesciences.org/articles/07301,42251,43271,Yes,,43488,43623,https://elifesciences.org/articles/45426,Yes,Yes,Yes,3,"CRO11,CRO12,CRO13",,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p9e2o4,3,p9e2,1.814815,Cohen's d,0.6807097,2.910062,0.2739886,-0.6589354,1.198508,0.604805,0.473846309077941,0.365789088025,0.224530324626788,1.814815,0.6807097,2.910062,0.574232581273047,-0.6589354,1.198508,0.568722771842964,0.279417518985548,0.323445591212744,0.078074149916039
+97,97,97,97,9,2,5,1,Clonogenic frequency between TOP-GFPlow + MFCM vs TOP-GFPlow + MFCM + PHA (450 culture),Positive,Positive,18,18,No,,Chi-square test,chi-squared,185.8525,,1,2.556765e-42,Chi-square test,chi-squared,60.99928,,1,5.709579e-15,No,,,,,,,Cohen's w,0.9838607,0.0727393,0.9785927,0.9878403,0.5636529,0.0727393,0.4586533,0.6531297,0.7481509,0.7150583,0.777898,2.600095e-156,Positive,Student's t test,t,3.093882,,16,0.006968599,Student's t test,t,0.9868876,,16,0.00390299688702811,,,,,,Cohen's d,1.45847,0.5698966,0.3898237,2.492059,0.4652233,0.5075519,-0.4794464,1.39589,0.9694525,0.4421454,1.49676,0.0003140963,"methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies, but unclear if this was done in original study; effect size recalculated for meta-analysis",6D,Yes,Yes,Yes,Yes,3,3,0,3,Cells,Cells,Cells,Cell-based,"viral transduction,cell culture,cell isolation,FACS,microscopy (fluorescence)","cell,immuno",2,"CRO11,CRO12","1,3",Clonogenicity of TOP-GFP CSC cultures,18.0,18,18,Yes,Yes,,1,"CSCs were going to be generated, but one ended up needing to be commercially sourced due to low efficiency rate",5,,2.0,Yes,Cells,,,,,,,Yes,Chi-square test,Yes,"Methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies.",Wnt activity defines colon cancer stem cells and is regulated by the microenvironment.,2010,Nature Cell Biology,15,https://osf.io/pgjhx/,2014-09-17,25000,25500,70500,126870,42066,42217,https://elifesciences.org/articles/07301,42251,43271,Yes,,43488,43623,https://elifesciences.org/articles/45426,Yes,Yes,Yes,3,"CRO11,CRO12,CRO13",,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p9e2o5,3,p9e2,1.45847,Cohen's d,0.3898237,2.492059,0.4652233,-0.4794464,1.39589,0.5698966,0.478410933770318,0.32478213469156,0.228877021550988,1.45847,0.3898237,2.492059,0.82970971685886,-0.4794464,1.39589,0.536294369841019,0.287504950998057,0.287611651123175,0.0826590968483951
+100,100,100,100,9,2,6,1,Clonogenic frequency between TOP-GFPwhole vs TOP-GFPwhole + PHA (450 culture),Null,Negative,18,18,No,,Chi-square test,chi-squared,0.2123054,,1,0.6449664,Chi-square test,chi-squared,68.26947,,1,1.426116e-16,No,,,,,,,Cohen's w,0.03325293,0.0727393,-0.108868,0.1740417,-0.5962971,0.0727393,-0.6804479,-0.496624,-0.0690953,-0.139571734,0.002077624,0.0570616,Null-negative,Student's t test,t,0.3204523,,16,0.7527726,Student's t test,t,-3.122543,,16,0.14644680447576,,,,,,Cohen's d,0.1510626,0.5008016,-0.776664,1.074123,-1.471981,0.5711165,-2.507701,-0.4010245,-0.2702242,-0.8164442,0.2759958,0.3322324,"methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies, but unclear if this was done in original study; effect size recalculated for meta-analysis",6D,Yes,Yes,Yes,Yes,3,3,0,3,Cells,Cells,Cells,Cell-based,"viral transduction,cell culture,cell isolation,FACS,microscopy (fluorescence)","cell,immuno",2,"CRO11,CRO12","1,3",Clonogenicity of TOP-GFP CSC cultures,18.0,18,18,Yes,Yes,,1,"CSCs were going to be generated, but one ended up needing to be commercially sourced due to low efficiency rate",5,,2.0,Yes,Cells,,,,,,,Yes,Chi-square test,Yes,"Methods state statistical significance were evaluated with the ELDA 'limdil' function, which does Chisquare tests for stem cell frequencies.",Wnt activity defines colon cancer stem cells and is regulated by the microenvironment.,2010,Nature Cell Biology,15,https://osf.io/pgjhx/,2014-09-17,25000,25500,70500,126870,42066,42217,https://elifesciences.org/articles/07301,42251,43271,Yes,,43488,43623,https://elifesciences.org/articles/45426,Yes,Yes,Yes,3,"CRO11,CRO12,CRO13",,FALSE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p9e2o6,3,p9e2,0.1510626,Cohen's d,-0.776664,1.074123,-1.471981,-2.507701,-0.4010245,0.5008016,0.537427349843465,0.25080224256256,0.288828156359771,0.1510626,-0.776664,1.074123,-0.458273190146605,-2.507701,-0.4010245,0.472148216650605,0.315572304343434,0.222923938486347,0.0995858792686247
+103,103,103,103,9,3,1,1,Tumorigenicity frequency between TOP-GFPlow vs TOP-GFPhigh (450 culture),Positive,Null-negative,7,8,No,,Chi-square test,chi-squared,65.15276,,1,6.931146e-16,Chi-square test,chi-squared,0.08382449,,1,0.77218,No,,,,,,,Cohen's w,0.999,0.1601282,0.9981275,0.9994661,-0.0511812,0.1856953,-0.3928639,0.3029188,0.9736289,0.9579173,0.983524,8.05178e-71,Null-negative,Student's t test,t,1.40408,,5,0.2192582,Student's t test,t,-0.2262741,,6,0.8284997,,,,,,Cohen's d,1.072384,0.9887708,-0.601404,2.659692,-0.16,0.8182366,-1.542252,1.235199,0.340914,-0.8946131,1.576441,0.588642,effect size recalculated for meta-analysis,7E,Yes,Yes,Yes,Yes,3,3,3,0,Cells,Cells,Cells,Animal,"viral transduction,cell culture,cell isolation,FACS,animal care,animal injection (cells, SC,IP)","cell,immuno,animal",3,"CRO11,CRO12,CRO13","1,4",Tumorigenicity of TOP-GFP CSC culture,66.0,48,48,Yes,Yes,,0,,6,,Table1,Yes,Cells,,,,,,,No,,Yes,,Wnt activity defines colon cancer stem cells and is regulated by the microenvironment.,2010,Nature Cell Biology,15,https://osf.io/pgjhx/,2014-09-17,25000,25500,70500,126870,42066,42217,https://elifesciences.org/articles/07301,42251,43271,Yes,,43488,43623,https://elifesciences.org/articles/45426,Yes,Yes,Yes,3,"CRO11,CRO12,CRO13",,FALSE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,TRUE,TRUE,p9e3o1,1,p9e3,1.072384,Cohen's d,-0.601404,2.659692,-0.16,-1.542252,1.235199,0.9887708,0.708546438074419,0.97766769493264,0.502038054907946,1.072384,-0.601404,2.659692,-0.16,-1.542252,1.235199,0.831927531761581,0.708546438074419,0.692103418102916,0.502038054907946
+104,104,104,104,9,3,2,1,Tumorigenicity frequency between TOP-GFPlow vs TOP-GFPlow + MFCM (450 culture),Positive,Null-positive,8,8,No,,Chi-square test,chi-squared,25.99691,,1,3.419643e-07,Chi-square test,chi-squared,3.316521,,1,0.06858681,No,,,,,,,Cohen's w,0.7359363,0.1490712,0.5712537,0.8436579,0.3219337,0.1856953,-0.03014416,0.60294343,0.6065104,0.4426657,0.7311639,1.441955e-09,Null-positive,Student's t test,t,1.594092,,6,0.162025,Student's t test,t,1.158437,,6,0.2907067,,,,,,Cohen's d,1.127193,0.8987995,-0.4301383,2.609106,0.8191387,0.8609419,-0.6688381,2.247284,0.9665418,-0.252028,2.185112,0.1200417,effect size recalculated for meta-analysis,7E,Yes,Yes,Yes,Yes,3,3,3,0,Cells,Cells,Cells,Animal,"viral transduction,cell culture,cell isolation,FACS,animal care,animal injection (cells, SC,IP)","cell,immuno,animal",3,"CRO11,CRO12,CRO13","1,4",Tumorigenicity of TOP-GFP CSC culture,66.0,48,48,Yes,Yes,,0,,6,,Table1,Yes,Cells,,,,,,,No,,Yes,,Wnt activity defines colon cancer stem cells and is regulated by the microenvironment.,2010,Nature Cell Biology,15,https://osf.io/pgjhx/,2014-09-17,25000,25500,70500,126870,42066,42217,https://elifesciences.org/articles/07301,42251,43271,Yes,,43488,43623,https://elifesciences.org/articles/45426,Yes,Yes,Yes,3,"CRO11,CRO12,CRO13",,FALSE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,TRUE,TRUE,p9e3o2,1,p9e3,1.127193,Cohen's d,-0.4301383,2.609106,0.8191387,-0.6688381,2.247284,0.8987995,0.743922368727691,0.80784054120025,0.553420490693418,1.127193,-0.4301383,2.609106,0.8191387,-0.6688381,2.247284,0.775331670370775,0.743922368727691,0.601139199079936,0.553420490693418
+131,131,131,131,15,1,1,1,DOX accumulation in prostate tumor tissue of DOX+PBS vs DOX+iRGD,Positive,Null-negative,6,8,Yes,Student's t test,Welch's t test,t,5.325191,,2.797413,0.0154218,Student's t test,t,-0.3523984,,6,0.7365876,No,,,,,,,Glass' delta,7.409639,3.793725,0.8898267,14.37962,-0.3177959,0.7189105,-1.700543,1.113274,-0.04992154,-1.434322,1.334479,0.9436553,Null-negative,Welch's t test,t,5.325191,,2.797413,0.0154218,Student's t test,t,-0.3523984,,6,0.7365876,,,,,,Glass' delta,7.409639,3.793725,0.8898267,14.37962,-0.3177959,0.7189105,-1.700543,1.113274,-0.04992154,-1.434322,1.334479,0.9436553,"original study data has SD1/SD2 larger than 2, so assumed unequal variance",2B,Yes,Yes,Yes,Yes,4,1,0,0,,,,Animal,"peptide synthesis,cell culture,animal care,animal injection (cells, drug, prostate gland, iv),tissue harvesting,organic extraction/absorption assay","cell,animal,molecular",2,"Core4,CRO14","1,2,3",Tissue specific DOX accumulation,6.0,8,8,Yes,Yes,,0,,6,,1.0,Yes,Peptide,,,,,,,Yes,Student's t test,Yes,,Coadministration of a Tumor-Penetrating Peptide Enhances the Efficacy of Cancer Drugs,2010,Science,7,https://osf.io/xu1g2/,2014-06-09,25000,38813.16,39313.16,43516.84,42046,42123,https://elifesciences.org/articles/06959,42124,42242,Yes,,42496,42612,https://elifesciences.org/articles/17584,Yes,Yes,Yes,2,"Core4,CRO14",A statement in the acknowledgment section was identified as a COI statement.,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,TRUE,TRUE,p15e1o1,1,p15e1,7.409639,Glass' delta,0.8898267,14.37962,-0.3177959,-1.700543,1.113274,3.793725,0.71782364936168,14.392349375625,0.51527079158292,7.409639,0.8898267,14.37962,-0.3177959,-1.700543,1.113274,3.44133703639602,0.71782364936168,11.8428005980709,0.51527079158292
+132,132,132,132,15,2,1,1,Tumor weight of DOX+PBS vs DOX+iRGD,Positive,Null-positive,20,14,Yes,contrast of between-subjects ANOVA,Welch's t test,t,4.986744,,9.7691020171,0.0005879201,Welch's t test,t,0.2272624,,8.008426,0.825914,No,,,,,,,Glass' delta,1.610345,0.5865725,0.4425053,2.72709,0.2240333,0.5384207,-0.8398834,1.270007,0.8579609,0.08053472,1.63538714,0.03054122,Null-positive,Welch's t test,t,4.986744,,9.7691020171,0.0005879201,Welch's t test,t,0.2272624,,8.008426,0.825914,,,,,,Glass' delta,1.610345,0.5865725,0.4425053,2.72709,0.2240333,0.5384207,-0.8398834,1.270007,0.8579609,0.08053472,1.63538714,0.03054122,"original study data has SD1/SD2 larger than 2, so assumed unequal variance","2C,S9A",Yes,Yes,Yes,Yes,4,1,0,0,,,,Animal,"peptide synthesis,cell culture,animal care,animal injection (cells, drug, prostate gland, iv),tissue harvesting","cell,animal,molecular",2,"Core4,CRO14","1,2,4",Tumor and body weight following treatment,30.0,21,21,Yes,Yes,,0,,6,,"2,3",Yes,Peptide,,,,,,,Yes,between-subjects ANOVA; contrast of between-subjects ANOVA,Yes,,Coadministration of a Tumor-Penetrating Peptide Enhances the Efficacy of Cancer Drugs,2010,Science,7,https://osf.io/xu1g2/,2014-06-09,25000,38813.16,39313.16,43516.84,42046,42123,https://elifesciences.org/articles/06959,42124,42242,Yes,,42496,42612,https://elifesciences.org/articles/17584,Yes,Yes,Yes,2,"Core4,CRO14",A statement in the acknowledgment section was identified as a COI statement.,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,TRUE,TRUE,p15e2o1,1,p15e2,1.610345,Glass' delta,0.4425053,2.72709,0.2240333,-0.8398834,1.270007,0.5865725,0.538247237358071,0.34406729775625,0.289710088523595,1.610345,0.4425053,2.72709,0.2240333,-0.8398834,1.270007,0.582812928712087,0.53824723735807,0.33967090987396,0.289710088523595
+133,133,133,133,15,2,2,1,"Percent body weight shift of PBS, DOX+PBS, DOX+iRGD",Null,Null-positive,30,21,Yes,between-subjects ANOVA,between-subjects ANOVA,F,0.04874,2,27,0.9525123,between-subjects ANOVA,F,1.665554,2,18,0.2333175,No,,,,,,,r,0.0599781834272062,0.1924501,-0.306923124121222,0.411358647624549,0.395173362769287,0.2357023,-0.0440234213059762,0.706361197121812,0.2004454,-0.08874353,0.45846872,0.172856,Null-positive,between-subjects ANOVA,F,0.04874,2,27,0.9525123,between-subjects ANOVA,F,1.665554,2,18,0.2333175,,,,,,Cohen's d,0.1047,0.3875564,-0.6548,0.8643,0.764,0.4777028,-0.1722,1.7003,0.3663989,-0.2234833,0.9562811,0.2234482,,"2C,S9A",Yes,Yes,Yes,Yes,4,1,0,0,,,,Animal,"peptide synthesis,cell culture,animal care,animal injection (cells, drug, prostate gland, iv),tissue harvesting","cell,animal,molecular",2,"Core4,CRO14","1,2,4",Tumor and body weight following treatment,30.0,21,21,Yes,Yes,,0,,6,,"2,3",Yes,Peptide,,,,,,,Yes,between-subjects ANOVA; contrast of between-subjects ANOVA,Yes,,Coadministration of a Tumor-Penetrating Peptide Enhances the Efficacy of Cancer Drugs,2010,Science,7,https://osf.io/xu1g2/,2014-06-09,25000,38813.16,39313.16,43516.84,42046,42123,https://elifesciences.org/articles/06959,42124,42242,Yes,,42496,42612,https://elifesciences.org/articles/17584,Yes,Yes,Yes,2,"Core4,CRO14",A statement in the acknowledgment section was identified as a COI statement.,FALSE,FALSE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,TRUE,TRUE,p15e2o2,1,p15e2,0.1047,Cohen's d,-0.6548,0.8643,0.764,-0.1722,1.7003,0.3875564,0.477687349045707,0.15019996318096,0.228185203438315,0.1047,-0.6548,0.8643,0.764,-0.1722,1.7003,0.387532631207121,0.477687349045707,0.150181540250314,0.228185203438315
+134,134,134,134,15,3,1,1,Prostate tumor apoptotic index of DOX+PBS vs DOX+iRGD,Positive,Null-positive,20,12,Yes,contrast of between-subjects ANOVA,contrast of between-subjects ANOVA,t,5.138861,,27,2.097435e-05,contrast of between-subjects ANOVA,t,0.4351507,,15,0.669649,No,,,,,,,Cohen's d,2.298168,0.6206721,1.129156,3.429967,0.2512344,0.6354425,-0.8916921,1.3818889,1.298767,0.428521,2.169014,0.003443717,Null-positive,contrast of between-subjects ANOVA,t,5.138861,,27,2.097435e-05,contrast of between-subjects ANOVA,t,0.4351507,,15,0.669649,,,,,,Cohen's d,2.298168,0.6206721,1.129156,3.429967,0.2512344,0.6354425,-0.8916921,1.3818889,1.298767,0.428521,2.169014,0.003443717,,2D,Yes,Yes,Yes,Yes,4,1,0,0,,,,Animal,"peptide synthesis,cell culture,animal care,animal injection (cells, drug, prostate gland, iv),tissue harvesting,immunohistochemistry","cell,animal,molecular",2,"Core4,CRO14","1,2,5",TUNEL staining of mouse tissues,30.0,18,18,Yes,Yes,,0,,6,,4.0,Yes,Peptide,,,,,,,Yes,contrast of between-subjects ANOVA,Yes,,Coadministration of a Tumor-Penetrating Peptide Enhances the Efficacy of Cancer Drugs,2010,Science,7,https://osf.io/xu1g2/,2014-06-09,25000,38813.16,39313.16,43516.84,42046,42123,https://elifesciences.org/articles/06959,42124,42242,Yes,,42496,42612,https://elifesciences.org/articles/17584,Yes,Yes,Yes,2,"Core4,CRO14",A statement in the acknowledgment section was identified as a COI statement.,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,TRUE,TRUE,TRUE,p15e3o1,1,p15e3,2.298168,Cohen's d,1.129156,3.429967,0.2512344,-0.8916921,1.3818889,0.6206721,0.580005810804106,0.38523385571841,0.336406740566528,2.298168,1.129156,3.429967,0.2512344,-0.8916921,1.3818889,0.586952367020135,0.580005810804106,0.344513081150539,0.336406740566528
+141,141,141,141,16,3,1,1,2HG levels of R132C mutant IDH1 vs largest value observed in WT IDH,Positive,Positive,5,4,No,,one-sample t test,t,18.79246,,4,4.721315e-05,one-sample t test,t,4.468997,,3,0.02087446,No,,,,,,,Cohen's d,8.404241,2.695019,2.83925,14.08517,2.234498,0.9349454,0.2632168,4.1670553,2.897267,1.166027,4.628507,0.00103792,Positive,one-sample t test,t,18.79246,,4,4.721315e-05,one-sample t test,t,4.468997,,3,0.02087446,,,,,,Cohen's d,8.404241,2.695019,2.83925,14.08517,2.234498,0.9349454,0.2632168,4.1670553,2.897267,1.166027,4.628507,0.00103792,original data Estimated from figure 5C log transformed to match replication data,5.0,Yes,Yes,Yes,Yes,1,0,0,0,Plasmids,No,No,Patient Samples,"cell isolation,metabolite extraction,GC-MS","cell,molecular",2,"Core5,Core6",3.0,2HG levels in AML patient samples,27.0,12,12,Yes,Yes,,1,GC-MS conditions needed to be optimized from limited information in original paper,5,,3.0,Yes,Patient samples,,,,,,,No,,Yes,,The common feature of leukemia-associated IDH1 and IDH2 mutations is a neomorphic enzyme activity converting alpha-ketoglutarate to 2-hydroxyglutarate,2010,Cancer Cell,16,https://osf.io/8l4ea/,2015-02-13,25000,33994,33994,33994,42307,42413,https://elifesciences.org/articles/12626,42413,42773,Yes,,42781,42877,https://elifesciences.org/articles/26030,No,Yes,Yes,2,"Core5,Core6",A statement in the acknowledgment section was identified as a COI statement.,TRUE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p16e3o1,1,p16e3,8.404241,Cohen's d,2.83925,14.08517,2.234498,0.2632168,4.1670553,2.695019,0.995895468180278,7.263127410361,0.991807783542015,8.404241,2.83925,14.08517,2.234498,0.2632168,4.1670553,2.86890985974905,0.995895468180278,8.23064378336533,0.991807783542015
+142,142,142,142,16,3,2,1,2HG levels of R172K mutant IDH2 vs largest value observed in WT IDH,Positive,Positive,9,4,No,,one-sample t test,t,20.23687,,8,3.713804e-08,one-sample t test,t,9.190985,,3,0.002723826,No,,,,,,,Cohen's d,6.745624,1.624525,3.446096,10.044942,4.595493,1.699947,1.053507,8.224204,5.719313,3.417392,8.021234,1.117717e-06,Positive,one-sample t test,t,20.23687,,8,3.713804e-08,one-sample t test,t,9.190985,,3,0.002723826,,,,,,Cohen's d,6.745624,1.624525,3.446096,10.044942,4.595493,1.699947,1.053507,8.224204,5.719313,3.417392,8.021234,1.117717e-06,original data Estimated from figure 5C log transformed to match replication data,5.0,Yes,Yes,Yes,Yes,1,0,0,0,Plasmids,No,No,Patient Samples,"cell isolation,metabolite extraction,GC-MS","cell,molecular",2,"Core5,Core6",3.0,2HG levels in AML patient samples,27.0,12,12,Yes,Yes,,1,GC-MS conditions needed to be optimized from limited information in original paper,5,,3.0,Yes,Patient samples,,,,,,,No,,Yes,,The common feature of leukemia-associated IDH1 and IDH2 mutations is a neomorphic enzyme activity converting alpha-ketoglutarate to 2-hydroxyglutarate,2010,Cancer Cell,16,https://osf.io/8l4ea/,2015-02-13,25000,33994,33994,33994,42307,42413,https://elifesciences.org/articles/12626,42413,42773,Yes,,42781,42877,https://elifesciences.org/articles/26030,No,Yes,Yes,2,"Core5,Core6",A statement in the acknowledgment section was identified as a COI statement.,TRUE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p16e3o2,1,p16e3,6.745624,Cohen's d,3.446096,10.044942,4.595493,1.053507,8.224204,1.624525,1.82929305246462,2.639081475625,3.34631307179534,6.745624,3.446096,10.044942,4.595493,1.053507,8.224204,1.68341001468671,1.82929305246462,2.83386927754752,3.34631307179534
+143,143,143,143,16,3,3,1,2HG levels of R132C mutant IDH1 or R172K mutant IDH2 vs largest value observed in WT IDH,Positive,Positive,14,8,No,,one-sample t test,t,16.31795,,13,4.863977e-10,one-sample t test,t,8.72953,,7,5.199887e-05,No,,,,,,,Cohen's d,4.361155,0.8664309,2.617673,6.089983,3.086355,0.8487339,1.349622,4.797836,3.710603,2.522266,4.89894,9.356251e-10,Positive,one-sample t test,t,16.31795,,13,4.863977e-10,one-sample t test,t,8.72953,,7,5.199887e-05,,,,,,Cohen's d,4.361155,0.8664309,2.617673,6.089983,3.086355,0.8487339,1.349622,4.797836,3.710603,2.522266,4.89894,9.356251e-10,original data Estimated from figure 5C log transformed to match replication data,5.0,Yes,Yes,Yes,Yes,1,0,0,0,Plasmids,No,No,Patient Samples,"cell isolation,metabolite extraction,GC-MS","cell,molecular",2,"Core5,Core6",3.0,2HG levels in AML patient samples,27.0,12,12,Yes,Yes,,1,GC-MS conditions needed to be optimized from limited information in original paper,5,,3.0,Yes,Patient samples,,,,,,,No,,Yes,,The common feature of leukemia-associated IDH1 and IDH2 mutations is a neomorphic enzyme activity converting alpha-ketoglutarate to 2-hydroxyglutarate,2010,Cancer Cell,16,https://osf.io/8l4ea/,2015-02-13,25000,33994,33994,33994,42307,42413,https://elifesciences.org/articles/12626,42413,42773,Yes,,42781,42877,https://elifesciences.org/articles/26030,No,Yes,Yes,2,"Core5,Core6",A statement in the acknowledgment section was identified as a COI statement.,TRUE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p16e3o3,1,p16e3,4.361155,Cohen's d,2.617673,6.089983,3.086355,1.349622,4.797836,0.8664309,0.879662592577995,0.75070250447481,0.773806276781039,4.361155,2.617673,6.089983,3.086355,1.349622,4.797836,0.885809644307023,0.879662592577995,0.784658725947334,0.773806276781039
+150,150,150,150,19,1,1,1,Relative MYC expression of MM.1S cells harvested 1 hr after (+)-JQ1 treatment vs cells 0 hr after (+)-JQ1 treatment,Positive,Positive,2,5,Yes,paired t test,paired t test,t,3.511476,,1,0.1766213,paired t test,t,38.92091,,4,2.603218e-06,No,,,,,,,Cohen's dz,2.482988,1.428743,-0.5946068,5.7866542,17.40596,5.522385,6.015823,28.411386,3.419196,0.7081727,6.1302201,0.01343801,Positive,paired t test,t,3.511476,,1,0.1766213,paired t test,t,38.92091,,4,2.603218e-06,,,,,,Cohen's dz,2.482988,1.428743,-0.5946068,5.7866542,17.40596,5.522385,6.015823,28.411386,3.419196,0.7081727,6.1302201,0.01343801,original study listed a sample size of 6 (2 biological repeats with 3 technical replicates each). These calculations use a sample size of 2.,3B,Yes,Yes,Yes,Yes,2,1,0,0,Cells,Cells,Cells,Cell-based,"cell culture,RNA extraction,qRT-PCR","cell,molecular",1,Core4,1.0,MYC expression in JQ1-treated MM.1S-luc cells,2.0,5,5,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,paired t test,Yes,,BET bromodomain inhibition as a therapeutic strategy to target c-Myc,2011,Cell,24,https://osf.io/7zqxp/,2014-08-20,25000,37818,39843,39156.76,42052,42163,https://elifesciences.org/articles/07072,42163,42444,Yes,,42618,42696,https://elifesciences.org/articles/21253,Yes,No,Yes,1,Core4,,TRUE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p19e1o1,1,p19e1,2.482988,Cohen's dz,-0.5946068,5.7866542,17.40596,6.015823,28.411386,1.428743,5.71325880900194,2.041306560049,32.6413262186382,2.482988,-0.5946068,5.7866542,17.40596,6.015823,28.411386,1.62790261717424,5.71325880900193,2.65006693100273,32.6413262186382
+151,151,151,151,19,1,2,1,Relative MYC expression of MM.1S cells harvested 8 hr after (+)-JQ1 treatment vs cells 0 hr after (+)-JQ1 treatment,Positive,Positive,2,5,Yes,paired t test,paired t test,t,3.411066,,1,0.1815468,paired t test,t,25.09801,,4,1.496275e-05,No,,,,,,,Cohen's dz,2.411988,1.398006,-0.605721,5.633767,11.224173,3.577458,3.841858,18.349709,3.579422,1.027326,6.131518,0.005978983,Positive,paired t test,t,3.411066,,1,0.1815468,paired t test,t,25.09801,,4,1.496275e-05,,,,,,Cohen's dz,2.411988,1.398006,-0.605721,5.633767,11.224173,3.577458,3.841858,18.349709,3.579422,1.027326,6.131518,0.005978983,original study listed a sample size of 6 (2 biological repeats with 3 technical replicates each). These calculations use a sample size of 2.,3B,Yes,Yes,Yes,Yes,2,1,0,0,Cells,Cells,Cells,Cell-based,"cell culture,RNA extraction,qRT-PCR","cell,molecular",1,Core4,1.0,MYC expression in JQ1-treated MM.1S-luc cells,2.0,5,5,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,paired t test,Yes,,BET bromodomain inhibition as a therapeutic strategy to target c-Myc,2011,Cell,24,https://osf.io/7zqxp/,2014-08-20,25000,37818,39843,39156.76,42052,42163,https://elifesciences.org/articles/07072,42163,42444,Yes,,42618,42696,https://elifesciences.org/articles/21253,Yes,No,Yes,1,Core4,,TRUE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p19e1o2,1,p19e1,2.411988,Cohen's dz,-0.605721,5.633767,11.224173,3.841858,18.349709,1.398006,3.7010504056289,1.954420776036,13.6977741050058,2.411988,-0.605721,5.633767,11.224173,3.841858,18.349709,1.59173537095995,3.70105040562889,2.533621491165,13.6977741050058
+152,152,152,152,19,2,1,1,Overall survival of (+)-JQ1 vs vehicle control,Positive,Positive,19,24,Yes,Log-rank Mantel-Cox test,Log-rank Mantel-Cox test,chi-squared,16.87163,,1,3.999499e-05,Log-rank Mantel-Cox test,chi-squared,5.12079,,1,0.02364086,No,,,,,,,Hazard ratio,25.92992,1.592021,5.484926,122.583391,3.754594,2.925704,1.193745,11.809033,7.418326,2.950078,18.654268,2.049847e-05,Positive,Log-rank Mantel-Cox test,chi-squared,16.87163,,1,3.999499e-05,Log-rank Mantel-Cox test,chi-squared,5.12079,,1,0.02364086,,,,,,Hazard ratio,25.92992,1.592021,5.484926,122.583391,3.754594,2.925704,1.193745,11.809033,7.418326,2.950078,18.654268,2.049847e-05,,"7C,7D,7E",Yes,Yes,Yes,Yes,3,1,2,2,Cells,Cells,Cells,Animal,"cell culture,animal care,animal injection (cells, drug,luciferin,iv,IP),IVIS","cell,animal",1,Core4,2.0,Overall survival and tumor burden in JQ1-treated MM.1S-luc orthotopic xenograft model,19.0,22,24,Yes,Yes,,5,Timecourse of cell injection to randomization was extended because detection of bioluminescence in vivo was not detected even though disease progression was observed; Enrichment of luciferase expressing cells was performed before experiment was conducted to determine timecourse to observe bioluminescence before disease progression required euthanasia,5,,"2,3",No,,,,,,,,Yes,Log-rank Mantel-Cox test; Student's t test,Yes,Statistical test of original listed in methods.,BET bromodomain inhibition as a therapeutic strategy to target c-Myc,2011,Cell,24,https://osf.io/7zqxp/,2014-08-20,25000,37818,39843,39156.76,42052,42163,https://elifesciences.org/articles/07072,42163,42444,Yes,,42618,42696,https://elifesciences.org/articles/21253,Yes,No,Yes,1,Core4,,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,TRUE,TRUE,p19e2o1,1,p19e2,3.25539751431635,Log hazard ratio,1.70200360229617,4.80879154124161,1.32298015686711,0.177095424322356,2.46886474709403,0.792562507130587,0.584645774322604,0.628155327709122,0.341810681433277,0.560079972206537,0.314851035321731,0.772296893906911,0.247830780338513,0.0338264848981532,0.441941036610895,0.116697516432306,0.104112768125307,0.0136183103414682,0.0108394684867139
+153,153,153,153,19,2,2,1,Bioluminescence (tumor burden) of (+)-JQ1 vs vehicle control,Positive,Null-positive,19,18,Yes,Student's t test,Student's t test,t,5.000418,,17,0.0001094824,Student's t test,t,1.15363,,16,0.2655945,No,,,,,,,Cohen's d,2.297534,0.6398966,1.09556,3.460222,0.557773,0.523378,-0.417364,1.516296,1.255122,0.4610895,2.0491548,0.001947642,Null-positive,Student's t test,t,5.000418,,17,0.0001094824,Student's t test,t,1.15363,,16,0.2655945,,,,,,Cohen's d,2.297534,0.6398966,1.09556,3.460222,0.557773,0.523378,-0.417364,1.516296,1.255122,0.4610895,2.0491548,0.001947642,,"7C,7D,7E",Yes,Yes,Yes,Yes,3,1,2,2,Cells,Cells,Cells,Animal,"cell culture,animal care,animal injection (cells, drug,luciferin,iv,IP),IVIS","cell,animal",1,Core4,2.0,Overall survival and tumor burden in JQ1-treated MM.1S-luc orthotopic xenograft model,19.0,22,24,Yes,Yes,,5,Timecourse of cell injection to randomization was extended because detection of bioluminescence in vivo was not detected even though disease progression was observed; Enrichment of luciferase expressing cells was performed before experiment was conducted to determine timecourse to observe bioluminescence before disease progression required euthanasia,5,,"2,3",No,,,,,,,,Yes,Log-rank Mantel-Cox test; Student's t test,Yes,Statistical test of original listed in methods.,BET bromodomain inhibition as a therapeutic strategy to target c-Myc,2011,Cell,24,https://osf.io/7zqxp/,2014-08-20,25000,37818,39843,39156.76,42052,42163,https://elifesciences.org/articles/07072,42163,42444,Yes,,42618,42696,https://elifesciences.org/articles/21253,Yes,No,Yes,1,Core4,,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,TRUE,TRUE,p19e2o2,1,p19e2,2.297534,Cohen's d,1.09556,3.460222,0.557773,-0.417364,1.516296,0.6398966,0.493289676558463,0.40946765869156,0.243334704999153,2.297534,1.09556,3.460222,0.557773,-0.417364,1.516296,0.603241186739183,0.493289676558463,0.363899929378498,0.243334704999153
+154,154,154,154,20,1,1,1,Primary tumor growth between LM-4175 with or without Cav1 WT or Cav1 KO pMEFs,Null,Null-positive,34,61,No,,Kruskal-Wallis rank sum test,chi-squared,0.8877569,,2,0.6415434,Kruskal-Wallis rank sum test,chi-squared,0.0439328,,2,0.9782731,No,,,,,,,r,0.1680213,0.1796053,-0.1803942,0.4789723,0.02751682,0.1313064,-0.225869,0.2774153,0.07686942,-0.1299946,0.2773206,0.4674599,Null-negative,between-subjects ANOVA,F,0.1411344,2,31,0.8689274,between-subjects ANOVA,F,2.876159,2,58,0.06442112,,,,,,Cohen's d,0.1874,0.3536948,-0.5057,0.8805,-0.2942,0.2601922,-0.8043,0.2159,-0.1250905,-0.5358783,0.2856974,0.5506172,,"7Ca,7Cb,7Cc(left),S2A,S7Ca",Yes,Yes,Yes,Yes,3,5,2,2,Cells,Cells,Cells,Animal,"viral transduction,cell culture,cell isolation,Western blot assay,animal care,animal injection (cells, luciferin,SC,IP),IVIS,tissue harvesting","cell,immuno,animal",1,Core7,"1,2,3",Primary tumor growth and metastatic foci from mice injected with Cav1 WT or Cav1 KO pMEFs,34.0,61,61,Yes,Yes,,3,"Western blot to assess SMA levels resulted in no observable change, which lead to addition of new assay (collagen gel contraction assay) to assess ECM remodeling capabilities in vitro",5,,"1,2",No,,,,,,,,Yes,Student's t test; Mann-Whitney,Yes,Methods state unpaired Student's t-test or Mann-Whitney test was used,Biomechanical remodeling of the microenvironment by stromal caveolin-1 favors tumor invasion and metastasis.,2011,Cell,17,https://osf.io/7yqmp/,2014-05-14,25000,31211.1,54295.8,70474.11,41899,42181,https://elifesciences.org/articles/04796,42181,43217,Partial,SMA staining could not be reliably detected,43479,43775,https://elifesciences.org/articles/45120,Yes,No,Yes,3,"Core7,Core8,CRO15",,FALSE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,TRUE,TRUE,p20e1o1,1,p20e1,0.1874,Cohen's d,-0.5057,0.8805,-0.2942,-0.8043,0.2159,0.3536948,0.260259884377266,0.12510001154704,0.0677352074160679,0.1874,-0.5057,0.8805,-0.2942,-0.8043,0.2159,0.353628946994478,0.260259884377266,0.125053432152423,0.0677352074160679
+155,155,155,155,20,1,2,1,Total metastatic foci per mouse of LM-4175 vs LM-4175 + Cav1 WT,Positive,Null-positive,18,36,Yes,unknown,Mann-Whitney,z,3.006397,,,0.001023486,Mann-Whitney,z,0.998848,,,0.327788,No,,,,,,,Cliff's delta,0.8888889,0.1111111,0.469068,0.9810331,0.2076923,0.1416304,-0.07528094,0.45970759,0.629365,0.4303428,0.7700337,6.049812e-13,Null-positive,Student's t test,t,2.806311,,16,0.01267524,Student's t test,t,-1.52892,,34,0.1355357,,,,,,Cohen's d,2.563103,0.7156877,1.223514,3.858346,0.2914964,0.3846159,-0.4431904,1.021949,0.8005373,0.1365169,1.464558,0.01813179,"methods state unpaired Student's t-test or Mann-Whitney test was used; p value reported in Replication Study was not exact, which is used here","7Ca,7Cb,7Cc(left),S2A,S7Ca",Yes,Yes,Yes,Yes,3,5,2,2,Cells,Cells,Cells,Animal,"viral transduction,cell culture,cell isolation,Western blot assay,animal care,animal injection (cells, luciferin,SC,IP),IVIS,tissue harvesting","cell,immuno,animal",1,Core7,"1,2,3",Primary tumor growth and metastatic foci from mice injected with Cav1 WT or Cav1 KO pMEFs,34.0,61,61,Yes,Yes,,3,"Western blot to assess SMA levels resulted in no observable change, which lead to addition of new assay (collagen gel contraction assay) to assess ECM remodeling capabilities in vitro",5,,"1,2",No,,,,,,,,Yes,Student's t test; Mann-Whitney,Yes,Methods state unpaired Student's t-test or Mann-Whitney test was used,Biomechanical remodeling of the microenvironment by stromal caveolin-1 favors tumor invasion and metastasis.,2011,Cell,17,https://osf.io/7yqmp/,2014-05-14,25000,31211.1,54295.8,70474.11,41899,42181,https://elifesciences.org/articles/04796,42181,43217,Partial,SMA staining could not be reliably detected,43479,43775,https://elifesciences.org/articles/45120,Yes,No,Yes,3,"Core7,Core8,CRO15",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,TRUE,TRUE,p20e1o2,1,p20e1,2.563103,Cohen's d,1.223514,3.858346,0.2914964,-0.4431904,1.021949,0.7156877,0.373766919075257,0.51220888393129,0.13970170979501,2.563103,1.223514,3.858346,0.2914964,-0.4431904,1.021949,0.67216337156785,0.373766919075257,0.45180359807746,0.13970170979501
+156,156,156,156,20,1,3,1,Total metastatic foci per mouse of LM-4175 vs LM-4175 + Cav1 KO,Null,Null-positive,21,35,Yes,unknown,Mann-Whitney,z,1.487869,,,0.1460453,Mann-Whitney,z,1.868766,,,0.0623144,No,,,,,,,Cliff's delta,0.4222222,0.2340503,-0.0821183,0.7544005,0.404,0.1442775,0.09630774,0.64121404,0.4090177,0.1481356,0.616679,0.0008675492,Null-positive,Student's t test,t,1.980263,,19,0.06234209,Student's t test,t,-1.137378,,33,0.2635716,,,,,,Cohen's d,0.6838845,0.5210548,-0.2956912,1.646454,0.645546,0.393931,-0.1087057,1.390458,0.6594895,0.04360311,1.275376,0.03584122,"methods state unpaired Student's t-test or Mann-Whitney test was used; p value reported in Replication Study was not exact, which is used here; effect size recalculated for meta-analysis","7Ca,7Cb,7Cc(left),S2A,S7Ca",Yes,Yes,Yes,Yes,3,5,2,2,Cells,Cells,Cells,Animal,"viral transduction,cell culture,cell isolation,Western blot assay,animal care,animal injection (cells, luciferin,SC,IP),IVIS,tissue harvesting","cell,immuno,animal",1,Core7,"1,2,3",Primary tumor growth and metastatic foci from mice injected with Cav1 WT or Cav1 KO pMEFs,34.0,61,61,Yes,Yes,,3,"Western blot to assess SMA levels resulted in no observable change, which lead to addition of new assay (collagen gel contraction assay) to assess ECM remodeling capabilities in vitro",5,,"1,2",No,,,,,,,,Yes,Student's t test; Mann-Whitney,Yes,Methods state unpaired Student's t-test or Mann-Whitney test was used,Biomechanical remodeling of the microenvironment by stromal caveolin-1 favors tumor invasion and metastasis.,2011,Cell,17,https://osf.io/7yqmp/,2014-05-14,25000,31211.1,54295.8,70474.11,41899,42181,https://elifesciences.org/articles/04796,42181,43217,Partial,SMA staining could not be reliably detected,43479,43775,https://elifesciences.org/articles/45120,Yes,No,Yes,3,"Core7,Core8,CRO15",,FALSE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,TRUE,TRUE,p20e1o3,1,p20e1,0.6838845,Cohen's d,-0.2956912,1.646454,0.645546,-0.1087057,1.390458,0.5210548,0.382446746936478,0.27149810460304,0.146265514242294,0.6838845,-0.2956912,1.646454,0.645546,-0.1087057,1.390458,0.495454308170812,0.382446746936477,0.245474971485018,0.146265514242294
+157,157,157,157,20,1,4,1,Total metastatic foci per mouse of LM-4175 + Cav1 WT vs LM-4175 + Cav1 KO,Positive,Null-negative,27,51,Yes,unknown,Mann-Whitney,z,2.10043,,,0.03519667,Mann-Whitney,z,-1.229224,,,0.2227251,No,,,,,,,Cliff's delta,0.4777778,0.2002604,0.03119762,0.76534551,-0.1984615,0.1559415,-0.4731837,0.1114388,0.05680262,-0.1807589,0.2881016,0.6443203,Null-negative,Student's t test,t,2.554782,,25,0.01709515,Student's t test,t,-1.174624,,49,0.2458221,,,,,,Cohen's d,0.8082212,0.4196541,0.009667198,1.591935,-0.2267656,0.2867232,-0.7764475,0.3252096,0.1026186,-0.3613873,0.5666246,0.6646793,"methods state unpaired Student's t-test or Mann-Whitney test was used; p value reported in Replication Study was not exact, which is used here","7Ca,7Cb,7Cc(left),S2A,S7Ca",Yes,Yes,Yes,Yes,3,5,2,2,Cells,Cells,Cells,Animal,"viral transduction,cell culture,cell isolation,Western blot assay,animal care,animal injection (cells, luciferin,SC,IP),IVIS,tissue harvesting","cell,immuno,animal",1,Core7,"1,2,3",Primary tumor growth and metastatic foci from mice injected with Cav1 WT or Cav1 KO pMEFs,34.0,61,61,Yes,Yes,,3,"Western blot to assess SMA levels resulted in no observable change, which lead to addition of new assay (collagen gel contraction assay) to assess ECM remodeling capabilities in vitro",5,,"1,2",No,,,,,,,,Yes,Student's t test; Mann-Whitney,Yes,Methods state unpaired Student's t-test or Mann-Whitney test was used,Biomechanical remodeling of the microenvironment by stromal caveolin-1 favors tumor invasion and metastasis.,2011,Cell,17,https://osf.io/7yqmp/,2014-05-14,25000,31211.1,54295.8,70474.11,41899,42181,https://elifesciences.org/articles/04796,42181,43217,Partial,SMA staining could not be reliably detected,43479,43775,https://elifesciences.org/articles/45120,Yes,No,Yes,3,"Core7,Core8,CRO15",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,TRUE,TRUE,p20e1o4,1,p20e1,0.8082212,Cohen's d,0.009667198,1.591935,-0.2267656,-0.7764475,0.3252096,0.4196541,0.281040138668295,0.17610956364681,0.0789835595426943,0.8082212,0.009667198,1.591935,-0.2267656,-0.7764475,0.3252096,0.403647162519497,0.281040138668295,0.162931031810041,0.0789835595426943
+158,158,158,158,20,2,1,1,Percent of fibronectin fibers within +/- 20 degrees from LM-4175 vs LM-4175 + Cav1 WT,Positive,Null-positive,13,13,Yes,unknown,Mann-Whitney,z,2.9277,,,0.001554002,Mann-Whitney,z,0.146385,,,0.9432789,No,,,,,,,Cliff's delta,1,0.01636634,0.9176244,1,0.05,0.4170474,-0.6029312,0.6628181,0.9985392,0.4772311,0.999997,0,Null-positive,Student's t test,t,4.508929,,11,0.0008880629,Student's t test,t,0.652025,,11,0.5277742,,,,,,Cohen's d,2.570485,0.8596706,0.9998724,4.080861,0.3717114,0.6257102,-0.7643179,1.491367,1.133156,0.1416188,2.124694,0.02509737,"methods state unpaired Student's t-test or Mann-Whitney test was used; p value reported in Replication Study was not exact, which is used here","7Cc(right),7Cd,S7Cb,S7Cc",Yes,Yes,Yes,Yes,3,5,2,2,Cells,Cells,Cells,Animal,"viral transduction,cell culture,cell isolation,Western blot assay,animal care,animal injection (cells, luciferin,SC,IP),tissue harvesting,immunofluorescence,microscopy (confocal)","cell,immuno,animal",3,"Core7,Core8,CRO15",4.0,"Fibronectin fiber orientation, elipitical form factor, SMA+ fibers, and correlation with metastatic foci from mice injected with Cav1 WT or Cav1 KO pMEFs",25.0,18,20,Yes,Partial,SMA staining could not be reliably detected,5,SMA staining was not specific (attempted to block nonspecific staining); Fibronectin orientation analysis using MetaMorph software could not be implemented (instead workflow using KNIME was implemented),4,SMA staining could not be reliably detected,3.0,Yes,Embedded tissue,,,,,,,Yes,Spearman's rank correlation; Student's t test; Mann-Whitney,Yes,Methods state unpaired Student's t-test or Mann-Whitney test was used,Biomechanical remodeling of the microenvironment by stromal caveolin-1 favors tumor invasion and metastasis.,2011,Cell,17,https://osf.io/7yqmp/,2014-05-14,25000,31211.1,54295.8,70474.11,41899,42181,https://elifesciences.org/articles/04796,42181,43217,Partial,SMA staining could not be reliably detected,43479,43775,https://elifesciences.org/articles/45120,Yes,No,Yes,3,"Core7,Core8,CRO15",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,TRUE,TRUE,TRUE,p20e2o1,1,p20e2,2.570485,Cohen's d,0.9998724,4.080861,0.3717114,-0.7643179,1.491367,0.8596706,0.575440395280871,0.73903354050436,0.331131648521006,2.570485,0.9998724,4.080861,0.3717114,-0.7643179,1.491367,0.785980922175725,0.575440395280872,0.617766010024203,0.331131648521006
+159,159,159,159,20,2,2,1,Percent of fibronectin fibers within +/- 20 degrees from LM-4175 + Cav1 WT vs LM-4175 + Cav1 KO,Positive,Null-positive,18,15,Yes,unknown,Mann-Whitney,z,2.487865,,,0.01165501,Mann-Whitney,z,1.735913,,,0.09386169,No,,,,,,,Cliff's delta,0.7,0.1812654,0.2140474,0.908207,0.5357143,0.2632541,-0.0736732,0.8538133,0.6471616,0.2785167,0.8496035,1.459336e-05,Null-positive,Student's t test,t,3.750793,,16,0.001744839,Student's t test,t,1.673947,,13,0.1180168,,,,,,Cohen's d,1.779157,0.6036627,0.6471271,2.872486,0.86635,0.5851281,-0.2151739,1.918034,1.308525,0.4850509,2.132,0.001842939,"methods state unpaired Student's t-test or Mann-Whitney test was used; p value reported in Replication Study was not exact, which is used here","7Cc(right),7Cd,S7Cb,S7Cc",Yes,Yes,Yes,Yes,3,5,2,2,Cells,Cells,Cells,Animal,"viral transduction,cell culture,cell isolation,Western blot assay,animal care,animal injection (cells, luciferin,SC,IP),tissue harvesting,immunofluorescence,microscopy (confocal)","cell,immuno,animal",3,"Core7,Core8,CRO15",4.0,"Fibronectin fiber orientation, elipitical form factor, SMA+ fibers, and correlation with metastatic foci from mice injected with Cav1 WT or Cav1 KO pMEFs",25.0,18,20,Yes,Partial,SMA staining could not be reliably detected,5,SMA staining was not specific (attempted to block nonspecific staining); Fibronectin orientation analysis using MetaMorph software could not be implemented (instead workflow using KNIME was implemented),4,SMA staining could not be reliably detected,3.0,Yes,Embedded tissue,,,,,,,Yes,Spearman's rank correlation; Student's t test; Mann-Whitney,Yes,Methods state unpaired Student's t-test or Mann-Whitney test was used,Biomechanical remodeling of the microenvironment by stromal caveolin-1 favors tumor invasion and metastasis.,2011,Cell,17,https://osf.io/7yqmp/,2014-05-14,25000,31211.1,54295.8,70474.11,41899,42181,https://elifesciences.org/articles/04796,42181,43217,Partial,SMA staining could not be reliably detected,43479,43775,https://elifesciences.org/articles/45120,Yes,No,Yes,3,"Core7,Core8,CRO15",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,TRUE,TRUE,TRUE,p20e2o2,1,p20e2,1.779157,Cohen's d,0.6471271,2.872486,0.86635,-0.2151739,1.918034,0.6036627,0.544195688498991,0.36440865537129,0.296148947380891,1.779157,0.6471271,2.872486,0.86635,-0.2151739,1.918034,0.567704028633523,0.544195688498991,0.322287864126732,0.296148947380891
+160,160,160,160,20,2,3,1,Correlation of percent of fibronectin fibers within +/- 20 degrees and number of metastasis,Positive,Negative,25,20,Yes,Spearman's rank correlation,Spearman's rank correlation,rho,0.6766662,,,0.0002038955,Spearman's rank correlation,rho,-0.5003121,,,0.02466544,No,,,,,,,Spearman's r,0.6766662,0.2132007,0.3842812,0.8456849,-0.5003121,0.2425356,-0.77192894,-0.07422445,0.2208974,-0.08900992,0.49180977,0.1607295,Negative,Pearson's correlation,t,7.492424,,23,1.295973e-07,Pearson's correlation,t,-2.243402,,18,0.03769116,,,,,,Pearson's r,0.8422367,0.2132007,0.6701163,0.9284014,-0.4674479,0.2425356,-0.75399977,-0.03142826,0.4400298,0.1571102,0.6562015,0.00318483,methods state unpaired Student's t-test or Mann-Whitney test was used; Student's-test test used for original because no raw data,"7Cc(right),7Cd,S7Cb,S7Cc",Yes,Yes,Yes,Yes,3,5,2,2,Cells,Cells,Cells,Animal,"viral transduction,cell culture,cell isolation,Western blot assay,animal care,animal injection (cells, luciferin,SC,IP),tissue harvesting,immunofluorescence,microscopy (confocal)","cell,immuno,animal",3,"Core7,Core8,CRO15",4.0,"Fibronectin fiber orientation, elipitical form factor, SMA+ fibers, and correlation with metastatic foci from mice injected with Cav1 WT or Cav1 KO pMEFs",25.0,18,20,Yes,Partial,SMA staining could not be reliably detected,5,SMA staining was not specific (attempted to block nonspecific staining); Fibronectin orientation analysis using MetaMorph software could not be implemented (instead workflow using KNIME was implemented),4,SMA staining could not be reliably detected,3.0,Yes,Embedded tissue,,,,,,,Yes,Spearman's rank correlation; Student's t test; Mann-Whitney,Yes,Methods state unpaired Student's t-test or Mann-Whitney test was used,Biomechanical remodeling of the microenvironment by stromal caveolin-1 favors tumor invasion and metastasis.,2011,Cell,17,https://osf.io/7yqmp/,2014-05-14,25000,31211.1,54295.8,70474.11,41899,42181,https://elifesciences.org/articles/04796,42181,43217,Partial,SMA staining could not be reliably detected,43479,43775,https://elifesciences.org/articles/45120,Yes,No,Yes,3,"Core7,Core8,CRO15",,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,TRUE,TRUE,TRUE,p20e2o3,1,p20e2,1.22881995085142,Fisher's z,0.810954187801239,1.64668556390943,-0.506799657671772,-0.982160785455998,-0.0314386137397276,0.213200697232278,0.242535622903136,0.0454545373003296,0.0588235283770124,1.56227849876529,0.902810073089058,2.49853134626642,-0.528774881680666,-1.14785938862656,-0.0314437929122256,0.407079233538016,0.284805130227003,0.165713502377899,0.0811139622036201
+161,161,161,161,21,1,1,1,Relative tumor volume of A549 xenografts treated with cimetidine vs vehicle,Positive,Positive,12,27,Yes,Student's t test,Student's t test,t,2.348576,,10,0.04073944,Student's t test,t,2.411154,,25,0.02357807,No,,,,,,,Cohen's d,1.355951,0.7143642,0.05518853,2.60415546,0.928691,0.4229055,0.1232132,1.7175443,1.039572,0.3263091,1.7528341,0.004281727,Positive,Student's t test,t,2.348576,,10,0.04073944,Student's t test,t,2.411154,,25,0.02357807,,,,,,Cohen's d,1.355951,0.7143642,0.05518853,2.60415546,0.928691,0.4229055,0.1232132,1.7175443,1.039572,0.3263091,1.7528341,0.004281727,,"4C,4D,S1",Yes,Yes,Yes,Yes,3,0,0,0,,,,Animal,"cell culture,animal care,animal injection (cells, drug,IP)","cell,animal",1,Core4,1.0,Tumor xenograft experiment testing efficacy of cimetidine in inhibiting the growth of tumors in SCID mice,30.0,61,61,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,Student's t test,Yes,,Discovery and Preclinical Validation of Drug Indications Using Compendia of Public Gene Expression Data,2011,Science Translational Medicine,8,https://osf.io/hxrmm/,2014-08-18,25000,9181.72,11181.72,11838.11,42039,42109,https://elifesciences.org/articles/06847,42163,42251,Yes,,42478,42579,https://elifesciences.org/articles/17044,Yes,Yes,Yes,1,Core4,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,TRUE,TRUE,p21e1o1,1,p21e1,1.355951,Cohen's d,0.05518853,2.60415546,0.928691,0.1232132,1.7175443,0.7143642,0.406724591006743,0.51031621024164,0.165424892929603,1.355951,0.05518853,2.60415546,0.928691,0.1232132,1.7175443,0.650258614470961,0.406724591006744,0.422836265693694,0.165424892929603
+162,162,162,162,21,1,2,1,Relative tumor volume of A549 xenografts treated with DOX vs vehicle,Positive,Positive,12,18,No,,Student's t test,t,5.204783,,10,0.0003985327,Student's t test,t,2.227984,,16,0.04057874,No,,,,,,,Cohen's d,3.004983,0.9704614,1.251697,4.695657,1.263148,0.6462975,0.05315685,2.43910131,1.798321,0.7440073,2.852635,0.0008285709,Positive,Student's t test,t,5.204783,,10,0.0003985327,Student's t test,t,2.227984,,16,0.04057874,,,,,,Cohen's d,3.004983,0.9704614,1.251697,4.695657,1.263148,0.6462975,0.05315685,2.43910131,1.798321,0.7440073,2.852635,0.0008285709,,"4C,4D,S1",Yes,Yes,Yes,Yes,3,0,0,0,,,,Animal,"cell culture,animal care,animal injection (cells, drug,IP)","cell,animal",1,Core4,1.0,Tumor xenograft experiment testing efficacy of cimetidine in inhibiting the growth of tumors in SCID mice,30.0,61,61,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,Student's t test,Yes,,Discovery and Preclinical Validation of Drug Indications Using Compendia of Public Gene Expression Data,2011,Science Translational Medicine,8,https://osf.io/hxrmm/,2014-08-18,25000,9181.72,11181.72,11838.11,42039,42109,https://elifesciences.org/articles/06847,42163,42251,Yes,,42478,42579,https://elifesciences.org/articles/17044,Yes,Yes,Yes,1,Core4,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,TRUE,TRUE,p21e1o2,1,p21e1,3.004983,Cohen's d,1.251697,4.695657,1.263148,0.05315685,2.43910131,0.9704614,0.608670485483413,0.94179532888996,0.370479759898614,3.004983,1.251697,4.695657,1.263148,0.05315685,2.43910131,0.878577368555116,0.608670485483413,0.771898192537232,0.370479759898614
+163,163,163,163,21,1,3,1,Relative tumor volume of ACHN xenografts treated with cimetidine vs vehicle,Null,Null-negative,12,30,Yes,Student's t test,Student's t test,t,1.053297,,10,0.31699,Mann-Whitney,z,-0.7258662,,,0.4863648,No,,,,,,,Cohen's d,0.6081211,0.6497605,-0.5678437,1.7556535,-0.181138,0.378794,-0.8967692,0.5376991,0.01906007,-0.622329,0.6604491,0.9535543,Null-negative,Student's t test,t,1.053297,,10,0.31699,Student's t test,t,-0.8826982,,28,0.3849151,,,,,,Cohen's d,0.6081211,0.6497605,-0.5678437,1.7556535,-0.181138,0.378794,-0.8967692,0.5376991,0.01906007,-0.622329,0.6604491,0.9535543,,"4C,4D,S1",Yes,Yes,Yes,Yes,3,0,0,0,,,,Animal,"cell culture,animal care,animal injection (cells, drug,IP)","cell,animal",1,Core4,1.0,Tumor xenograft experiment testing efficacy of cimetidine in inhibiting the growth of tumors in SCID mice,30.0,61,61,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,Student's t test,Yes,,Discovery and Preclinical Validation of Drug Indications Using Compendia of Public Gene Expression Data,2011,Science Translational Medicine,8,https://osf.io/hxrmm/,2014-08-18,25000,9181.72,11181.72,11838.11,42039,42109,https://elifesciences.org/articles/06847,42163,42251,Yes,,42478,42579,https://elifesciences.org/articles/17044,Yes,Yes,Yes,1,Core4,,FALSE,FALSE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,TRUE,TRUE,p21e1o3,1,p21e1,0.6081211,Cohen's d,-0.5678437,1.7556535,-0.181138,-0.8967692,0.5376991,0.6497605,0.365942515095916,0.42218870736025,0.133913924354725,0.6081211,-0.5678437,1.7556535,-0.181138,-0.8967692,0.5376991,0.592739769283377,0.365942515095916,0.351340434090111,0.133913924354725
+171,171,171,171,24,1,1,1,PTEN-3'UTR luciferase reporter activity of siNC vs siSERINC1,Positive,Null-negative,8,8,Yes,Student's t test,Student's t test,t,5.114467,,6,0.002190081,Student's t test,t,-0.1767,,6,0.8655577,No,,,,,,,Cohen's d,3.616474,1.455979,1.147255,6.003115,-0.1249458,0.8175581,-1.507507,1.267743,0.7719412,-0.625244,2.169126,0.2788639,Null-negative,Student's t test,t,5.114467,,6,0.002190081,Student's t test,t,-0.1767,,6,0.8655577,,,,,,Cohen's d,3.616474,1.455979,1.147255,6.003115,-0.1249458,0.8175581,-1.507507,1.267743,0.7719412,-0.625244,2.169126,0.2788639,,"3C,S3A",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,luciferase assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,1.0,ceRNA depletion on PTEN-3'UTR luciferase reporter activity,4.0,4,4,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e1o1,1,p24e1,3.616474,Cohen's d,1.147255,6.003115,-0.1249458,-1.507507,1.267743,1.455979,0.707984948165073,2.119874848441,0.501242686828301,3.616474,1.147255,6.003115,-0.1249458,-1.507507,1.267743,1.23876255847108,0.707984948165073,1.5345326762698,0.501242686828301
+172,172,172,172,24,1,2,1,PTEN-3'UTR luciferase reporter activity of siNC vs siZNF460,Null,Null-positive,8,8,No,,Student's t test,t,1.319308,,6,0.2351748,Student's t test,t,0.899187,,6,0.4031949,No,,,,,,,Cohen's d,0.9328917,0.8737077,-0.5789872,2.378636,0.6358212,0.8435552,-0.8181923,2.041438,0.7791419,-0.4102885,1.9685724,0.1991827,Null-positive,Student's t test,t,1.319308,,6,0.2351748,Student's t test,t,0.899187,,6,0.4031949,,,,,,Cohen's d,0.9328917,0.8737077,-0.5789872,2.378636,0.6358212,0.8435552,-0.8181923,2.041438,0.7791419,-0.4102885,1.9685724,0.1991827,assumed original study did not perform a statistical test since there was no 'n.s' for this comparison,"3C,S3A",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,luciferase assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,1.0,ceRNA depletion on PTEN-3'UTR luciferase reporter activity,4.0,4,4,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,FALSE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e1o2,1,p24e1,0.9328917,Cohen's d,-0.5789872,2.378636,0.6358212,-0.8181923,2.041438,0.8737077,0.729510930444743,0.76336514503929,0.532186197638354,0.9328917,-0.5789872,2.378636,0.6358212,-0.8181923,2.041438,0.754509578576279,0.729510930444742,0.569284704163354,0.532186197638354
+173,173,173,173,24,1,3,1,PTEN-3'UTR luciferase reporter activity of siNC vs siVAPA,Positive,Null-positive,8,8,Yes,Student's t test,Welch's t test,t,10.79469,,3.576481,0.0007419815,Student's t test,t,0.2254175,,6,0.8291362,No,,,,,,,Glass' delta,5.653017,2.413732,1.227296,10.16045,0.1556105,0.7099548,-1.2475,1.534436,0.5933404,-0.741598,1.928279,0.3836747,Null-positive,Welch's t test,t,10.79469,,3.576481,0.0007419815,Student's t test,t,0.2254175,,6,0.8291362,,,,,,Glass' delta,5.653017,2.413732,1.227296,10.16045,0.1556105,0.7099548,-1.2475,1.534436,0.5933404,-0.741598,1.928279,0.3836747,,"3C,S3A",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,luciferase assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,1.0,ceRNA depletion on PTEN-3'UTR luciferase reporter activity,4.0,4,4,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e1o3,1,p24e1,5.653017,Glass' delta,1.227296,10.16045,0.1556105,-1.2475,1.534436,2.413732,0.709690591751572,5.826102167824,0.503660736020697,5.653017,1.227296,10.16045,0.1556105,-1.2475,1.534436,2.27890769179015,0.709690591751572,5.19342026770031,0.503660736020697
+174,174,174,174,24,1,4,1,PTEN-3'UTR luciferase reporter activity of siNC vs siCNOT6L,Positive,Null-positive,8,8,Yes,Student's t test,Welch's t test,t,6.044029,,3.925518,0.004015118,Student's t test,t,0.425898,,6,0.6850368,No,,,,,,,Glass' delta,3.252155,1.504245,0.407338,6.0475,0.3363867,0.7203189,-1.098502,1.720333,0.8802705,-0.3930659,2.153607,0.1754357,Null-positive,Welch's t test,t,6.044029,,3.925518,0.004015118,Student's t test,t,0.425898,,6,0.6850368,,,,,,Glass' delta,3.252155,1.504245,0.407338,6.0475,0.3363867,0.7203189,-1.098502,1.720333,0.8802705,-0.3930659,2.153607,0.1754357,,"3C,S3A",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,luciferase assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,1.0,ceRNA depletion on PTEN-3'UTR luciferase reporter activity,4.0,4,4,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e1o4,1,p24e1,3.252155,Glass' delta,0.407338,6.0475,0.3363867,-1.098502,1.720333,1.504245,0.719103774925104,2.262753020025,0.517110239111534,3.252155,0.407338,6.0475,0.3363867,-1.098502,1.720333,1.43884327581754,0.719103774925104,2.07026997236534,0.517110239111534
+175,175,175,175,24,1,5,1,PTEN-3'UTR luciferase reporter activity of siNC vs siPTEN,Positive,Positive,8,8,Yes,Student's t test,Welch's t test,t,17.05087,,3.085825,0.0003724277,Mann-Whitney,z,2.309401,,,0.02857143,No,,,,,,,Glass' delta,8.586207,3.575914,2.109776,15.2773,2.484508,1.236445,0.1009866,4.77607,3.136107,0.8457674,5.4264457,0.007280551,Positive,Welch's t test,t,17.05087,,3.085825,0.0003724277,Welch's t test,t,4.960165,,3.021432,0.01547023,,,,,,Glass' delta,8.586207,3.575914,2.109776,15.2773,2.484508,1.236445,0.1009866,4.77607,3.136107,0.8457674,5.4264457,0.007280551,,"3C,S3A",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,luciferase assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,1.0,ceRNA depletion on PTEN-3'UTR luciferase reporter activity,4.0,4,4,Yes,Yes,,0,,6,,1.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e1o5,1,p24e1,8.586207,Glass' delta,2.109776,15.2773,2.484508,0.1009866,4.77607,3.575914,1.19264523146253,12.787160935396,1.42240264813032,8.586207,2.109776,15.2773,2.484508,0.1009866,4.77607,3.35912396958917,1.19264523146253,11.2837138430685,1.42240264813032
+176,176,176,176,24,2,1,1,PTEN-3'UTR luciferase reporter activity of EV vs SERINC1-3'UTR,Positive,Negative,8,12,Yes,Student's t test,Student's t test,t,3.824188,,6,0.008718023,Student's t test,t,-3.320952,,10,0.007735024,No,,,,,,,Cohen's d,2.704109,1.216196,0.6200775,4.693687,-1.917353,0.7877655,-3.289486,-0.484107,-0.5514672,-1.8473606,0.7444263,0.4042459,Negative,Student's t test,t,3.824188,,6,0.008718023,Student's t test,t,-3.320952,,10,0.007735024,,,,,,Cohen's d,2.704109,1.216196,0.6200775,4.693687,-1.917353,0.7877655,-3.289486,-0.484107,-0.5514672,-1.8473606,0.7444263,0.4042459,,3D,Yes,Yes,Yes,Yes,2,4,1,0,Plasmids,Plasmids,Plasmids,Cell-based,"transfection (plasmid),cell culture,luciferase assay","cell,molecular",1,Core9,2.0,ceRNA overexpression on PTEN-3'UTR luciferase reporter activity,4.0,6,6,Yes,Yes,,0,,6,,2.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p24e2o1,1,p24e2,2.704109,Cohen's d,0.6200775,4.693687,-1.917353,-3.289486,-0.484107,1.216196,0.715671058786915,1.479132710416,0.512185064385183,2.704109,0.6200775,4.693687,-1.917353,-3.289486,-0.484107,1.03920519257806,0.715671058786914,1.07994743228119,0.512185064385183
+177,177,177,177,24,2,2,1,PTEN-3'UTR luciferase reporter activity of EV vs VAPA-3'UTR1,Positive,Negative,8,12,Yes,Student's t test,Welch's t test,t,4.110761,,4.392191,0.01214254,Student's t test,t,-3.132738,,10,0.0106408,No,,,,,,,Glass' delta,4.625142,2.016264,0.8937053,8.384744,-1.441733,0.735658,-2.826101,0.02658932,-0.7289709,-2.0834905,0.6255486,0.2915136,Negative,Welch's t test,t,4.110761,,4.392191,0.01214254,Student's t test,t,-3.132738,,10,0.0106408,,,,,,Glass' delta,4.625142,2.016264,0.8937053,8.384744,-1.441733,0.735658,-2.826101,0.02658932,-0.7289709,-2.0834905,0.6255486,0.2915136,,3D,Yes,Yes,Yes,Yes,2,4,1,0,Plasmids,Plasmids,Plasmids,Cell-based,"transfection (plasmid),cell culture,luciferase assay","cell,molecular",1,Core9,2.0,ceRNA overexpression on PTEN-3'UTR luciferase reporter activity,4.0,6,6,Yes,Yes,,0,,6,,2.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p24e2o2,1,p24e2,4.625142,Glass' delta,0.8937053,8.384744,-1.441733,-2.826101,0.02658932,2.016264,0.727740494851349,4.065320517696,0.529606227846486,4.625142,0.8937053,8.384744,-1.441733,-2.826101,0.02658932,1.91101437554168,0.727740494851349,3.65197594352697,0.529606227846486
+178,178,178,178,24,2,3,1,PTEN-3'UTR luciferase reporter activity of EV vs VAPA-3'UTR2,Positive,Negative,8,12,Yes,Student's t test,Student's t test,t,7.805821,,6,0.0002331278,Student's t test,t,-4.832133,,10,0.0006895721,No,,,,,,,Cohen's d,5.519549,2.012887,2.156096,8.832212,-2.789833,0.931123,-4.411396,-1.104969,-1.325189,-2.9815275,0.3311503,0.1168554,Negative,Student's t test,t,7.805821,,6,0.0002331278,Student's t test,t,-4.832133,,10,0.0006895721,,,,,,Cohen's d,5.519549,2.012887,2.156096,8.832212,-2.789833,0.931123,-4.411396,-1.104969,-1.325189,-2.9815275,0.3311503,0.1168554,,3D,Yes,Yes,Yes,Yes,2,4,1,0,Plasmids,Plasmids,Plasmids,Cell-based,"transfection (plasmid),cell culture,luciferase assay","cell,molecular",1,Core9,2.0,ceRNA overexpression on PTEN-3'UTR luciferase reporter activity,4.0,6,6,Yes,Yes,,0,,6,,2.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p24e2o3,1,p24e2,5.519549,Cohen's d,2.156096,8.832212,-2.789833,-4.411396,-1.104969,2.012887,0.843491774869507,4.051714074769,0.71147837427251,5.519549,2.156096,8.832212,-2.789833,-4.411396,-1.104969,1.703122111595,0.843491774869506,2.9006249270038,0.71147837427251
+179,179,179,179,24,2,4,1,PTEN-3'UTR luciferase reporter activity of EV vs CNOT6L-3'UTR1,Positive,Negative,8,12,Yes,Student's t test,Student's t test,t,6.46204,,6,0.0006512861,Student's t test,t,-4.419996,,10,0.00129412,No,,,,,,,Cohen's d,4.569352,1.728165,1.66362,7.408486,-2.551886,0.8892285,-4.100061,-0.9400836,-1.061142,-2.6108754,0.4885912,0.1795838,Negative,Student's t test,t,6.46204,,6,0.0006512861,Student's t test,t,-4.419996,,10,0.00129412,,,,,,Cohen's d,4.569352,1.728165,1.66362,7.408486,-2.551886,0.8892285,-4.100061,-0.9400836,-1.061142,-2.6108754,0.4885912,0.1795838,,3D,Yes,Yes,Yes,Yes,2,4,1,0,Plasmids,Plasmids,Plasmids,Cell-based,"transfection (plasmid),cell culture,luciferase assay","cell,molecular",1,Core9,2.0,ceRNA overexpression on PTEN-3'UTR luciferase reporter activity,4.0,6,6,Yes,Yes,,0,,6,,2.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p24e2o4,1,p24e2,4.569352,Cohen's d,1.66362,7.408486,-2.551886,-4.100061,-0.9400836,1.728165,0.80613149652889,2.986554267225,0.649847989695908,4.569352,1.66362,7.408486,-2.551886,-4.100061,-0.9400836,1.46555397071445,0.80613149652889,2.14784844107691,0.649847989695908
+180,180,180,180,24,2,5,1,PTEN-3'UTR luciferase reporter activity of EV vs CNOT6L-3'UTR2,Positive,Negative,8,12,Yes,Student's t test,Student's t test,t,6.654921,,6,0.0005563789,Welch's t test,t,-5.085004,,7.100732,0.001362887,No,,,,,,,Glass' delta,5.195923,2.235979,1.081294,9.369,-2.293205,0.9269369,-4.037522,-0.4709422,-1.194902,-2.8731697,0.4833649,0.1628752,Negative,Student's t test,t,6.654921,,6,0.0005563789,Welch's t test,t,-5.085004,,7.100732,0.001362887,,,,,,Glass' delta,5.195923,2.235979,1.081294,9.369,-2.293205,0.9269369,-4.037522,-0.4709422,-1.194902,-2.8731697,0.4833649,0.1628752,,3D,Yes,Yes,Yes,Yes,2,4,1,0,Plasmids,Plasmids,Plasmids,Cell-based,"transfection (plasmid),cell culture,luciferase assay","cell,molecular",1,Core9,2.0,ceRNA overexpression on PTEN-3'UTR luciferase reporter activity,4.0,6,6,Yes,Yes,,0,,6,,2.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p24e2o5,1,p24e2,5.195923,Glass' delta,1.081294,9.369,-2.293205,-4.037522,-0.4709422,2.235979,0.909858504577821,4.999602088441,0.827842498352588,5.195923,1.081294,9.369,-2.293205,-4.037522,-0.4709422,2.1142495641176,0.909858504577821,4.47005121937145,0.827842498352588
+181,181,181,181,24,2,6,1,PTEN-3'UTR luciferase reporter activity of EV vs PTEN-3'UTR,Positive,Negative,8,10,Yes,Student's t test,Welch's t test,t,11.76119,,3.325596,0.0007993519,Welch's t test,t,-7.502377,,5.602625,0.0003991548,No,,,,,,,Glass' delta,6.038505,2.564616,1.348041,10.82966,-3.154098,1.152461,-5.328959,-0.9197438,-1.609676,-3.6699937,0.4506416,0.1257021,Negative,Welch's t test,t,11.76119,,3.325596,0.0007993519,Welch's t test,t,-7.502377,,5.602625,0.0003991548,,,,,,Glass' delta,6.038505,2.564616,1.348041,10.82966,-3.154098,1.152461,-5.328959,-0.9197438,-1.609676,-3.6699937,0.4506416,0.1257021,,3D,Yes,Yes,Yes,Yes,2,4,1,0,Plasmids,Plasmids,Plasmids,Cell-based,"transfection (plasmid),cell culture,luciferase assay","cell,molecular",1,Core9,2.0,ceRNA overexpression on PTEN-3'UTR luciferase reporter activity,4.0,6,6,Yes,Yes,,0,,6,,2.0,No,,,,,,,,Yes,Student's t test,Yes,,Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p24e2o6,1,p24e2,6.038505,Glass' delta,1.348041,10.82966,-3.154098,-5.328959,-0.9197438,2.564616,1.12482046475837,6.577255227456,1.26522107793922,6.038505,1.348041,10.82966,-3.154098,-5.328959,-0.9197438,2.41882480361624,1.12482046475836,5.85071343058915,1.26522107793922
+182,182,182,182,24,3,1,1,PTEN expression of siNC vs siSERINC1 in wild-type HCT116 cells,Positive,Null-positive,8,6,Yes,Student's t test,Student's t test,t,7.789881,,6,0.0002357769,Student's t test,t,1.814961,,4,0.143716,No,,,,,,,Cohen's d,5.508277,2.009453,2.150352,8.815231,1.48191,1.188175,-0.4619813,3.302322,2.524959,0.5203869,4.5295313,0.01355781,Null-positive,Student's t test,t,7.789881,,6,0.0002357769,Student's t test,t,1.814961,,4,0.143716,,,,,,Cohen's d,5.508277,2.009453,2.150352,8.815231,1.48191,1.188175,-0.4619813,3.302322,2.524959,0.5203869,4.5295313,0.01355781,,"3G,3H,S3B",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,Western blot assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,3.0,ceRNA depletion on PTEN expression,4.0,4,4,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e3o1,1,p24e3,5.508277,Cohen's d,2.150352,8.815231,1.48191,-0.4619813,3.302322,2.009453,0.960299099802942,4.037901359209,0.92217436108234,5.508277,2.150352,8.815231,1.48191,-0.4619813,3.302322,1.70025547728727,0.960299099802942,2.89086868804535,0.92217436108234
+183,183,183,183,24,3,2,1,PTEN expression of siNC vs siVAPA in wild-type HCT116 cells,Positive,Positive,8,6,Yes,Student's t test,Student's t test,t,9.16309,,6,9.512535e-05,Student's t test,t,5.40547,,4,0.005671521,No,,,,,,,Cohen's d,6.479283,2.308946,2.638413,10.2841,4.413548,2.156939,1.040123,7.719426,5.376184,2.286914,8.465454,0.0006475369,Positive,Student's t test,t,9.16309,,6,9.512535e-05,Student's t test,t,5.40547,,4,0.005671521,,,,,,Cohen's d,6.479283,2.308946,2.638413,10.2841,4.413548,2.156939,1.040123,7.719426,5.376184,2.286914,8.465454,0.0006475369,,"3G,3H,S3B",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,Western blot assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,3.0,ceRNA depletion on PTEN expression,4.0,4,4,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e3o2,1,p24e3,6.479283,Cohen's d,2.638413,10.2841,4.413548,1.040123,7.719426,2.308946,1.70393513673861,5.331231630916,2.90339495021241,6.479283,2.638413,10.2841,4.413548,1.040123,7.719426,1.95046619741694,1.70393513673861,3.80431838726611,2.90339495021241
+184,184,184,184,24,3,3,1,PTEN expression of siNC vs siCNOT6L in wild-type HCT116 cells,Positive,Null-positive,8,6,Yes,Student's t test,Student's t test,t,8.748704,,6,0.0001234589,Student's t test,t,2.554485,,4,0.06300514,No,,,,,,,Cohen's d,6.186268,2.217855,2.492441,9.839689,2.085728,1.347469,-0.1010185,4.142058,3.191257,0.9341834,5.4483305,0.005585417,Null-positive,Student's t test,t,8.748704,,6,0.0001234589,Student's t test,t,2.554485,,4,0.06300514,,,,,,Cohen's d,6.186268,2.217855,2.492441,9.839689,2.085728,1.347469,-0.1010185,4.142058,3.191257,0.9341834,5.4483305,0.005585417,,"3G,3H,S3B",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,Western blot assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,3.0,ceRNA depletion on PTEN expression,4.0,4,4,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e3o3,1,p24e3,6.186268,Cohen's d,2.492441,9.839689,2.085728,-0.1010185,4.142058,2.217855,1.08243736453038,4.918880801025,1.17167064813148,6.186268,2.492441,9.839689,2.085728,-0.1010185,4.142058,1.87433240048138,1.08243736453038,3.51312194749428,1.17167064813148
+185,185,185,185,24,3,4,1,PTEN expression of siNC vs siPTEN in wild-type HCT116 cells,Positive,Positive,8,6,Yes,Student's t test,Welch's t test,t,23.63169,,3.003484,0.0001647319,Student's t test,t,10.01587,,4,0.0005585633,No,,,,,,,Glass' delta,11.81928,4.876736,3.029334,20.95182,5.788292,3.007116,0.5530485,11.30629,7.449714,2.432956,12.466472,0.003608749,Positive,Welch's t test,t,23.63169,,3.003484,0.0001647319,Student's t test,t,10.01587,,4,0.0005585633,,,,,,Glass' delta,11.81928,4.876736,3.029334,20.95182,5.788292,3.007116,0.5530485,11.30629,7.449714,2.432956,12.466472,0.003608749,,"3G,3H,S3B",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,Western blot assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,3.0,ceRNA depletion on PTEN expression,4.0,4,4,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e3o4,1,p24e3,11.81928,Glass' delta,3.029334,20.95182,5.788292,0.5530485,11.30629,4.876736,2.74322425943033,23.782554013696,7.52527933752706,11.81928,3.029334,20.95182,5.788292,0.5530485,11.30629,4.57214676937186,2.74322425943033,20.9045260806775,7.52527933752706
+186,186,186,186,24,3,5,1,PTEN expression of siNC vs siSERINC1 in Dicer-Ex5 HCT116 cells,Positive,Positive,8,8,No,,Student's t test,t,4.207805,,6,0.005636838,Student's t test,t,3.963494,,6,0.007422007,No,,,,,,,Cohen's d,2.975367,1.284645,0.7811132,5.077952,2.802613,1.240727,0.6790372,4.832643,2.885987,1.136819,4.635155,0.001221619,Positive,Student's t test,t,4.207805,,6,0.005636838,Student's t test,t,3.963494,,6,0.007422007,,,,,,Cohen's d,2.975367,1.284645,0.7811132,5.077952,2.802613,1.240727,0.6790372,4.832643,2.885987,1.136819,4.635155,0.001221619,assumed original study did not perform a statistical test since there was no '*' for this comparison,"3G,3H,S3B",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,Western blot assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,3.0,ceRNA depletion on PTEN expression,4.0,4,4,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e3o5,1,p24e3,2.975367,Cohen's d,0.7811132,5.077952,2.802613,0.6790372,4.832643,1.284645,1.05961278696015,1.650312776025,1.12277925828945,2.975367,0.7811132,5.077952,2.802613,0.6790372,4.832643,1.09615248899799,1.05961278696015,1.20155027913649,1.12277925828945
+187,187,187,187,24,3,6,1,PTEN expression of siNC vs siVAPA in Dicer-Ex5 HCT116 cells,Null,Null-positive,8,8,No,,Student's t test,t,1.421179,,6,0.2050917,Student's t test,t,0.8955753,,6,0.404974,No,,,,,,,Cohen's d,1.004925,0.8825389,-0.5231449,2.463199,0.6332674,0.8433417,-0.8203145,2.038622,0.8106597,-0.3843676,2.0056869,0.1836624,Null-positive,Student's t test,t,1.421179,,6,0.2050917,Student's t test,t,0.8955753,,6,0.404974,,,,,,Cohen's d,1.004925,0.8825389,-0.5231449,2.463199,0.6332674,0.8433417,-0.8203145,2.038622,0.8106597,-0.3843676,2.0056869,0.1836624,assumed original study did not perform a statistical test since there was no 'ns' for this comparison,"3G,3H,S3B",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,Western blot assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,3.0,ceRNA depletion on PTEN expression,4.0,4,4,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,FALSE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e3o6,1,p24e3,1.004925,Cohen's d,-0.5231449,2.463199,0.6332674,-0.8203145,2.038622,0.8825389,0.729333937396536,0.77887491001321,0.531927992238334,1.004925,-0.5231449,2.463199,0.6332674,-0.8203145,2.038622,0.761836422392427,0.729333937396536,0.580394734483692,0.531927992238334
+188,188,188,188,24,3,7,1,PTEN expression of siNC vs siCNOT6L in Dicer-Ex5 HCT116 cells,Positive,Positive,8,8,No,,Student's t test,t,3.992918,,6,0.007176665,Welch's t test,t,2.920492,,4.357305,0.03894628,No,,,,,,,Glass' delta,2.708333,1.312445,0.193857,5.142675,3.323902,1.530159,0.4344105,6.168055,2.969246,1.016731,4.921761,0.002877083,Positive,Student's t test,t,3.992918,,6,0.007176665,Welch's t test,t,2.920492,,4.357305,0.03894628,,,,,,Glass' delta,2.708333,1.312445,0.193857,5.142675,3.323902,1.530159,0.4344105,6.168055,2.969246,1.016731,4.921761,0.002877083,assumed original study did not perform a statistical test since there was no '*' for this comparison.,"3G,3H,S3B",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,Western blot assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,3.0,ceRNA depletion on PTEN expression,4.0,4,4,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e3o7,1,p24e3,2.708333,Glass' delta,0.193857,5.142675,3.323902,0.4344105,6.168055,1.312445,1.46269129056101,1.722511878025,2.13946581148305,2.708333,0.193857,5.142675,3.323902,0.4344105,6.168055,1.26247676973548,1.46269129056102,1.59384759412172,2.13946581148305
+189,189,189,189,24,3,8,1,PTEN expression of siNC vs siPTEN in Dicer-Ex5 HCT116 cells,Positive,Positive,8,8,Yes,Student's t test,Welch's t test,t,41.125,,3,3.163946e-05,Student's t test,t,4.149283,,6,0.006015906,No,,,,,,,Glass' delta,20.5625,8.424334,5.434002,35.36035,2.075854,1.103719,-0.07814925,4.119009,2.387824,0.2429054,4.5327423,0.02911516,Positive,Welch's t test,t,41.125,,3,3.163946e-05,Student's t test,t,4.149283,,6,0.006015906,,,,,,Glass' delta,20.5625,8.424334,5.434002,35.36035,2.075854,1.103719,-0.07814925,4.119009,2.387824,0.2429054,4.5327423,0.02911516,,"3G,3H,S3B",Yes,Yes,Yes,Yes,2,4,1,0,,,,Cell-based,"transfection (siRNA, plasmid),cell culture,Western blot assay,RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,3.0,ceRNA depletion on PTEN expression,4.0,4,4,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e3o8,1,p24e3,20.5625,Glass' delta,5.434002,35.36035,2.075854,-0.07814925,4.119009,8.424334,1.07072330999617,70.969403343556,1.14644840656915,20.5625,5.434002,35.36035,2.075854,-0.07814925,4.119009,7.6344127331051,1.07072330999617,58.2842577793973,1.14644840656915
+190,190,190,190,24,4,1,1,cell proliferation of siNC vs siVAPA in wild-type HCT116 cells,Positive,Positive,6,8,Yes,Student's t test,Student's t test,t,7.456842,,4,0.001728131,Student's t test,t,3.071358,,6,0.02190393,No,,,,,,,Cohen's d,6.088486,2.819674,1.742122,10.42311,2.171778,1.091208,0.2904801,3.956579,2.681964,0.6873877,4.6765413,0.008403245,Positive,Student's t test,t,7.456842,,4,0.001728131,Student's t test,t,3.071358,,6,0.02190393,,,,,,Cohen's d,6.088486,2.819674,1.742122,10.42311,2.171778,1.091208,0.2904801,3.956579,2.681964,0.6873877,4.6765413,0.008403245,,5B,Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,4.0,ceRNA depletion on cell proliferation,3.0,5,5,Yes,Yes,,0,,6,,4.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e4o1,1,p24e4,6.088486,Cohen's d,1.742122,10.42311,2.171778,0.2904801,3.956579,2.819674,0.935246496598336,7.950561466276,0.874686009399461,6.088486,1.742122,10.42311,2.171778,0.2904801,3.956579,2.21457844850072,0.935246496598336,4.90435770456385,0.874686009399461
+191,191,191,191,24,4,2,1,cell proliferation of siNC vs siCNOT6L in wild-type HCT116 cells,Positive,Null-positive,6,8,Yes,Student's t test,Student's t test,t,9.946121,,4,0.0005738803,Student's t test,t,0.6022279,,6,0.5690665,No,,,,,,,Cohen's d,8.120974,3.655908,2.537121,13.75216,0.4258394,0.8287433,-0.996725,1.814815,0.8019394,-0.7821764,2.3860552,0.3210961,Null-positive,Student's t test,t,9.946121,,4,0.0005738803,Student's t test,t,0.6022279,,6,0.5690665,,,,,,Cohen's d,8.120974,3.655908,2.537121,13.75216,0.4258394,0.8287433,-0.996725,1.814815,0.8019394,-0.7821764,2.3860552,0.3210961,,5B,Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,4.0,ceRNA depletion on cell proliferation,3.0,5,5,Yes,Yes,,0,,6,,4.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e4o2,1,p24e4,8.120974,Cohen's d,2.537121,13.75216,0.4258394,-0.996725,1.814815,3.655908,0.717242771340971,13.365663304464,0.514437193040876,8.120974,2.537121,13.75216,0.4258394,-0.996725,1.814815,2.86103190886741,0.717242771340971,8.18550358355749,0.514437193040876
+192,192,192,192,24,4,3,1,cell proliferation of siNC vs siPTEN in wild-type HCT116 cells,Positive,Positive,6,8,Yes,Student's t test,Student's t test,t,10.03484,,4,0.0005544865,Student's t test,t,3.34189,,6,0.01557516,No,,,,,,,Cohen's d,8.193411,3.686088,2.564739,13.87136,2.363073,1.134515,0.4112248,4.218505,2.86759,0.742366,4.992814,0.008178689,Positive,Student's t test,t,10.03484,,4,0.0005544865,Student's t test,t,3.34189,,6,0.01557516,,,,,,Cohen's d,8.193411,3.686088,2.564739,13.87136,2.363073,1.134515,0.4112248,4.218505,2.86759,0.742366,4.992814,0.008178689,,5B,Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,4.0,ceRNA depletion on cell proliferation,3.0,5,5,Yes,Yes,,0,,6,,4.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e4o3,1,p24e4,8.193411,Cohen's d,2.564739,13.87136,2.363073,0.4112248,4.218505,3.686088,0.971262796161394,13.587244743744,0.94335141920725,8.193411,2.564739,13.87136,2.363073,0.4112248,4.218505,2.88439509327344,0.971262796161394,8.31973505409992,0.94335141920725
+193,193,193,193,24,4,4,1,cell proliferation of siPTEN vs siVAPA in Dicer-Ex5 HCT116 cells,Positive,Null-positive,6,8,Yes,Student's t test,Student's t test,t,5.922951,,4,0.004070677,Student's t test,t,2.108672,,6,0.07951859,No,,,,,,,Cohen's d,4.836069,2.320597,1.223106,8.396053,1.491057,0.9558736,-0.1653935,3.059672,1.976274,0.243998,3.70855,0.02534963,Null-positive,Student's t test,t,5.922951,,4,0.004070677,Student's t test,t,2.108672,,6,0.07951859,,,,,,Cohen's d,4.836069,2.320597,1.223106,8.396053,1.491057,0.9558736,-0.1653935,3.059672,1.976274,0.243998,3.70855,0.02534963,,5B,Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,4.0,ceRNA depletion on cell proliferation,3.0,5,5,Yes,Yes,,0,,6,,4.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e4o4,1,p24e4,4.836069,Cohen's d,1.223106,8.396053,1.491057,-0.1653935,3.059672,2.320597,0.822735908781719,5.385170436409,0.676894375598881,4.836069,1.223106,8.396053,1.491057,-0.1653935,3.059672,1.82986704260366,0.822735908781719,3.34841339360708,0.676894375598881
+194,194,194,194,24,4,5,1,cell proliferation of siPTEN vs siCNOT6L in Dicer-Ex5 HCT116 cells,Positive,Positive,6,8,Yes,Student's t test,Welch's t test,t,4.5802,,2.835155,0.0220685,Student's t test,t,3.428638,,6,0.01399455,No,,,,,,,Glass' delta,2.919355,1.672521,-0.1722412,5.970023,2.839691,1.35793,0.2468907,5.359584,2.871341,0.8051183,4.9375644,0.006455947,Positive,Welch's t test,t,4.5802,,2.835155,0.0220685,Student's t test,t,3.428638,,6,0.01399455,,,,,,Glass' delta,2.919355,1.672521,-0.1722412,5.970023,2.839691,1.35793,0.2468907,5.359584,2.871341,0.8051183,4.9375644,0.006455947,,5B,Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,4.0,ceRNA depletion on cell proliferation,3.0,5,5,Yes,Yes,,0,,6,,4.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e4o5,1,p24e4,2.919355,Glass' delta,-0.1722412,5.970023,2.839691,0.2468907,5.359584,1.672521,1.30428246139426,2.797326495441,1.70115273910067,2.919355,-0.1722412,5.970023,2.839691,0.2468907,5.359584,1.56693292541327,1.30428246139426,2.4552787927442,1.70115273910067
+195,195,195,195,24,4,6,1,cell proliferation of siNC vs siPTEN in Dicer-Ex5 HCT116 cells,Positive,Positive,6,8,Yes,Student's t test,Welch's t test,t,13.28773,,2.005994,0.005551034,Student's t test,t,4.855373,,6,0.002836135,No,,,,,,,Glass' delta,7.677419,3.924584,0.9427065,14.88883,2.677871,1.301985,0.1814093,5.092549,3.173561,0.7515215,5.5956001,0.01022545,Positive,Welch's t test,t,13.28773,,2.005994,0.005551034,Student's t test,t,4.855373,,6,0.002836135,,,,,,Glass' delta,7.677419,3.924584,0.9427065,14.88883,2.677871,1.301985,0.1814093,5.092549,3.173561,0.7515215,5.5956001,0.01022545,,5B,Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,4.0,ceRNA depletion on cell proliferation,3.0,5,5,Yes,Yes,,0,,6,,4.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e4o6,1,p24e4,7.677419,Glass' delta,0.9427065,14.88883,2.677871,0.1814093,5.092549,3.924584,1.25286478188845,15.402359573056,1.5696701616964,7.677419,0.9427065,14.88883,2.677871,0.1814093,5.092549,3.55774994081658,1.25286478188845,12.6575846413804,1.5696701616964
+196,196,196,196,24,4,7,1,cell proliferation of siNC vs siVAPA in DU145 cells,Positive,Null-positive,6,10,Yes,Student's t test,Welch's t test,t,6.066082,,2.413834,0.01632962,Student's t test,t,0.5407342,,8,0.6034163,No,,,,,,,Glass' delta,3.680851,2.013413,0.04586493,7.362028,0.4207117,0.6497113,-0.8743082,1.667941,0.7281735,-0.4837033,1.9400502,0.2389273,Null-positive,Welch's t test,t,6.066082,,2.413834,0.01632962,Student's t test,t,0.5407342,,8,0.6034163,,,,,,Glass' delta,3.680851,2.013413,0.04586493,7.362028,0.4207117,0.6497113,-0.8743082,1.667941,0.7281735,-0.4837033,1.9400502,0.2389273,,5B,Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,4.0,ceRNA depletion on cell proliferation,3.0,5,5,Yes,Yes,,0,,6,,4.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e4o7,1,p24e4,3.680851,Glass' delta,0.04586493,7.362028,0.4207117,-0.8743082,1.667941,2.013413,0.648544876347968,4.053831908569,0.420610456637201,3.680851,0.04586493,7.362028,0.4207117,-0.8743082,1.667941,1.8664024256846,0.648544876347968,3.48345801460134,0.420610456637201
+197,197,197,197,24,4,8,1,cell proliferation of siNC vs siCNOT6L in DU145 cells,Positive,Null-negative,6,10,Yes,Student's t test,Student's t test,t,3.855255,,4,0.01822076,Student's t test,t,-1.030908,,8,0.3327408,No,,,,,,,Cohen's d,3.147803,1.690525,0.4555848,5.730333,-0.6520032,0.7302134,-1.912009,0.6455526,-0.05452481,-1.368388,1.259338,0.9351733,Null-negative,Student's t test,t,3.855255,,4,0.01822076,Student's t test,t,-1.030908,,8,0.3327408,,,,,,Cohen's d,3.147803,1.690525,0.4555848,5.730333,-0.6520032,0.7302134,-1.912009,0.6455526,-0.05452481,-1.368388,1.259338,0.9351733,,5B,Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,4.0,ceRNA depletion on cell proliferation,3.0,5,5,Yes,Yes,,0,,6,,4.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e4o8,1,p24e4,3.147803,Cohen's d,0.4555848,5.730333,-0.6520032,-1.912009,0.6455526,1.690525,0.652451172616875,2.857874775625,0.425692532649135,3.147803,0.4555848,5.730333,-0.6520032,-1.912009,0.6455526,1.34562375676455,0.652451172616875,1.81070329476914,0.425692532649135
+198,198,198,198,24,4,9,1,cell proliferation of siNC vs siPTEN in DU145 cells,Positive,Positive,6,10,Yes,Student's t test,Student's t test,t,6.711864,,4,0.002565041,Student's t test,t,2.568878,,8,0.03318543,No,,,,,,,Cohen's d,5.480214,2.5751,1.493808,9.435297,1.624701,0.8403707,0.123476,3.055395,1.995795,0.4299706,3.5616198,0.01248384,Positive,Student's t test,t,6.711864,,4,0.002565041,Student's t test,t,2.568878,,8,0.03318543,,,,,,Cohen's d,5.480214,2.5751,1.493808,9.435297,1.624701,0.8403707,0.123476,3.055395,1.995795,0.4299706,3.5616198,0.01248384,,5B,Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"transfection (siRNA),cell culture,cell proliferation/viability assay (Crystal violet),RNA extraction,qRT-PCR,microscopy (fluorescence)","cell,immuno,molecular",1,Core9,4.0,ceRNA depletion on cell proliferation,3.0,5,5,Yes,Yes,,0,,6,,4.0,No,,,,,,,,Yes,Student's t test,Yes,"A key material was asked to be shared (Cells), but were not coded since it was commercially available",Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.,2011,Cell,13,https://osf.io/oblj1/,2015-02-24,25000,33415.68,43110.89,62894.9,42331,42404,https://elifesciences.org/articles/12470,42445,43349,Partial,Western blot results with the phospho-AKT antibody were inconsistent and largely absent of a signal.,43977,44092,https://elifesciences.org/articles/56651,Yes,No,Yes,1,Core9,,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,FALSE,TRUE,FALSE,TRUE,p24e4o9,1,p24e4,5.480214,Cohen's d,1.493808,9.435297,1.624701,0.123476,3.055395,2.5751,0.747952264206537,6.63114001,0.559432589531686,5.480214,1.493808,9.435297,1.624701,0.123476,3.055395,2.02592727790956,0.747952264206537,4.10438133537803,0.559432589531686
+214,214,214,214,28,2,1,1,Tumor weights of LAPC4 cells expressing miR-34a vs negative control,Positive,Null-negative,12,14,Yes,Student's t test,Welch's t test,t,2.873817,,5.786097,0.0294672,Student's t test,t,-0.3777682,,12,0.7121999,No,,,,,,,Glass' delta,1.21875,0.6941675,-0.1704775,2.5274522,-0.1689181,0.5367421,-1.2139127,0.8896899,0.3502983,-0.4819325,1.1825291,0.4093841,Null-negative,Welch's t test,t,2.873817,,5.786097,0.0294672,Student's t test,t,-0.3777682,,12,0.7121999,,,,,,Glass' delta,1.21875,0.6941675,-0.1704775,2.5274522,-0.1689181,0.5367421,-1.2139127,0.8896899,0.3502983,-0.4819325,1.1825291,0.4093841,statistical test of original listed in methods.,"4A,S4A,S4B,S5C",Yes,Yes,Yes,Yes,2,3,1,0,Cells,Cells,Cells,Animal,"cell culture,animal care,animal injection (cells, SC),animal surgery (incision, drug),tissue harvesting,cell isolation,viral transduction,Western blot assay,RNA extraction,qRT-PCR","cell,immuno,animal,molecular",1,CRO16,"4,5,6",Effect of miR-34a expression on tumor growth and CD44 expression,12.0,14,14,Yes,Yes,,5,LAPC4 cells did not form tumors (new source obtained from original lab that isolated cells); Infection protocol optimized to achieve high transduction efficiency; Unable to detect miR-34a in tumors (performed PCR to detect GFP marker),5,,2.0,No,,,,,,,,Yes,Student's t test,Yes,,The microRNA miR-34a inhibits prostate cancer stem cells and metastasis by directly repressing CD44.,2011,Nature Medicine,15,https://osf.io/gb7sr/,2014-05-09,25000,55088,46909.55,59566.4,42017,42195,https://elifesciences.org/articles/06434,42272,43367,Yes,,43413,43521,https://elifesciences.org/articles/43511,Yes,Yes,Yes,1,CRO16,,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,TRUE,TRUE,p28e2o1,1,p28e2,1.21875,Glass' delta,-0.1704775,2.5274522,-0.1689181,-1.2139127,0.8896899,0.6941675,0.536643177270845,0.48186851805625,0.287985899711348,1.21875,-0.1704775,2.5274522,-0.1689181,-1.2139127,0.8896899,0.688260019388347,0.536643177270845,0.473701854288448,0.287985899711348
+217,217,217,217,28,3,1,1,Luciferase values of miR-34a expression with wild-type reporter vs M1M2 reporter,Positive,Null-positive,6,32,No,,Student's t test,t,1.036113,,4,0.3586755,Mann-Whitney,z,0.904534,,,0.3808965,No,,,,,,,Cohen's d,0.8459824,1.064984,-0.8959904,2.4987841,0.2600372,0.3667908,-0.4381443,0.9539404,0.3221707,-0.3575423,1.0018836,0.3528971,Null-positive,Student's t test,t,1.036113,,4,0.3586755,Student's t test,t,1.114752,,30,0.2738076,,,,,,Cohen's d,0.8459824,1.064984,-0.8959904,2.4987841,0.2600372,0.3667908,-0.4381443,0.9539404,0.3221707,-0.3575423,1.0018836,0.3528971,,4D,No,No,No,Yes,2,5,0,0,Plasmids,Plasmids,Plasmids,Cell-based,"transfection (plasmid, oligo),cell culture,luciferase assay","cell,molecular",1,CRO16,7.0,Luciferase assay to evaluate putative miR-34a binding sites in the 3'UTR of CD44,3.0,16,16,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,,The microRNA miR-34a inhibits prostate cancer stem cells and metastasis by directly repressing CD44.,2011,Nature Medicine,15,https://osf.io/gb7sr/,2014-05-09,25000,55088,46909.55,59566.4,42017,42195,https://elifesciences.org/articles/06434,42272,43367,Yes,,43413,43521,https://elifesciences.org/articles/43511,Yes,Yes,Yes,1,CRO16,,FALSE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p28e3o1,1,p28e3,0.8459824,Cohen's d,-0.8959904,2.4987841,0.2600372,-0.4381443,0.9539404,1.064984,0.35513017355946,1.134190920256,0.126117440172372,0.8459824,-0.8959904,2.4987841,0.2600372,-0.4381443,0.9539404,0.866029816562332,0.35513017355946,0.750007643174986,0.126117440172372
+218,218,218,218,28,3,2,1,Luciferase values of miR-34a expression with wild-type reporter vs control expression with wild-type reporter,Positive,Null-positive,3,16,Yes,Student's t test,one-sample t test,t,3.783908,,2,0.06328464,Wilcoxon signed-rank test,z,0.5170877,,,0.6321716,No,,,,,,,Cohen's d,2.18464,1.062438,-0.0856468,4.4395266,0.02047842,0.2500262,-0.4699046,0.5101851,0.1340432,-0.3429683,0.6110548,0.5817967,Null-positive,one-sample t test,t,3.783908,,2,0.06328464,one-sample t test,t,0.08191368,,15,0.9357984,,,,,,Cohen's d,2.18464,1.062438,-0.0856468,4.4395266,0.02047842,0.2500262,-0.4699046,0.5101851,0.1340432,-0.3429683,0.6110548,0.5817967,statistical test of original listed in methods.,4D,No,No,No,Yes,2,5,0,0,Plasmids,Plasmids,Plasmids,Cell-based,"transfection (plasmid, oligo),cell culture,luciferase assay","cell,molecular",1,CRO16,7.0,Luciferase assay to evaluate putative miR-34a binding sites in the 3'UTR of CD44,3.0,16,16,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,,The microRNA miR-34a inhibits prostate cancer stem cells and metastasis by directly repressing CD44.,2011,Nature Medicine,15,https://osf.io/gb7sr/,2014-05-09,25000,55088,46909.55,59566.4,42017,42195,https://elifesciences.org/articles/06434,42272,43367,Yes,,43413,43521,https://elifesciences.org/articles/43511,Yes,Yes,Yes,1,CRO16,,FALSE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p28e3o2,1,p28e3,2.18464,Cohen's d,-0.0856468,4.4395266,0.02047842,-0.4699046,0.5101851,1.062438,0.250027476966624,1.128774503844,0.0625137392382955,2.18464,-0.0856468,4.4395266,0.02047842,-0.4699046,0.5101851,1.15440218179875,0.250027476966624,1.3326443973417,0.0625137392382955
+219,219,219,219,28,3,3,1,Luciferase values of miR-34a expression with M1M2 reporter vs control expression with M1M2 reporter,Null,Null-negative,3,16,No,,one-sample t test,t,3.661667,,2,0.06715723,Wilcoxon signed-rank test,z,-0.3102526,,,0.7819519,No,,,,,,,Cohen's d,2.114064,1.03837,-0.1067127,4.311473,-0.3576466,0.2578706,-0.8582565,0.1540444,-0.2140625,-0.7045798,0.2764548,0.3923677,Null-negative,one-sample t test,t,3.661667,,2,0.06715723,one-sample t test,t,-1.430586,,15,0.1730503,,,,,,Cohen's d,2.114064,1.03837,-0.1067127,4.311473,-0.3576466,0.2578706,-0.8582565,0.1540444,-0.2140625,-0.7045798,0.2764548,0.3923677,,4D,No,No,No,Yes,2,5,0,0,Plasmids,Plasmids,Plasmids,Cell-based,"transfection (plasmid, oligo),cell culture,luciferase assay","cell,molecular",1,CRO16,7.0,Luciferase assay to evaluate putative miR-34a binding sites in the 3'UTR of CD44,3.0,16,16,Yes,Yes,,0,,6,,3.0,No,,,,,,,,Yes,Student's t test,Yes,,The microRNA miR-34a inhibits prostate cancer stem cells and metastasis by directly repressing CD44.,2011,Nature Medicine,15,https://osf.io/gb7sr/,2014-05-09,25000,55088,46909.55,59566.4,42017,42195,https://elifesciences.org/articles/06434,42272,43367,Yes,,43413,43521,https://elifesciences.org/articles/43511,Yes,Yes,Yes,1,CRO16,,FALSE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,FALSE,TRUE,p28e3o3,1,p28e3,2.114064,Cohen's d,-0.1067127,4.311473,-0.3576466,-0.8582565,0.1540444,1.03837,0.258244770818469,1.0782122569,0.0666903616550837,2.114064,-0.1067127,4.311473,-0.3576466,-0.8582565,0.1540444,1.12710889966604,0.258244770818469,1.27037447170638,0.0666903616550837
+222,222,222,222,29,2,1,1,Relative BCL2 expression of MV4;11 cells treated with I-BET151 vs constant of 1 (DMSO treated cells),Positive,Positive,3,3,No,,one-sample t test,t,45.03332,,2,0.0004927322,one-sample t test,t,17.85735,,2,0.003121253,No,,,,,,,Cohen's d,26,10.63015,4.098563,48.254647,10.30995,4.248431,1.540743,19.855333,12.47091,4.738786,20.203031,0.001571383,Positive,one-sample t test,t,45.03332,,2,0.0004927322,one-sample t test,t,17.85735,,2,0.003121253,,,,,,Cohen's d,26,10.63015,4.098563,48.254647,10.30995,4.248431,1.540743,19.855333,12.47091,4.738786,20.203031,0.001571383,,3D,Yes,Yes,Yes,Yes,3,0,0,0,Cells,No,No,Cell-based,"cell culture,RNA extraction,qRT-PCR","cell,molecular",1,CRO3,3.0,BCL2 expression in I-BET151 treated MV4;11 and K-562 cells,3.0,3,3,Yes,Yes,,0,,6,,2.0,No,,,,,,,,No,,Yes,,Inhibition of BET recruitment to chromatin as an effective treatment for MLL-fusion leukaemia,2011,Nature,27,https://osf.io/hcqqy/,2014-08-18,25000,59875.98,59875.98,65936.13,42157,42220,https://elifesciences.org/articles/08997,42264,42569,Yes,,42758,42877,https://elifesciences.org/articles/25306,Yes,Yes,Yes,2,"Core11,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,TRUE,FALSE,FALSE,TRUE,p29e2o1,1,p29e2,26,Cohen's d,4.098563,48.254647,10.30995,1.540743,19.855333,10.63015,4.67217513802885,113.0000890225,21.8292205204149,26,4.098563,48.254647,10.30995,1.540743,19.855333,11.2645141309477,4.67217513802885,126.88927860632,21.8292205204149
+223,223,223,223,29,2,2,1,Relative BCL2 expression of K-562 cells treated with I-BET151 vs constant of 1 (DMSO treated cells),Null,Null-negative,3,3,No,,one-sample t test,t,2.251666,,2,0.1531738,one-sample t test,t,-3.526419,,2,0.07185459,No,,,,,,,Cohen's d,1.3,0.7842194,-0.3837554,2.8812568,-2.035979,1.012028,-4.1703266,0.1304595,0.04839863,-1.166562,1.263359,0.9377674,Null-negative,one-sample t test,t,2.251666,,2,0.1531738,one-sample t test,t,-3.526419,,2,0.07185459,,,,,,Cohen's d,1.3,0.7842194,-0.3837554,2.8812568,-2.035979,1.012028,-4.1703266,0.1304595,0.04839863,-1.166562,1.263359,0.9377674,,3D,Yes,Yes,Yes,Yes,3,0,0,0,Cells,No,No,Cell-based,"cell culture,RNA extraction,qRT-PCR","cell,molecular",1,CRO3,3.0,BCL2 expression in I-BET151 treated MV4;11 and K-562 cells,3.0,3,3,Yes,Yes,,0,,6,,2.0,No,,,,,,,,No,,Yes,,Inhibition of BET recruitment to chromatin as an effective treatment for MLL-fusion leukaemia,2011,Nature,27,https://osf.io/hcqqy/,2014-08-18,25000,59875.98,59875.98,65936.13,42157,42220,https://elifesciences.org/articles/08997,42264,42569,Yes,,42758,42877,https://elifesciences.org/articles/25306,Yes,Yes,Yes,2,"Core11,CRO3",,FALSE,FALSE,a. GTE moderate success,1,0,0,a.No,1,0,0,TRUE,FALSE,FALSE,TRUE,p29e2o2,1,p29e2,1.3,Cohen's d,-0.3837554,2.8812568,-2.035979,-4.1703266,0.1304595,0.7842194,1.09715947178725,0.61500006733636,1.20375890653248,1.3,-0.3837554,2.8812568,-2.035979,-4.1703266,0.1304595,0.832926580731585,1.09715947178725,0.69376668888921,1.20375890653248
+224,224,224,224,29,2,3,1,Relative BCL2 expression of MV4;11 cells treated with I-BET151 vs K-562 cells treated with I-BET151,Positive,Positive,6,6,No,,Student's t test,t,21.23866,,4,2.905701e-05,Student's t test,t,17.22888,,4,6.659353e-05,No,,,,,,,Cohen's d,17.3413,7.575296,5.896563,29.037485,14.06732,6.172865,4.725533,23.594545,15.37377,5.994763,24.752782,0.001314888,Positive,Student's t test,t,21.23866,,4,2.905701e-05,Student's t test,t,17.22888,,4,6.659353e-05,,,,,,Cohen's d,17.3413,7.575296,5.896563,29.037485,14.06732,6.172865,4.725533,23.594545,15.37377,5.994763,24.752782,0.001314888,,3D,Yes,Yes,Yes,Yes,3,0,0,0,Cells,No,No,Cell-based,"cell culture,RNA extraction,qRT-PCR","cell,molecular",1,CRO3,3.0,BCL2 expression in I-BET151 treated MV4;11 and K-562 cells,3.0,3,3,Yes,Yes,,0,,6,,2.0,No,,,,,,,,No,,Yes,,Inhibition of BET recruitment to chromatin as an effective treatment for MLL-fusion leukaemia,2011,Nature,27,https://osf.io/hcqqy/,2014-08-18,25000,59875.98,59875.98,65936.13,42157,42220,https://elifesciences.org/articles/08997,42264,42569,Yes,,42758,42877,https://elifesciences.org/articles/25306,Yes,Yes,Yes,2,"Core11,CRO3",,TRUE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,TRUE,FALSE,FALSE,TRUE,p29e2o3,1,p29e2,17.3413,Cohen's d,5.896563,29.037485,14.06732,4.725533,23.594545,7.575296,4.81361192063639,57.385109487616,23.1708597224928,17.3413,5.896563,29.037485,14.06732,4.725533,23.594545,5.90340490502189,4.81361192063639,34.8501894726365,23.1708597224928
+225,225,225,225,29,3,1,1,Survival of I-BET151 vs vehicle control,Positive,Null-positive,10,23,Yes,unknown,Log-rank Mantel-Cox test,chi-squared,5.660873,,1,0.01734749,Log-rank Mantel-Cox test,chi-squared,0.383156,,1,0.535919,No,,,,,,,Hazard ratio,10.32306,1.038819,1.508854,70.626861,1.439196,2.890483,0.4544079,4.558209,2.422953,0.9014309,6.5126457,0.07938555,Null-positive,Log-rank Mantel-Cox test,chi-squared,5.660873,,1,0.01734749,Log-rank Mantel-Cox test,chi-squared,0.383156,,1,0.535919,,,,,,Hazard ratio,10.32306,1.038819,1.508854,70.626861,1.439196,2.890483,0.4544079,4.558209,2.422953,0.9014309,6.5126457,0.07938555,,"4B,4C,4D,S16A,S16B",Yes,Yes,Yes,Yes,4,1,0,0,Cells,No,No,Animal,"cell culture,animal care,animal injection (cells, drug, IV),tissue harvesting,cell isolation,flow cytometry,immunohistochemistry","cell,immuno,animal",1,Core11,"4,5",Survival and tumor burden in I-BET151 treated xenograft mouse model of MLL-fusion leukaemia,10.0,24,23,Yes,Yes,,4,Timecourse between cell injection and animal randomization was extended because detectable disease burden was not achieved; Cell death assay needed to be modified to prevent inability to properly compensate,5,,"3,4",No,,,,,,,,Yes,unknown,Yes,,Inhibition of BET recruitment to chromatin as an effective treatment for MLL-fusion leukaemia,2011,Nature,27,https://osf.io/hcqqy/,2014-08-18,25000,59875.98,59875.98,65936.13,42157,42220,https://elifesciences.org/articles/08997,42264,42569,Yes,,42758,42877,https://elifesciences.org/articles/25306,Yes,Yes,Yes,2,"Core11,CRO3",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,TRUE,TRUE,p29e3o1,1,p29e3,2.33438022773044,Log hazard ratio,0.411350422288421,4.25741053956192,0.364084624328478,-0.788760026162942,1.51692978321675,0.981155813987075,0.588196984119779,0.96266673132064,0.345975692127604,0.420530358316469,0.0784465374645994,0.698317972882769,0.0694619324780675,-0.149643857506755,0.282439958841907,0.158133373956776,0.110227488810224,0.0250061639589536,0.0121500992894081
+246,246,246,246,37,1,1,1,Effective concentrations of Ewing's sarcoma cell lines vs osteosarcoma cell lines,Positive,Null-positive,13,12,No,,Mann-Whitney,z,2.806204,,,0.0050129,Mann-Whitney,z,0.9459334,,,0.3441826,No,,,,,,,Cliff's delta,0.925,0.075,0.6221087,0.9870526,0.3142857,0.4239433,-0.4619786,0.8178903,0.8880487,0.653965,0.9669455,2.012808e-34,Null-positive,Student's t test,t,2.725008,,11,0.01975383,Student's t test,t,0.2990749,,10,0.213407697072154,,,,,,Cohen's d,2.955051,0.9236789,1.271629,4.578589,0.4716736,0.6517493,-0.7052214,1.626032,1.012643,0.2018305,1.823456,0.01437132,,"4C,S16",Yes,Yes,Yes,Yes,3,4,0,0,,,,Cell-based,"cell culture,colony formation assay (Giemsa stain),microscopy (bright-field)",cell,1,CRO18,1.0,Sensitivity of Ewing's sarcoma cell lines to olaparib,13.0,12,12,Yes,Yes,,0,,6,,1.0,No,,,,,,,,No,,Yes,,Systematic identification of genomic markers of drug sensitivity in cancer cells,2012,Nature,54,https://osf.io/nbryi/,2014-12-01,25000,49042.9,49042.9,53089.3,42346,42515,https://elifesciences.org/articles/13620,42724,42872,Yes,,42913,43082,https://elifesciences.org/articles/29747,Yes,Yes,Yes,1,CRO18,,FALSE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,FALSE,FALSE,TRUE,p37e1o1,2,p37e1,2.955051,Cohen's d,1.271629,4.578589,0.4716736,-0.7052214,1.626032,0.9236789,0.594718428090677,0.85318271030521,0.353690008710645,2.955051,1.271629,4.578589,0.525269309693821,-0.7052214,1.626032,0.843627746755777,0.422157491758709,0.711707775096229,0.178216947848004
+254,254,254,254,39,1,1,1,Tumor weights of IgG vs anti-CD47 (MIAP410),Positive,Null-negative,10,13,Yes,unknown,Welch's t test,t,5.676941,,4.015065,0.00469753,Welch's t test,t,-1.795881,,9.656009,0.103811,No,,,,,,,Glass' delta,2.541195,1.098731,0.402931,4.597614,-1.131789,0.6451894,-2.355,0.1594191,-0.1900144,-1.2804582,0.9004294,0.7327031,Null-negative,Welch's t test,t,5.676941,,4.015065,0.00469753,Welch's t test,t,-1.795881,,9.656009,0.103811,,,,,,Glass' delta,2.541195,1.098731,0.402931,4.597614,-1.131789,0.6451894,-2.355,0.1594191,-0.1900144,-1.2804582,0.9004294,0.7327031,,"6A,6B,6C,Table S4",Yes,Yes,Yes,Yes,4,5,2,1,"Antibodies,Cells","Antibodies,Cells","Antibodies,Cells",Animal,"cell culture,animal care,animal injection (cells, mammary fat pads, antibodies),tissue harvesting,hematology analysis,ELISA,immunohistochemistry","cell,immuno,animal,molecular",1,CRO6,1.0,Tumor weights and blood toxicity of immune competent hosts treated with control or CD47 targeted antibodies,10.0,14,13,Yes,Yes,,1,Number of mice to inoculate was increased,5,,"1,2",No,,,,,,,,Yes,unknown,Yes,Original study analyzed toxicity in different mouse strains and treatment regimen,The CD47-signal regulatory protein alpha (SIRPa) interaction is a therapeutic target for human solid tumors,2012,PNAS,44,https://osf.io/9pbos/,2014-04-21,25000,10175.42,10175.42,11697.93,41885,41993,https://elifesciences.org/articles/04586,41993,42486,Yes,,42515,42695,https://elifesciences.org/articles/18173,Yes,Yes,Yes,1,CRO6,,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,TRUE,TRUE,p39e1o1,1,p39e1,2.541195,Glass' delta,0.402931,4.597614,-1.131789,-2.355,0.1594191,1.098731,0.641445230584189,1.207209810361,0.411451983839203,2.541195,0.402931,4.597614,-1.131789,-2.355,0.1594191,1.07009185706654,0.641445230584189,1.14509658256011,0.411451983839203
+262,262,262,262,41,2,1,1,Overall survival of germ-free Il10-/- mice mono-associated with E.coli NC101 or NC101deltapks,Null,Positive,20,84,Yes,Log-rank Mantel-Cox test,Log-rank Mantel-Cox test,chi-squared,0.3750965,,1,0.5402393,Log-rank Mantel-Cox test,chi-squared,5.16551,,1,0.0230397,No,,,,,,,Hazard ratio,1.691181,1.358683,0.3147196,9.087749,1.945032,11.67095,1.095877,3.452168,1.916873,1.113733,3.299177,0.01883464,Positive,Log-rank Mantel-Cox test,chi-squared,0.3750965,,1,0.5402393,Log-rank Mantel-Cox test,chi-squared,5.16551,,1,0.0230397,,,,,,Hazard ratio,1.691181,1.358683,0.3147196,9.087749,1.945032,11.67095,1.095877,3.452168,1.916873,1.113733,3.299177,0.01883464,,"4A(right),4B(right),4C,4B,4D,4E,S10",Yes,Yes,Yes,Yes,2,5,0,0,Organisms,Organisms,Organisms,Animal,"bacterial cell culture,animal care,genomic DNA extraction,qPCR,sequencing,animal injection (drug, IP),tissue harvesting,immunohistochemistry","cell,animal,molecular",1,Core14,3.0,"Survival, inflamation, neoplasia, and tumor invasion of germ-free Il10-/- mice mono-associated with E.coli NC101 or NC101deltapks",20.0,30,84,Yes,Partial,"Timeline was longer than original so inflamation, neoplasia, and tumor invasion are not comparable to original",2,"Difficulty in obtaining enough animals for end of experiment analysis, which turned out to be miscommunication about the timeline (replication was longer than original study)",4,,"2,3",No,,,,,,,,Yes,Log-rank Mantel-Cox test; Student's t test,Yes,,Intestinal inflammation targets cancer-inducing activity of the microbiota.,2012,Science,17,https://osf.io/y4tvd/,2014-04-15,25000,75912,75912,55860.72,41849,42047,https://elifesciences.org/articles/04186,42073,42937,Partial,"Timeline was longer than original so inflamation, neoplasia, and tumor invasion are not comparable to original",43084,43362,https://elifesciences.org/articles/34364,Yes,Yes,Yes,1,Core14,A statement in the acknowledgment section was identified as a COI statement.,TRUE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,TRUE,TRUE,p41e2o1,1,p41e2,0.525427101444426,Log hazard ratio,-1.15607319531322,2.20692724275936,0.665278429377229,0.0915549559506117,1.23900243947613,0.857924039574068,0.292721573604524,0.736033657679087,0.0856859196535087,0.100078847906412,-0.217567334334083,0.399891268626118,0.126475465913261,0.0174922707756703,0.232656433491756,0.157517844162096,0.0548898256328365,0.0248118712294743,0.00301289295800319
+264,264,264,264,42,2,1,1,Metastatic burden in lungs of shScr injected mice vs liposome,Positive,Null-positive,14,12,Yes,between-subjects ANOVA,Student's t test,t,4.288986,,12,0.001052166,Student's t test,t,0.4739758,,10,0.6456962,No,,,,,,,Cohen's d,2.292559,0.7673493,0.8800974,3.6511361,0.2736501,0.6359977,-0.8707803,1.4047364,1.095778,0.1360405,2.055516,0.02523513,Null-positive,Student's t test,t,4.288986,,12,0.001052166,Student's t test,t,0.4739758,,10,0.6456962,,,,,,Cohen's d,2.292559,0.7673493,0.8800974,3.6511361,0.2736501,0.6359977,-0.8707803,1.4047364,1.095778,0.1360405,2.055516,0.02523513,cohen's d is used here while Replication study reported cliff's delta,4E,Yes,Yes,Yes,Yes,3,5,2,0,Cells,Cells,Cells,Animal,"viral transduction,cell culture,microscopy (fluorescence),exosome purification and analysis (ultracentrifugation, nanoparticle analysis system),animal care,animal injection (exosomes, cells, luciferin, IV, SC, retro-orbital),IVIS","cell,immuno,animal",2,"Core15,CRO19",3.0,Exosome-dependent Met signaling on primary tumor growth and metastasis,21.0,21,19,Yes,Yes,,1,Change in timeline (shortened 3 days) due to animal distress/death,5,,2.0,Yes,"Cells,Exosomes",,,,,,,Yes,between-subjects ANOVA,Yes,,Melanoma exosomes educate bone marrow progenitor cells toward a pro-metastatic phenotype through MET.,2012,Nature Medicine,25,https://osf.io/ewqzf/,2014-07-28,25000,71117.28,75337.42,186545.5,42072,42305,https://elifesciences.org/articles/07383,42474,43228,Partial,pMET could not be reliabilty detected in exosomes,43291,43435,https://elifesciences.org/articles/39944,Yes,Yes,Yes,2,"Core15,CRO19",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,TRUE,TRUE,TRUE,p42e2o1,1,p42e2,2.292559,Cohen's d,0.8800974,3.6511361,0.2736501,-0.8707803,1.4047364,0.7673493,0.58049962089839,0.58882494821049,0.336979809863175,2.292559,0.8800974,3.6511361,0.2736501,-0.8707803,1.4047364,0.7069106171995,0.58049962089839,0.499722620709378,0.336979809863175
+265,265,265,265,42,2,2,1,Metastatic burden in lungs of shScr injected mice vs shMet,Positive,Null-positive,14,13,No,,Welch's t test,t,4.56077,,7.376149,0.002276347,Student's t test,t,0.6061607,,11,0.5567099,No,,,,,,,Glass' delta,5.342071,1.632133,2.213625,8.449566,0.2623192,0.5624988,-0.8519444,1.351713,0.8016202,-0.2406924,1.8439327,0.1317168,Null-positive,Welch's t test,t,4.56077,,7.376149,0.002276347,Student's t test,t,0.6061607,,11,0.5567099,,,,,,Glass' delta,5.342071,1.632133,2.213625,8.449566,0.2623192,0.5624988,-0.8519444,1.351713,0.8016202,-0.2406924,1.8439327,0.1317168,glass' delta is used here while Replication study reported cliff's delta,4E,Yes,Yes,Yes,Yes,3,5,2,0,Cells,Cells,Cells,Animal,"viral transduction,cell culture,microscopy (fluorescence),exosome purification and analysis (ultracentrifugation, nanoparticle analysis system),animal care,animal injection (exosomes, cells, luciferin, IV, SC, retro-orbital),IVIS","cell,immuno,animal",2,"Core15,CRO19",3.0,Exosome-dependent Met signaling on primary tumor growth and metastasis,21.0,21,19,Yes,Yes,,1,Change in timeline (shortened 3 days) due to animal distress/death,5,,2.0,Yes,"Cells,Exosomes",,,,,,,Yes,between-subjects ANOVA,Yes,,Melanoma exosomes educate bone marrow progenitor cells toward a pro-metastatic phenotype through MET.,2012,Nature Medicine,25,https://osf.io/ewqzf/,2014-07-28,25000,71117.28,75337.42,186545.5,42072,42305,https://elifesciences.org/articles/07383,42474,43228,Partial,pMET could not be reliabilty detected in exosomes,43291,43435,https://elifesciences.org/articles/39944,Yes,Yes,Yes,2,"Core15,CRO19",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,TRUE,TRUE,TRUE,p42e2o2,1,p42e2,5.342071,Glass' delta,2.213625,8.449566,0.2623192,-0.8519444,1.351713,1.632133,0.562167829965798,2.663858129689,0.316032669048454,5.342071,2.213625,8.449566,0.2623192,-0.8519444,1.351713,1.59083050739409,0.562167829965798,2.53074170325575,0.316032669048454
+266,266,266,266,42,2,3,1,Metastatic burden in femurs of shScr injected mice vs liposome,Positive,Null-positive,10,12,No,,Mann-Whitney,z,2.78543,,,0.007936508,Mann-Whitney,z,0.1601282,,,0.9372294,No,,,,,,,Cliff's delta,1,0.03,0.8490597,1,0.05555556,0.3571146,-0.5361754,0.6106755,0.9933817,0.5766001,0.9999179,4.05681e-242,Null-positive,Student's t test,t,3.063755,,8,0.01549405,Student's t test,t,0.9434677,,10,0.3676772,,,,,,Cohen's d,1.937689,0.8906913,0.348804,3.4519,0.5447114,0.6463765,-0.6240027,1.687695,1.025244,-8.85859e-05,2.050577,0.0500198,,4E,Yes,Yes,Yes,Yes,3,5,2,0,Cells,Cells,Cells,Animal,"viral transduction,cell culture,microscopy (fluorescence),exosome purification and analysis (ultracentrifugation, nanoparticle analysis system),animal care,animal injection (exosomes, cells, luciferin, IV, SC, retro-orbital),IVIS","cell,immuno,animal",2,"Core15,CRO19",3.0,Exosome-dependent Met signaling on primary tumor growth and metastasis,21.0,21,19,Yes,Yes,,1,Change in timeline (shortened 3 days) due to animal distress/death,5,,2.0,Yes,"Cells,Exosomes",,,,,,,Yes,between-subjects ANOVA,Yes,,Melanoma exosomes educate bone marrow progenitor cells toward a pro-metastatic phenotype through MET.,2012,Nature Medicine,25,https://osf.io/ewqzf/,2014-07-28,25000,71117.28,75337.42,186545.5,42072,42305,https://elifesciences.org/articles/07383,42474,43228,Partial,pMET could not be reliabilty detected in exosomes,43291,43435,https://elifesciences.org/articles/39944,Yes,Yes,Yes,2,"Core15,CRO19",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,TRUE,TRUE,TRUE,p42e2o3,1,p42e2,1.937689,Cohen's d,0.348804,3.4519,0.5447114,-0.6240027,1.687695,0.8906913,0.589729637440886,0.79333099189569,0.347781045276159,1.937689,0.348804,3.4519,0.5447114,-0.6240027,1.687695,0.791620668664533,0.589729637440886,0.626663283056883,0.347781045276159
+267,267,267,267,42,2,4,1,Metastatic burden in femurs of shScr injected mice vs shMet,Positive,Null-positive,10,13,No,,Mann-Whitney,z,2.78543,,,0.007936508,Mann-Whitney,z,0,,,1,No,,,,,,,Cliff's delta,1,0.03,0.8490597,1,9.269929e-18,0.3518658,-0.5677269,0.5677269,0.9927832,0.603094,0.9998941,7.026731e-242,Null-positive,Student's t test,t,3.063755,,8,0.01549405,Student's t test,t,-0.7403523,,11,0.4745926,,,,,,Cohen's d,1.937689,0.8906913,0.348804,3.4519,0.411894,0.6123027,-0.700735,1.506476,0.9015536,-0.08739659,1.890504,0.07397695,,4E,Yes,Yes,Yes,Yes,3,5,2,0,Cells,Cells,Cells,Animal,"viral transduction,cell culture,microscopy (fluorescence),exosome purification and analysis (ultracentrifugation, nanoparticle analysis system),animal care,animal injection (exosomes, cells, luciferin, IV, SC, retro-orbital),IVIS","cell,immuno,animal",2,"Core15,CRO19",3.0,Exosome-dependent Met signaling on primary tumor growth and metastasis,21.0,21,19,Yes,Yes,,1,Change in timeline (shortened 3 days) due to animal distress/death,5,,2.0,Yes,"Cells,Exosomes",,,,,,,Yes,between-subjects ANOVA,Yes,,Melanoma exosomes educate bone marrow progenitor cells toward a pro-metastatic phenotype through MET.,2012,Nature Medicine,25,https://osf.io/ewqzf/,2014-07-28,25000,71117.28,75337.42,186545.5,42072,42305,https://elifesciences.org/articles/07383,42474,43228,Partial,pMET could not be reliabilty detected in exosomes,43291,43435,https://elifesciences.org/articles/39944,Yes,Yes,Yes,2,"Core15,CRO19",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,TRUE,TRUE,TRUE,p42e2o4,1,p42e2,1.937689,Cohen's d,0.348804,3.4519,0.411894,-0.700735,1.506476,0.8906913,0.563074377236061,0.79333099189569,0.317052754299778,1.937689,0.348804,3.4519,0.411894,-0.700735,1.506476,0.791620668664533,0.563074377236061,0.626663283056883,0.317052754299778
+272,272,272,272,44,1,1,1,Tumor-free survival of GFP vs PREX2-G844D,Positive,Null-positive,20,28,Yes,Student's t test,Proportional Hazards Assumption of a Cox Regression,z,2.055702,,,0.03981128,Proportional Hazards Assumption of a Cox Regression,z,0.1924061,,,0.8474241,No,,,,,,,Hazard ratio,4.079901,0.6839868,1.067675,15.590505,1.076923,0.3851644,0.5062116,2.2910642,1.484068,0.7687426,2.8650146,0.2394661,Null-positive,Proportional Hazards Assumption of a Cox Regression,z,2.055702,,,0.03981128,Proportional Hazards Assumption of a Cox Regression,z,0.1924061,,,0.8474241,,,,,,Hazard ratio,4.079901,0.6839868,1.067675,15.590505,1.076923,0.3851644,0.5062116,2.2910642,1.484068,0.7687426,2.8650146,0.2394661,,"3B,S6",Yes,Yes,Yes,Yes,2,5,2,0,"Cells,Plasmids","Cells,Plasmids","Cells,Plasmids",Animal,"viral transduction,cell culture,Western blot assay,animal care,animal injection (cells, SC),tissue harvesting,immunohistochemistry","cell,immuno,animal",3,"CRO6,CRO7,CRO22","1,2,3",Impact of PREX2 isoforms on tumor-free survival,40.0,43,43,Yes,Yes,,0,,6,,"1,2,3",Yes,Cells,,,,,,,Yes,Student's t test,Yes,,Melanoma genome sequencing reveals frequent PREX2 mutations,2012,Nature,48,https://osf.io/jvpnw/,2014-05-29,25000,25198.39,28068.91,29737.68,41849,41954,https://elifesciences.org/articles/04180,41954,42557,Yes,,42632,42695,https://elifesciences.org/articles/21634,Yes,Yes,Yes,3,"CRO6,CRO7,CRO22",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,TRUE,TRUE,p44e1o1,1,p44e1,1.4060727234158,Log hazard ratio,0.0654833871110923,2.74666207510439,0.074107900725148,-0.680800515290137,0.829016425776242,0.683986723516884,0.385164460412442,0.467837837947363,0.148351661564808,0.26273508703565,0.0125116885997529,0.48499548184654,0.0141593490166215,-0.129395488358743,0.157164869068012,0.120533794746658,0.0731034752901346,0.0145283956760296,0.00534411809949532
+273,273,273,273,44,1,2,1,Tumor-free survival of GFP vs PREX2-Q1430,Positive,Null-negative,20,22,Yes,Student's t test,Proportional Hazards Assumption of a Cox Regression,z,2.561347,,,0.01042671,Proportional Hazards Assumption of a Cox Regression,z,-0.07056167,,,0.9437466,No,,,,,,,Hazard ratio,5.704528,0.679822,1.505061,21.621469,0.968719,0.4503955,0.4007011,2.3419369,1.66374,0.7970507,3.4728432,0.1751562,Null-negative,Proportional Hazards Assumption of a Cox Regression,z,2.561347,,,0.01042671,Proportional Hazards Assumption of a Cox Regression,z,-0.07056167,,,0.9437466,,,,,,Hazard ratio,5.704528,0.679822,1.505061,21.621469,0.968719,0.4503955,0.4007011,2.3419369,1.66374,0.7970507,3.4728432,0.1751562,,"3B,S6",Yes,Yes,Yes,Yes,2,5,2,0,"Cells,Plasmids","Cells,Plasmids","Cells,Plasmids",Animal,"viral transduction,cell culture,Western blot assay,animal care,animal injection (cells, SC),tissue harvesting,immunohistochemistry","cell,immuno,animal",3,"CRO6,CRO7,CRO22","1,2,3",Impact of PREX2 isoforms on tumor-free survival,40.0,43,43,Yes,Yes,,0,,6,,"1,2,3",Yes,Cells,,,,,,,Yes,Student's t test,Yes,,Melanoma genome sequencing reveals frequent PREX2 mutations,2012,Nature,48,https://osf.io/jvpnw/,2014-05-29,25000,25198.39,28068.91,29737.68,41849,41954,https://elifesciences.org/articles/04180,41954,42557,Yes,,42632,42695,https://elifesciences.org/articles/21634,Yes,Yes,Yes,3,"CRO6,CRO7,CRO22",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,TRUE,TRUE,p44e1o2,1,p44e1,1.74126024544789,Log hazard ratio,0.408833428940919,3.07368675624879,-0.0317806988265912,-0.914539516147899,0.850978322028617,0.679822014161458,0.450395479739091,0.462157970938541,0.202856088169406,0.32164410041664,0.0779683813130878,0.533773532391049,-0.00607245933765427,-0.173085164522608,0.16126078970965,0.116278960907775,0.0852939025588062,0.013520796749792,0.00727504981371112
+274,274,274,274,44,1,3,1,Tumor-free survival of PREX2-WT vs PREX2-G844D,Positive,Null-negative,20,21,Yes,Student's t test,Proportional Hazards Assumption of a Cox Regression,z,2.391392,,,0.0167846,Proportional Hazards Assumption of a Cox Regression,z,-0.4510052,,,0.6519858,No,,,,,,,Hazard ratio,6.764221,0.7993867,1.411818,32.408353,0.808731,0.4707017,0.3214712,2.0345393,1.397281,0.6309995,3.0941296,0.40951,Null-negative,Proportional Hazards Assumption of a Cox Regression,z,2.391392,,,0.0167846,Proportional Hazards Assumption of a Cox Regression,z,-0.4510052,,,0.6519858,,,,,,Hazard ratio,6.764221,0.7993867,1.411818,32.408353,0.808731,0.4707017,0.3214712,2.0345393,1.397281,0.6309995,3.0941296,0.40951,,"3B,S6",Yes,Yes,Yes,Yes,2,5,2,0,"Cells,Plasmids","Cells,Plasmids","Cells,Plasmids",Animal,"viral transduction,cell culture,Western blot assay,animal care,animal injection (cells, SC),tissue harvesting,immunohistochemistry","cell,immuno,animal",3,"CRO6,CRO7,CRO22","1,2,3",Impact of PREX2 isoforms on tumor-free survival,40.0,43,43,Yes,Yes,,0,,6,,"1,2,3",Yes,Cells,,,,,,,Yes,Student's t test,Yes,,Melanoma genome sequencing reveals frequent PREX2 mutations,2012,Nature,48,https://osf.io/jvpnw/,2014-05-29,25000,25198.39,28068.91,29737.68,41849,41954,https://elifesciences.org/articles/04180,41954,42557,Yes,,42632,42695,https://elifesciences.org/articles/21634,Yes,Yes,Yes,3,"CRO6,CRO7,CRO22",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,TRUE,TRUE,p44e1o3,1,p44e1,1.91164710347716,Log hazard ratio,0.344878235579216,3.47841619821332,-0.212288926487815,-1.13484731941031,0.710269405058492,0.799386618160092,0.470701691210361,0.639018965293429,0.221560082108294,0.350781858266429,0.0658079273822223,0.591702868537872,-0.0405423045570995,-0.213689308079742,0.134933332555364,0.134159337953106,0.0889359813203193,0.0179987279600157,0.00790960877340819
+275,275,275,275,44,1,4,1,Tumor-free survival of PREX2-WT vs PREX2-Q1430,Positive,Null-negative,20,15,Yes,Student's t test,Proportional Hazards Assumption of a Cox Regression,z,2.806539,,,0.005007683,Proportional Hazards Assumption of a Cox Regression,z,-0.6299257,,,0.5287432,No,,,,,,,Hazard ratio,9.370483,0.7972683,1.96393,44.70931,0.7121782,0.5388367,0.2477023,2.0476104,1.597753,0.6660418,3.8328137,0.2938839,Null-negative,Proportional Hazards Assumption of a Cox Regression,z,2.806539,,,0.005007683,Proportional Hazards Assumption of a Cox Regression,z,-0.6299257,,,0.5287432,,,,,,Hazard ratio,9.370483,0.7972683,1.96393,44.70931,0.7121782,0.5388367,0.2477023,2.0476104,1.597753,0.6660418,3.8328137,0.2938839,,"3B,S6",Yes,Yes,Yes,Yes,2,5,2,0,"Cells,Plasmids","Cells,Plasmids","Cells,Plasmids",Animal,"viral transduction,cell culture,Western blot assay,animal care,animal injection (cells, SC),tissue harvesting,immunohistochemistry","cell,immuno,animal",3,"CRO6,CRO7,CRO22","1,2,3",Impact of PREX2 isoforms on tumor-free survival,40.0,43,43,Yes,Yes,,0,,6,,"1,2,3",Yes,Cells,,,,,,,Yes,Student's t test,Yes,,Melanoma genome sequencing reveals frequent PREX2 mutations,2012,Nature,48,https://osf.io/jvpnw/,2014-05-29,25000,25198.39,28068.91,29737.68,41849,41954,https://elifesciences.org/articles/04180,41954,42557,Yes,,42632,42695,https://elifesciences.org/articles/21634,Yes,Yes,Yes,3,"CRO6,CRO7,CRO22",,FALSE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,TRUE,FALSE,TRUE,TRUE,p44e1o4,1,p44e1,2.2375646424138,Log hazard ratio,0.674947567749238,3.80018175733772,-0.339427117986324,-1.39552765710401,0.716673454705407,0.797268269784529,0.538836715488191,0.635636694005217,0.290345005958102,0.404883484407519,0.128294674934868,0.636297428165896,-0.0647705471711602,-0.260849871707219,0.136135753401459,0.129594920426622,0.101273704068047,0.0167948434003826,0.0102563631356623
+285,285,285,285,47,1,3,1,"H3K4me3 levels in cells expressing IDH1-WT, IDH1-R132H, IDH2-WT, IDH2-R172K",Positive,Null-positive,12,24,No,,between-subjects ANOVA,F,6.619672,3,8,0.01467993,Kruskal-Wallis rank sum test,chi-squared,0.3666667,,3,0.9470389,No,,,,,,,r,0.8442984,0.3333333,0.5245781,0.9553101,0.1300683,0.2182179,-0.2884638,0.50687,0.4320004,0.1041358,0.6751745,0.011328,Null-positive,between-subjects ANOVA,F,6.619672,3,8,0.01467993,between-subjects ANOVA,F,0.46759,3,20,0.7081679,,,,,,Cohen's d,2.4622,0.765441,0.9619,3.9624,0.2634,0.41,-0.5402,1.0671,0.7536099,0.04524341,1.461976,0.03705596,,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o3,1,p47e1,2.4622,Cohen's d,0.9619,3.9624,0.2634,-0.5402,1.0671,0.765441,0.410033044657498,0.585899924481,0.168127097711098,2.4622,0.9619,3.9624,0.2634,-0.5402,1.0671,0.765447738751212,0.410033044657498,0.585910240759344,0.168127097711098
+286,286,286,286,47,1,4,1,"H3K9me3 levels in cells expressing IDH1-WT, IDH1-R132H, IDH2-WT, IDH2-R172K",Positive,Null-positive,12,24,No,,between-subjects ANOVA,F,7.027372,3,8,0.0124397,between-subjects ANOVA,F,0.5153888,3,20,0.6763842,No,,,,,,,r,0.8514205,0.3333333,0.5426985,0.9574714,0.2678817,0.2182179,-0.1519333,0.6058127,0.5157958,0.2096026,0.7298626,0.00177639,Null-positive,between-subjects ANOVA,F,7.027372,3,8,0.0124397,between-subjects ANOVA,F,0.5153888,3,20,0.6763842,,,,,,Cohen's d,2.5204,0.7733046,1.0047,4.036,0.3142,0.4107311,-0.4909,1.1193,0.7996388,0.08868156,1.510596,0.02749335,,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o4,1,p47e1,2.5204,Cohen's d,1.0047,4.036,0.3142,-0.4909,1.1193,0.7733046,0.410772854170039,0.59800000438116,0.168734337723,2.5204,1.0047,4.036,0.3142,-0.4909,1.1193,0.773305025987852,0.410772854170039,0.598000663218072,0.168734337723
+287,287,287,287,47,1,5,1,"H3K36me3 levels in cells expressing IDH1-WT, IDH1-R132H, IDH2-WT, IDH2-R172K",Null,Null-positive,12,24,No,,between-subjects ANOVA,F,0.627586,3,8,0.6172321,between-subjects ANOVA,F,0.2480232,3,20,0.8617649,No,,,,,,,r,0.4364738,0.3333333,-0.1833576,0.8079816,0.1893912,0.2182179,-0.2317079,0.5507135,0.2678571,-0.08309292,0.55969758,0.1326345,Null-positive,between-subjects ANOVA,F,0.627586,3,8,0.6172321,between-subjects ANOVA,F,0.2480232,3,20,0.8617649,,,,,,Cohen's d,0.7474,0.5971599,-0.423,1.9178,0.3127,0.4107311,-0.4923,1.1177,0.4523038,-0.2109696,1.115577,0.181369,,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,FALSE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o5,1,p47e1,0.7474,Cohen's d,-0.423,1.9178,0.3127,-0.4923,1.1177,0.5971599,0.410721832824346,0.35659994616801,0.16869242395859,0.7474,-0.423,1.9178,0.3127,-0.4923,1.1177,0.597153829984615,0.410721832824346,0.356592696665295,0.16869242395859
+288,288,288,288,47,1,6,1,"H3K79me2 levels in cells expressing IDH1-WT, IDH1-R132H, IDH2-WT, IDH2-R172K",Positive,Null-positive,12,24,No,,between-subjects ANOVA,F,3.003348,3,8,0.09492094,Kruskal-Wallis rank sum test,chi-squared,1.546667,,3,0.6715423,No,,,,,,,r,0.7277978,0.3333333,0.2642831,0.9181871,0.2635354,0.2182179,-0.1564986,0.6028442,0.4350764,0.1078811,0.6772304,0.010675,Null-positive,between-subjects ANOVA,F,3.003348,3,8,0.09492094,between-subjects ANOVA,F,0.6513995,3,20,0.5913318,,,,,,Cohen's d,1.7058,0.6742403,0.3843,3.0272,0.1906,0.4091455,-0.6114,0.9925,0.5983886,-0.08717124,1.283948,0.08712765,,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,FALSE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o6,1,p47e1,1.7058,Cohen's d,0.3843,3.0272,0.1906,-0.6114,0.9925,0.6742403,0.409165681780726,0.45459998214409,0.167416555147087,1.7058,0.3843,3.0272,0.1906,-0.6114,0.9925,0.674221572653084,0.409165681780727,0.454574729030798,0.167416555147087
+289,289,289,289,47,1,7,1,H3K9me2 levels in cells expressing IDH1-WT vs IDH1-R132H,Positive,Null-positive,6,12,No,,contrast of between-subjects ANOVA,t,3.198824,,8,0.01263466,contrast of between-subjects ANOVA,t,0.2375521,,20,0.8146451,No,,,,,,,Cohen's d,2.611829,1.509655,0.1847137,4.915465,0.1371508,0.6333472,-0.99936,1.266919,0.5075219,-0.6371608,1.6522045,0.3848494,Null-positive,contrast of between-subjects ANOVA,t,3.198824,,8,0.01263466,contrast of between-subjects ANOVA,t,0.2375521,,20,0.8146451,,,,,,Cohen's d,2.611829,1.509655,0.1847137,4.915465,0.1371508,0.6333472,-0.99936,1.266919,0.5075219,-0.6371608,1.6522045,0.3848494,,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o7,1,p47e1,2.611829,Cohen's d,0.1847137,4.915465,0.1371508,-0.99936,1.266919,1.509655,0.578143021472874,2.279058219025,0.334249353277784,2.611829,0.1847137,4.915465,0.1371508,-0.99936,1.266919,1.2068464873119,0.578143021472874,1.45647844393707,0.334249353277784
+290,290,290,290,47,1,8,1,H3K9me2 levels in cells expressing IDH2-WT vs IDH2-R132H,Positive,Null-positive,6,12,No,,contrast of between-subjects ANOVA,t,4.230703,,8,0.002873608,contrast of between-subjects ANOVA,t,1.314959,,20,0.2034023,No,,,,,,,Cohen's d,3.454354,1.799265,0.6033013,6.205243,0.7591922,0.6592286,-0.4363171,1.920202,1.078171,-0.1350271,2.2913689,0.08153943,Null-positive,contrast of between-subjects ANOVA,t,4.230703,,8,0.002873608,contrast of between-subjects ANOVA,t,1.314959,,20,0.2034023,,,,,,Cohen's d,3.454354,1.799265,0.6033013,6.205243,0.7591922,0.6592286,-0.4363171,1.920202,1.078171,-0.1350271,2.2913689,0.08153943,,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o8,1,p47e1,3.454354,Cohen's d,0.6033013,6.205243,0.7591922,-0.4363171,1.920202,1.799265,0.601163878159987,3.237354540225,0.361398008404356,3.454354,0.6033013,6.205243,0.7591922,-0.4363171,1.920202,1.42909302012369,0.601163878159987,2.04230686016624,0.361398008404356
+291,291,291,291,47,1,9,1,"Correlation of 2HG levels and H3K4me3 levels in cells expressing IDH1-WT, IDH1-R132H, IDH2-WT, IDH2-R172K",Positive,Null-positive,12,24,No,unknown,Pearson's correlation,t,3.521111,,10,0.005528176,Pearson's correlation,t,1.120151,,22,0.2747297,No,,,,,,,Pearson's r,0.744,0.3333333,0.2968469,0.9235582,0.2322847,0.2182179,-0.1888034,0.5812195,0.4247194,0.09530711,0.67029297,0.01300721,Null-positive,Pearson's correlation,t,3.521111,,10,0.005528176,Pearson's correlation,t,1.120151,,22,0.2747297,,,,,,Pearson's r,0.744,0.3333333,0.2968469,0.9235582,0.2322847,0.2182179,-0.1888034,0.5812195,0.4247194,0.09530711,0.67029297,0.01300721,original study did not specifiy what type of correlation was conduction,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o9,1,p47e1,0.959379579994681,Fisher's z,0.306058243337884,1.61270115605124,0.236603121881939,-0.191096046239843,0.664302373722241,0.333333398730789,0.218217892448371,0.111111154709419,0.0476190485846089,1.11347305656959,0.310858835591594,2.4084972269847,0.238816857196985,-0.192261236355325,0.714251021555197,0.535121667525274,0.231257376426551,0.28635519905503,0.0534799741516913
+292,292,292,292,47,1,10,1,"Correlation of 2HG levels and H3K9me2 levels in cells expressing IDH1-WT, IDH1-R132H, IDH2-WT, IDH2-R172K",Positive,Null-positive,12,24,No,unknown,Pearson's correlation,t,4.513654,,10,0.001119253,Pearson's correlation,t,1.531952,,22,0.139789,No,,,,,,,Pearson's r,0.819,0.3333333,0.462472,0.9475357,0.3104728,0.2182179,-0.1062284,0.6344132,0.5160051,0.2098753,0.7299959,0.001766977,Null-positive,Pearson's correlation,t,4.513654,,10,0.001119253,Pearson's correlation,t,1.531952,,22,0.139789,,,,,,Pearson's r,0.819,0.3333333,0.462472,0.9475357,0.3104728,0.2182179,-0.1062284,0.6344132,0.5160051,0.2098753,0.7299959,0.001766977,original study did not specifiy what type of correlation was conduction,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o10,1,p47e1,1.15377257362615,Fisher's z,0.500451290977657,1.80709358523901,0.32106856088997,-0.10663070457972,0.748767692966863,0.333333240959522,0.218217886730026,0.111111049528579,0.0476190460889183,1.42734272159456,0.52160424599935,2.96429162268789,0.326613289335906,-0.106832886576635,0.820721908591842,0.623145985323238,0.236625469264974,0.388310919024469,0.0559916127048691
+293,293,293,293,47,1,11,1,"Correlation of 2HG levels and H3K9me3 levels in cells expressing IDH1-WT, IDH1-R132H, IDH2-WT, IDH2-R172K",Positive,Null-positive,12,24,No,unknown,Pearson's correlation,t,3.39758,,10,0.006798659,Pearson's correlation,t,1.348201,,22,0.191312,No,,,,,,,Pearson's r,0.732,0.3333333,0.2726285,0.9195869,0.2762519,0.2182179,-0.1430907,0.6115032,0.4449938,0.1200204,0.6838334,0.008779401,Null-positive,Pearson's correlation,t,3.39758,,10,0.006798659,Pearson's correlation,t,1.348201,,22,0.191312,,,,,,Pearson's r,0.732,0.3333333,0.2726285,0.9195869,0.2762519,0.2182179,-0.1430907,0.6115032,0.4449938,0.1200204,0.6838334,0.008779401,original study did not specifiy what type of correlation was conduction,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o11,1,p47e1,0.933022554305762,Fisher's z,0.279701187251329,1.58634409369331,0.283619727273215,-0.144079467268136,0.711318877007781,0.33333339713092,0.21821787314032,0.111111153642839,0.047619040157885,1.07440925375874,0.283362445164054,2.34059075178311,0.287437452106384,-0.144578473298679,0.772839703046094,0.52481278300168,0.23403954959919,0.275428457201968,0.0547745107765915
+294,294,294,294,47,1,12,1,"Correlation of 2HG levels and H3K36me3 levels in cells expressing IDH1-WT, IDH1-R132H, IDH2-WT, IDH2-R172K",Positive,Null-positive,12,24,No,unknown,Pearson's correlation,t,2.830974,,10,0.01782211,Pearson's correlation,t,0.7246845,,22,0.476283,No,,,,,,,Pearson's r,0.667,0.3333333,0.150838,0.8973882,0.1526915,0.2182179,-0.267161,0.5238232,0.3357744,-0.008516318,0.608893568,0.05570747,Null-positive,Pearson's correlation,t,2.830974,,10,0.01782211,Pearson's correlation,t,0.7246845,,22,0.476283,,,,,,Pearson's r,0.667,0.3333333,0.150838,0.8973882,0.1526915,0.2182179,-0.267161,0.5238232,0.3357744,-0.008516318,0.608893568,0.05570747,original study did not specifiy what type of correlation was conduction,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o12,1,p47e1,0.805319196385175,Fisher's z,0.151997835404969,1.45864032601636,0.153895033284127,-0.273804105801814,0.581594252588917,0.333333291049739,0.218217876741104,0.11111108292205,0.0476190417293958,0.895232658865338,0.152583788197238,2.03377827526097,0.154503219861972,-0.27723807501528,0.614940819892988,0.479905371196194,0.227600839083183,0.230309165302957,0.0518021419513688
+295,295,295,295,47,1,13,1,"Correlation of 2HG levels and H3K79me2 levels in cells expressing IDH1-WT, IDH1-R132H, IDH2-WT, IDH2-R172K",Positive,Null-positive,12,24,No,unknown,Pearson's correlation,t,3.215658,,10,0.009242931,Pearson's correlation,t,0.7523584,,22,0.4598103,No,,,,,,,Pearson's r,0.713,0.3333333,0.2354375,0.9132196,0.1583788,0.2182179,-0.2617404,0.5280394,0.3625201,0.02194189,0.62770693,0.0375105,Null-positive,Pearson's correlation,t,3.215658,,10,0.009242931,Pearson's correlation,t,0.7523584,,22,0.4598103,,,,,,Pearson's r,0.713,0.3333333,0.2354375,0.9132196,0.1583788,0.2182179,-0.2617404,0.5280394,0.3625201,0.02194189,0.62770693,0.0375105,original study did not specifiy what type of correlation was conduction,"1B,S1",Yes,Yes,Yes,Yes,2,0,0,0,Plasmids,No,No,Cell-based,"transfection (plasmid),cell culture,histone extraction,Western blot assay,metabolite extraction,GC-MS","cell,immuno",2,"Core18,Core22",1.0,"Methylation status and 2HG production in 293T cells expressing IDH1-WT, IDH1-R132H,IDH2-WT, or IDH2-R172K",3.0,6,6,Yes,Yes,,2,Lysis conditions needed to be optimized to enable Western blot analysis,5,,,No,,,,,,,,Yes,Correlation,Yes,,IDH mutation impairs histone demethylation and results in a block to cell differentiation.,2012,Nature,17,https://osf.io/vfsbo/,2014-11-03,25000,34829.41,34829.41,46344.04,42234,42415,https://elifesciences.org/articles/10860,42415,43034,Partial,Differentation did not occur during experimentation despite occurring during pilot; knockdown was not reliable,,,Partial,No,Yes,,1,"Core18,Core22",,FALSE,TRUE,a. GTE moderate success,1,0,0,a.No,1,0,0,FALSE,TRUE,FALSE,TRUE,p47e1o13,1,p47e1,0.893259641282249,Fisher's z,0.239938331267507,1.54658098332672,0.159723344289382,-0.267975896223316,0.587422623604628,0.333333332236165,0.218217917924824,0.111111110379665,0.0476190597034451,1.01688045491983,0.242247191754683,2.24120709937156,0.160403342693746,-0.271194704949896,0.621793503692706,0.509948122359497,0.227807300462248,0.260047087497976,0.051896166143897
+300,300,300,300,48,1,1,1,"Total RNA per 1000 cells at 0hr, 1hr, 24hr",Positive,Null-positive,6,6,No,,contrast of between-subjects ANOVA,t,5.134981,,6,0.002146524,contrast of between-subjects ANOVA,t,1.020668,,6,0.3467888,No,,,,,,,Cohen's d,4.192694,2.07268,0.9424328,7.367756,0.8333723,1.063118,-0.9053048,2.483884,1.988452,0.3064703,3.670434,0.02049911,Positive,contrast of between-subjects ANOVA,t,5.134981,,6,0.002146524,contrast of between-subjects ANOVA,t,1.020668,,6,0.0402666336056294,,,,,,Cohen's d,4.192694,2.07268,0.9424328,7.367756,0.8333723,1.063118,-0.9053048,2.483884,1.988452,0.3064703,3.670434,0.02049911,,"1B,3E",Yes,Yes,Yes,Yes,1,5,2,0,Cells,Cells,Cells,Cell-based,"cell culture,cell counting assay (C-chip),Western blot assay,RNA extraction,RNA gel electrophoresis","cell,immuno,molecular",1,Core13,"1,2",Induction of c-Myc in P493-6 cells and impact on total RNA levels,3.0,3,3,Yes,Yes,,1,Cell number needed to be optimized to enable sufficient number for assays,5,,1.0,No,,,,,,,,No,,Yes,,Transcriptional amplification in tumor cells with elevated c-Myc,2012,Cell,8,https://osf.io/mokeb/,2014-02-21,25000,48317.5,49877.5,50877.5,41836,41987,https://elifesciences.org/articles/04024,41987,42834,Yes,,42926,43055,https://elifesciences.org/articles/30274,Yes,Yes,Yes,2,"Core13,Core19",A statement in the acknowledgment section was identified as a COI statement.,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p48e1o1,2,p48e1,4.192694,Cohen's d,0.9424328,7.367756,0.8333723,-0.9053048,2.483884,2.07268,0.86460486690916,4.2960023824,0.747541575883006,4.192694,0.9424328,7.367756,1.56315084476588,-0.9053048,2.483884,1.63914318086509,0.762139636317093,2.68679036737653,0.58085682524555
+302,302,302,302,48,2,1,1,Active gene expression at 0 hr vs 1 hr,Positive,Positive,755,708,Yes,Mann-Whitney,Wilcoxon signed-rank test,z,21.17035,,,1.050387e-130,Wilcoxon signed-rank test,z,14.86294,,,1.360204e-55,No,,,,,,,r,0.5448031,0.03646625,0.4926005,0.5930991,0.3949782,0.03766218,0.3309264,0.4554072,0.4245685,0.3894968,0.4584108,4.347031e-99,Positive,paired t test,t,6.149365,,754,1.261028e-09,paired t test,t,5.622824,,707,1.02140518265514e-14,,,,,,Cohen's dz,0.2237983,0.03684661,0.1515069,0.2959447,0.2113187,0.03799955,0.1367669,0.2857241,0.2128143,0.1703825,0.255246,8.35416e-23,"during correspondence with original authors this reported test results were between 0 hr and 24 hr, not 0 hr and 1 hr as reported in the original study","3F,Table S1",Yes,Yes,Yes,Yes,1,5,3,2,Cells,Cells,Cells,Cell-based,"cell culture,cell counting assay (C-chip),NanoString hybridization and analysis","cell,molecular",2,"Core13,Core19","1,3,4",Digital gene expression analsysis in P493-6 cells,1269.0,1336,1292,Yes,Yes,,0,,6,,2.0,Yes,Cell lysate,,,,,,,Yes,Mann-Whitney,Yes,Code shared by authors after Registered Report published,Transcriptional amplification in tumor cells with elevated c-Myc,2012,Cell,8,https://osf.io/mokeb/,2014-02-21,25000,48317.5,49877.5,50877.5,41836,41987,https://elifesciences.org/articles/04024,41987,42834,Yes,,42926,43055,https://elifesciences.org/articles/30274,Yes,Yes,Yes,2,"Core13,Core19",A statement in the acknowledgment section was identified as a COI statement.,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p48e2o1,2,p48e2,0.2237983,Cohen's dz,0.1515069,0.2959447,0.2113187,0.1367669,0.2857241,0.03684661,0.0379999839729085,0.0013576726684921,0.00144399878194131,0.2237983,0.1515069,0.2959447,0.207023240409271,0.1367669,0.2857241,0.0368470546242959,0.0267546275427971,0.00135770543448585,0.000715810094953798
+304,304,304,304,48,2,2,1,Active gene expression at 0 hr vs 24 hr,Positive,Positive,755,708,No,,Wilcoxon signed-rank test,z,23.25822,,,3.3262e-184,Wilcoxon signed-rank test,z,9.922278,,,3.669327e-24,No,,,,,,,r,0.5985329,0.03646625,0.5507,0.6424476,0.2636816,0.03766218,0.1937634,0.3309346,0.4154523,0.3800668,0.4496236,2.117248e-94,Positive,paired t test,t,8.325682,,754,3.932289e-16,paired t test,t,4.513307,,707,1.04893871366585e-12,,,,,,Cohen's dz,0.3030026,0.03721969,0.2299555,0.3758572,0.1696205,0.03785166,0.09537286,0.2437497,0.2286221,0.1860863,0.2711578,5.992255e-26,,"3F,Table S1",Yes,Yes,Yes,Yes,1,5,3,2,Cells,Cells,Cells,Cell-based,"cell culture,cell counting assay (C-chip),NanoString hybridization and analysis","cell,molecular",2,"Core13,Core19","1,3,4",Digital gene expression analsysis in P493-6 cells,1269.0,1336,1292,Yes,Yes,,0,,6,,2.0,Yes,Cell lysate,,,,,,,Yes,Mann-Whitney,Yes,Code shared by authors after Registered Report published,Transcriptional amplification in tumor cells with elevated c-Myc,2012,Cell,8,https://osf.io/mokeb/,2014-02-21,25000,48317.5,49877.5,50877.5,41836,41987,https://elifesciences.org/articles/04024,41987,42834,Yes,,42926,43055,https://elifesciences.org/articles/30274,Yes,Yes,Yes,2,"Core13,Core19",A statement in the acknowledgment section was identified as a COI statement.,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p48e2o2,2,p48e2,0.3030026,Cohen's dz,0.2299555,0.3758572,0.1696205,0.09537286,0.2437497,0.03721969,0.0378519302319781,0.0013853053236961,0.00143276862228654,0.3030026,0.2299555,0.3758572,0.190306494601934,0.09537286,0.2437497,0.0372205053640919,0.0267137123741397,0.00138536601955839,0.000713622428808267
+306,306,306,306,48,2,3,1,Active gene expression at 1 hr vs 24 hr,Positive,Positive,755,708,No,,Wilcoxon signed-rank test,z,19.90605,,,6.090123e-110,Wilcoxon signed-rank test,z,4.741908,,,1.919371e-06,No,,,,,,,r,0.5122673,0.03646625,0.4576434,0.5630388,0.1260148,0.03766218,0.05282251,0.19786036,0.3152044,0.2768507,0.3525554,2.9781e-52,Positive,paired t test,t,7.951723,,754,6.721047e-15,paired t test,t,1.748619,,707,2.41875633131272e-05,,,,,,Cohen's dz,0.2893928,0.03714789,0.2164906,0.3621105,0.06571714,0.03762286,-0.008045574,0.1394335,0.1721565,0.1298003,0.2145128,1.635552e-15,,"3F,Table S1",Yes,Yes,Yes,Yes,1,5,3,2,Cells,Cells,Cells,Cell-based,"cell culture,cell counting assay (C-chip),NanoString hybridization and analysis","cell,molecular",2,"Core13,Core19","1,3,4",Digital gene expression analsysis in P493-6 cells,1269.0,1336,1292,Yes,Yes,,0,,6,,2.0,Yes,Cell lysate,,,,,,,Yes,Mann-Whitney,Yes,Code shared by authors after Registered Report published,Transcriptional amplification in tumor cells with elevated c-Myc,2012,Cell,8,https://osf.io/mokeb/,2014-02-21,25000,48317.5,49877.5,50877.5,41836,41987,https://elifesciences.org/articles/04024,41987,42834,Yes,,42926,43055,https://elifesciences.org/articles/30274,Yes,Yes,Yes,2,"Core13,Core19",A statement in the acknowledgment section was identified as a COI statement.,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p48e2o3,2,p48e2,0.2893928,Cohen's dz,0.2164906,0.3621105,0.06571714,-0.008045574,0.1394335,0.03714789,0.0376229040847934,0.0013799657314521,0.00141548291177357,0.2893928,0.2164906,0.3621105,0.112183087567575,-0.008045574,0.1394335,0.0371486162880112,0.0265695039540983,0.00138001969211389,0.000705938540366845
+308,308,308,308,48,2,4,1,Silent gene expression at 0 hr vs 1 hr,Null,Positive,514,580,Yes,Mann-Whitney,Wilcoxon signed-rank test,z,-1.997519,,,0.04570119,Wilcoxon signed-rank test,z,12.60892,,,7.107572e-40,No,,,,,,,r,-0.08532978,0.06074567,-0.20178932,0.03350899,0.3702106,0.04163054,0.2977718,0.4384106,0.2230375,0.1730249,0.2719028,1.349897e-17,Positive,paired t test,t,1.856759,,513,0.06391849,paired t test,t,5.069009,,579,9.08677577626804e-11,,,,,,Cohen's dz,0.08189812,0.04418201,-0.004737013,0.1684537,0.2104791,0.0419801,0.1281095,0.2926708,0.1581466,0.1098091,0.2064841,1.43206e-10,"during correspondence with original authors this reported test results were between 0 hr and 24 hr, not 0 hr and 1 hr as reported in the original study","3F,Table S1",Yes,Yes,Yes,Yes,1,5,3,2,Cells,Cells,Cells,Cell-based,"cell culture,cell counting assay (C-chip),NanoString hybridization and analysis","cell,molecular",2,"Core13,Core19","1,3,4",Digital gene expression analsysis in P493-6 cells,1269.0,1336,1292,Yes,Yes,,0,,6,,2.0,Yes,Cell lysate,,,,,,,Yes,Mann-Whitney,Yes,Code shared by authors after Registered Report published,Transcriptional amplification in tumor cells with elevated c-Myc,2012,Cell,8,https://osf.io/mokeb/,2014-02-21,25000,48317.5,49877.5,50877.5,41836,41987,https://elifesciences.org/articles/04024,41987,42834,Yes,,42926,43055,https://elifesciences.org/articles/30274,Yes,Yes,Yes,2,"Core13,Core19",A statement in the acknowledgment section was identified as a COI statement.,TRUE,FALSE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p48e2o4,2,p48e2,0.08189812,Cohen's dz,-0.004737013,0.1684537,0.2104791,0.1281095,0.2926708,0.04418201,0.0419806948745075,0.0019520500076401,0.0017623787421465,0.08189812,-0.004737013,0.1684537,0.19265808450997,0.1281095,0.2926708,0.0441821161934878,0.0297247057439273,0.00195205939133486,0.000883558131563064
+310,310,310,310,48,2,5,1,Silent gene expression at 0 hr vs 24 hr,Null,Positive,514,580,No,,Wilcoxon signed-rank test,z,3.178593,,,0.001439705,Wilcoxon signed-rank test,z,8.328297,,,2.223166e-17,No,,,,,,,r,0.1352899,0.06052275,0.0175003,0.2493756,0.2447383,0.04166667,0.1665761,0.319844,0.2225988,0.1725949,0.2714582,1.528497e-17,Positive,paired t test,t,3.968119,,513,8.276394e-05,paired t test,t,4.250382,,579,9.05489061509002e-09,,,,,,Cohen's dz,0.1750262,0.04444463,0.08783136,0.262053,0.1764875,0.04184483,0.09439724,0.2584276,0.1718907,0.1235327,0.2202487,3.242607e-12,,"3F,Table S1",Yes,Yes,Yes,Yes,1,5,3,2,Cells,Cells,Cells,Cell-based,"cell culture,cell counting assay (C-chip),NanoString hybridization and analysis","cell,molecular",2,"Core13,Core19","1,3,4",Digital gene expression analsysis in P493-6 cells,1269.0,1336,1292,Yes,Yes,,0,,6,,2.0,Yes,Cell lysate,,,,,,,Yes,Mann-Whitney,Yes,Code shared by authors after Registered Report published,Transcriptional amplification in tumor cells with elevated c-Myc,2012,Cell,8,https://osf.io/mokeb/,2014-02-21,25000,48317.5,49877.5,50877.5,41836,41987,https://elifesciences.org/articles/04024,41987,42834,Yes,,42926,43055,https://elifesciences.org/articles/30274,Yes,Yes,Yes,2,"Core13,Core19",A statement in the acknowledgment section was identified as a COI statement.,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p48e2o5,2,p48e2,0.1750262,Cohen's dz,0.08783136,0.262053,0.1764875,0.09439724,0.2584276,0.04444463,0.0418452485080977,0.0019753251358369,0.00175102482270446,0.1750262,0.08783136,0.262053,0.170493968864441,0.09439724,0.2584276,0.0444451126077413,0.0296637940333803,0.0019753680347148,0.000879940676454811
+312,312,312,312,48,2,6,1,Silent gene expression at 1 hr vs 24 hr,Null,Null-positive,514,580,No,,Wilcoxon signed-rank test,z,5.805936,,,4.106239e-09,Wilcoxon signed-rank test,z,0.6853251,,,0.4934609,No,,,,,,,r,0.2672399,0.06551218,0.1444696,0.3819071,0.02012184,0.04163054,-0.06139251,0.10136955,0.1086699,0.05628075,0.16046232,5.058386e-05,Positive,paired t test,t,3.833598,,513,0.0001419707,paired t test,t,3.829983,,579,8.90796982844222e-08,,,,,,Cohen's dz,0.1690928,0.04442228,0.08194452,0.2560784,0.1590314,0.04178445,0.07706687,0.2408602,0.1617462,0.1134286,0.2100637,5.340937e-11,,"3F,Table S1",Yes,Yes,Yes,Yes,1,5,3,2,Cells,Cells,Cells,Cell-based,"cell culture,cell counting assay (C-chip),NanoString hybridization and analysis","cell,molecular",2,"Core13,Core19","1,3,4",Digital gene expression analsysis in P493-6 cells,1269.0,1336,1292,Yes,Yes,,0,,6,,2.0,Yes,Cell lysate,,,,,,,Yes,Mann-Whitney,Yes,Code shared by authors after Registered Report published,Transcriptional amplification in tumor cells with elevated c-Myc,2012,Cell,8,https://osf.io/mokeb/,2014-02-21,25000,48317.5,49877.5,50877.5,41836,41987,https://elifesciences.org/articles/04024,41987,42834,Yes,,42926,43055,https://elifesciences.org/articles/30274,Yes,Yes,Yes,2,"Core13,Core19",A statement in the acknowledgment section was identified as a COI statement.,TRUE,TRUE,a. GTE moderate success,1,0,0,b.Yes,0,1,0,FALSE,TRUE,FALSE,TRUE,p48e2o6,2,p48e2,0.1690928,Cohen's dz,0.08194452,0.2560784,0.1590314,0.07706687,0.2408602,0.04442228,0.0417847805602503,0.0019733389603984,0.00174596788646827,0.1690928,0.08194452,0.2560784,0.158476738938271,0.07706687,0.2408602,0.0444227244412514,0.0296345688332682,0.00197337844678336,0.000878207669933709
+317,317,317,317,50,1,1,1,Change in F. nucleatum DNA in colorectal carcinoma vs adjacent normal tissue,Positive,Positive,99,40,Yes,paired t test,paired t test,t,4.999382,,98,2.52e-06,Wilcoxon signed-rank test,z,2.137166,,,0.03207874,No,,,,,,,r,0.4507904,0.1020621,0.2781297,0.5952318,0.2389425,0.164399,-0.07840262,0.5123185,0.3955458,0.2434207,0.5286776,1.4019e-06,Positive,paired t test,t,4.999382,,98,2.52e-06,paired t test,t,2.671276,,39,0.01096665,,,,,,Cohen's dz,0.5024568,0.1066587,0.2921781,0.7104506,0.426857,0.1651593,0.1003903,0.7483153,0.4802072,0.3045961,0.6558183,8.34497e-08,,2.0,Yes,Yes,Yes,Yes,1,0,0,0,,,,Patient Samples,"genomic DNA extraction,qPCR",molecular,2,"CRO23,CRO24",1.0,Relative abundance of F. nucleatum by qPCR in colorectal carcinoma versus adjacent normal biopsies,99.0,40,40,Yes,Yes,,3,Increased amount of total RNA for PCR assay; Re-purified genomic DNA; Sequenced PCR products,5,,"1,2",Yes,Genomic DNA,,,,,,,Yes,paired t test,Yes,,Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma,2012,Genome Research,11,https://osf.io/v4se2/,2015-01-21,25000,33650,55750,57200,42198,42338,https://elifesciences.org/articles/10012,42359,42740,Yes,,42774,43126,https://elifesciences.org/articles/25801,Yes,No,Yes,2,"CRO23,CRO24",,TRUE,TRUE,a. GTE moderate success,1,0,0,c. Not requested,0,0,1,TRUE,FALSE,FALSE,TRUE,p50e1o1,1,p50e1,0.5024568,Cohen's dz,0.2921781,0.7104506,0.426857,0.1003903,0.7483153,0.1066587,0.165290027038953,0.01137607828569,0.0273207930385379,0.5024568,0.2921781,0.7104506,0.426857,0.1003903,0.7483153,0.106704129080759,0.165290027038953,0.0113857711628832,0.0273207930385379
diff --git a/rsAbsence.Rnw b/rsAbsence.Rnw
index 1f72f07..ecf3e7b 100755
--- a/rsAbsence.Rnw
+++ b/rsAbsence.Rnw
@@ -142,20 +142,20 @@ well-designed study is constructed in a way that a large enough sample (of
 participants, n) is used to achieve an 80-90\% power of correctly rejecting the
 null hypothesis. This leaves us with a 10-20\% chance of a false negative.
 Somehow this fact from ``Hypothesis Testing 101'' is all too often forgotten and
-studies showing an effect with a p-value larger than the conventionally used
+studies showing an effect with a $p$-value larger than the conventionally used
 significance level of $\alpha = 0.05$ are doomed to be a ``negative study'' or
 showing a ``null effect''. Some have called to abolish the term ``negative
 study'' altogether, as every well-designed and well-conducted study is a
 ``positive contribution to knowledge'', regardless it’s results
 \citep{Chalmers1002}. In general, $p$-values and signifcance testing are often
 misinterpreted \citep{Goodman2008, Greenland2016}. This is why suggestions to
-shift away from significance testing\citep{Berner2022} or to redefine
+shift away from significance testing \citep{Berner2022} or to redefine
 statistical significance \citep{Benjamin2017} have been made.
 
 Turning to the replication context, replicability has been
 defined as ``obtaining consistent results across studies aimed at answering the
 same scientific question, each of which has obtained its own data''
-\citep{NSF2019}. Hence, a replication of an original finding attempts to find
+\citep{NSF2019}. Hence, a replication study of an original finding attempts to find
 consistent results while applying the same methods and protocol as published in
 the original study on newly collected data. In the past decade, an increasing
 number of collaborations of researcher and research groups conducted large-scale
@@ -164,8 +164,8 @@ research field. In these projects, a set of high impact and influential original
 studies were selected to be replicated as close as possible to the original
 methodology. The results and conclusions of the RPs showed alarmingly low levels
 of replicability in most fields. The Replication Project Cancer Biology
-\citep[RPCB]{Errington2021}, the RP in Experimental Philosophy
-\citep[RPEP]{Cova2018} and the RP in Psychological Science
+\citep[RPCB]{Errington2021}, the RP Experimental Philosophy
+\citep[RPEP]{Cova2018} and the RP Psychology
 \citep[RPP]{Opensc2015} also attempted to replicate original studies with
 non-significant effects. The authors of those RPs unfortunately fell into the
 ``absence of evidence''-fallacy trap when defining successful replications.
@@ -173,17 +173,21 @@ As described in \citet{Cobey2022}, there is a large variability in how success
 is defined in replication studies. They found that in their sample of
 replication attempts most authors used a comparison of effect sizes to assess
 replication success, while many others used a definition based on statistical
-significance, where a replication is successful if it replicated the
+significance, where a replication is successful if it replicates the
 significance and direction of the effect published in the original study. When
-it comes to the replication of a non-significant original effect some such
-definitions are more useful than others. More specifically, the RPCB and RPEP
+it comes to the replication of a non-significant original effect some
+definitions are more useful than others. The authors of the RPCB and the RPEP
 explicitly define a replication of a non-significant original effect as
 successful if the effect in the replication study is also non-significant.
 While the authors of the RPEP warn the reader that the use of $p$-values as
 criterion for success is problematic when applied to replications of original
-non-significant findings, the authors of the RPCB do not. In the RPP, on the
-other hand, ``original nulls'' were excluded when assessing replication
-success based on significance.
+non-significant findings, the authors of the RPCB do not. In the RP Psychology,
+on the other hand, ``original nulls'' were excluded when assessing replication
+success based on significance. While we would further like to encourage the
+replication of non-significant original findings we urgently argue against using
+statistical significance when assessing the replication of an ``original null''.
+Indeed, the non-significance of the original effect should already be considered
+in the design of the replication study.
 
 % In general, using the significance criterion as definition of replication success
 % arises from a false interpretation of the failure to find evidence against the null
@@ -192,69 +196,69 @@ success based on significance.
 % especially true if the original study is under-powered.
 
 
-\textbf{To replicate or not to replicate an original ``null'' finding?} Because
-of the previously presented fallacy, original studies with non-significant
-effects are seldom replicated. Given the cost of replication studies, it is also
-unwise to advise replicating a study that has low changes of successful
-replication. To help deciding what studies are worth repeating, efforts to
+\textbf{To replicate or not to replicate an original ``null'' finding?} The
+previously presented fallacy leads to the situation in which only a few studies
+with non-significant effects are replicated. These same non-significant original
+finding additionally might not have been published in the first place
+(\textit{i.e.} publication bias). Given the cost of replication
+studies and especially large-scale replication projects, it is also
+unwise to advise replicating a study that is unlikely to replicate successfully.
+To help deciding what studies are worth repeating, efforts to
 predict which studies have a higher chance to replicate successfully emerged
 \citep{Altmejd2019, Pawel2020}. Of note is that the chance of a successful
 replication intrinsically depends on the definition of replication success. If
 for a successful replication we need a ``significant result in the same
 direction in both the original and the replication study'' \citep[i.e. the
-two-trials rule][]{Senn2008}, replicating a non-significant original result does
-indeed not make any sense. However, the use of significance as sole criterion
+two-trials rule][]{Senn2008}, there is indeed no point in replicating a
+non-significant original result. The use of significance as sole criterion
 for replication success has its shortcomings and other definitions for
 replication success have been proposed \citep{Simonsohn2015, Ly2018, Hedges2019,
-Held2020}. Low power in the original studies might render the results hard to
-replicate \citep{Button2013, Anderson2017}. Additionally, replication studies
-have to be well-designed too in order to ensure high enough replication power
-\citep{Anderson2017, Micheloud2020}.
-
-According to \citet{Anderson2016}, if the goal of a replications is to infer a
-null effect evidence for the null hypothesis has to be provided. To achieve this
+Held2020}. An other common problem is low power in the original study which
+might render the results hard to replicate \citep{Button2013, Anderson2017}.
+
+In general, if the decision to attempt replication has been taken, the
+replication study has to be well-designed too in order to ensure high enough
+replication power \citep{Anderson2017, Micheloud2020}. According to
+\citet{Anderson2016}, if the goal of a replications is to infer a ``null
+effect'' evidence for the null hypothesis has to be provided. To achieve this
 they recommend to use equivalence tests or Bayesian methods to quantify the
 evidence for the null hypothesis can be used. In the following, we will
-illustrate how to accurately interpret the potential replication of original
+illustrate methods to accurately interpret the potential replication of original
 non-significant results in the Replication Project Cancer Biology.
 
 \section{Example: ``Null findings'' from the Replication Project Cancer
   Biology}
-One hundred fifty-eight original effects presented in 23 original studies were
-repeated in the RPCB \citep{Errington2021}. Twenty-two (14\%) of these were
-interpreted as ``null effects'' by the original authors.
-Figure~\ref{fig:nullfindings} shows effect estimates with confidence
-intervals for these original ``null findings'' (with original $p$-value
-$p_{o} > 0.05$) and their replication studies.
-
 << "data" >>=
 ## data
-rpcbRaw <- read.csv(file = "data/RP_CB Final Analysis - Effect level data.csv")
+rpcbRaw <- read.csv(file = "data/prepped_outcome_level_data.csv")
+
 rpcb <- rpcbRaw %>%
-    select(paper = Paper..,
-           experiment = Experiment..,
-           effect = Effect..,
-           internalReplication = Internal.replication..,
-           effectType = Effect.size.type,
-           ## effect sizes, standard errors, p-values on original scale
-           ESo = Original.effect.size,
-           seESo = Original.standard.error,
-           lowerESo = Original.lower.CI,
-           upperESo = Original.upper.CI,
-           po = Original.p.value,
-           ESr = Replication.effect.size,
-           seESr = Replication.standard.error,
-           lowerESr = Replication.lower.CI,
-           upperESr = Replication.upper.CI,
-           pr = Replication.p.value,
-           ## effect sizes, standard errors, p-values on SMD scale
-           smdo = Original.effect.size..SMD.,
-           so = Original.standard.error..SMD.,
-           no = Original.sample.size,
-           smdr = Replication.effect.size..SMD.,
-           sr = Replication.standard.error..SMD. ,
-           nr = Replication.sample.size
-           ) %>%
+  select(paper = pID,
+         experiment = eID,
+         effect = oID,
+         internalReplication = internalID,
+         effectType = Effect.size.type,
+         ## effect sizes, standard errors, p-values on original scale
+         ESo = Original.effect.size,
+         seESo = Original.standard.error,
+         lowerESo = Original.lower.CI,
+         upperESo = Original.upper.CI,
+         po = origPval,
+         ESr = Replication.effect.size,
+         seESr = Replication.standard.error,
+         lowerESr = Replication.lower.CI,
+         upperESr = Replication.upper.CI,
+         pr = repPval,
+         ## effect sizes, standard errors, p-values on SMD scale
+         smdo = origES3,
+         so = origSE3,
+         lowero = origESLo3,
+         uppero = origESHi3,
+         smdr = repES3,
+         sr = repSE3,
+         # Original and replication sample size
+         no = origN,
+         nr = repN) %>%
     mutate(
         ## define identifier for effect
         id = paste0("(", paper, ", ", experiment, ", ", effect, ", ",
@@ -279,18 +283,36 @@ rpcb <- rpcbRaw %>%
         BFrformat = formatBF(BF = BFr)
     )
 
-## TODO identify correct "null" findings as in paper
+# TODO identify correct "null" findings as in paper
 rpcbNull <- rpcb %>%
     ## filter(po1 > 0.025) #?
     filter(po > 0.05) #?
 
+
+# Exclude
+
 ## ## check HR studies
-## rpcb %>%
-##     filter(effectType == "Hazard ratio") %>%
-##     mutate(seESo2 = (log(upperESo) - log(lowerESo))/(2*1.96)) %>%
-##     select(seESo, seESo2)
+# rpcb %>%
+#     filter(effectType == "Hazard ratio") %>%
+#     mutate(seESo2 = (log(upperESo) - log(lowerESo))/(2*1.96)) %>%
+#     select(seESo, seESo2)
 @
 
+One hundred fifty-eight original effects presented in 23 original studies were
+repeated in the RPCB \citep{Errington2021}. Twenty-two effects (14\%) were
+interpreted as ``null effects'' by the original authors. We were able to
+extract the data by executing the script \texttt{Code/data\_prep.R} from the
+github repository \texttt{mayamathur/rpcb.git}. We did however adapt the
+\texttt{R}-script to also include null-originals\footnote{By commenting-out line
+632.}. The final data includes all effect sizes, from original and replication
+study, on the standardized mean difference scale. We found only
+\Sexpr{nrow(rpcbNull)} original-replication study-pairs with an original ``null
+effect``, \textit{i.e.} with original $p$-value $p_{o} > 0.05$. \todo{explain
+discrepancy: 22 vs 23?}
+
+
+Figure~\ref{fig:nullfindings} shows effect estimates with confidence
+intervals for these original ``null findings'' and their replication studies.
 
 
 \begin{figure}[!htb]
@@ -299,35 +321,44 @@ ggplot(data = rpcbNull) +
   facet_wrap(~ id + effectType, scales = "free", ncol = 4) +
   geom_hline(yintercept = 0, lty = 2, alpha = 0.5) +
   geom_pointrange(aes(x = "Original", y = smdo, ymin = smdo - 2*so,
-                      ymax = smdo + 2*so)) +
+                      ymax = smdo + 2*so), size = .25) +
   geom_pointrange(aes(x = "Replication", y = smdr, ymin = smdr - 2*sr,
-                      ymax = smdr + 2*sr)) +
+                      ymax = smdr + 2*sr), size = .25) +
   labs(x = "", y = "Standardized mean difference (SMD)") +
-  geom_text(aes(x = 1.4, y = smdo, #pmin(smdr - 2.2*sr, smdo - 2.2*so),
-                  label = paste("n[o]==", no)), col = "darkblue",
+  geom_text(aes(x = 1.4, y = smdo,
+                label = paste("n[o]==", no)), col = "darkblue",
             parse = TRUE, size = 2.5,
             nudge_x = -.05) +
-  geom_text(aes(x = 2.4, y = smdr, #pmin(smdr - 2.2*sr, smdo - 2.2*so),
+  geom_text(aes(x = 2.4, y = smdr,
                 label = paste("n[r]==", nr)), col = "darkblue",
             parse = TRUE, size = 2.5,
             nudge_x = -.05) +
   theme_bw() +
   theme(panel.grid.minor = element_blank(),
-        panel.grid.major.x = element_blank())
+        panel.grid.major.x = element_blank(),
+        strip.text = element_text(size = 8, margin = margin(4), vjust = 1.5),
+        # panel.margin = unit(-1, "lines"),
+        strip.background = element_rect(fill = alpha("tan", .4)),
+        axis.text = element_text(size = 8))
 
-# TODO: one replication is missing, id == "(37, 2, 2, 1)"
+# TODO: some replications are missing, e.g. id == "(37, 2, 2, 1)"
 # what should we do with it?
 
 @
-\caption{Standardized mean difference effect estimates with 95\% confidence
+\caption{
+  Standardized mean difference (SMD) effect estimates with 95\% confidence
   interval for the ``null findings'' (with $p_{o} > 0.05$) and their replication
   studies from the Reproducibility Project: Cancer Biology \citep{Errington2021}.
   The identifier above each plot indicates (Original paper number, Experiment
-  number, Effect number, Internal replication number). The data were downloaded
-  from \url{https://doi.org/10.17605/osf.io/e5nvr}. The relevant variables were
-  extracted from the file ``\texttt{RP\_CB Final Analysis - Effect level
-    data.csv}''. Additionally the original ($n_o$) and replication sample sizes
-    ($n_r$) are indicated in each plot.}
+  number, Effect number, Internal replication number). Additionally, the
+  original effect size type is indicated, while all effect sizes were
+  transformed to the SMD scale. %The data were downloaded from \url{https://doi.org/10.17605/osf.io/e5nvr}.
+  % The relevant variables were
+  % extracted from the file ``\texttt{RP\_CB Final Analysis - Effect level
+    % data.csv}''.
+  The original ($n_o$) and replication ($n_r$) sample sizes are indicated in
+  each plot, where sample size represents the total sample size of the two
+  groups being compared as was retrieved from the code-book.}
 \label{fig:nullfindings}
 \end{figure}
 
@@ -392,18 +423,15 @@ ggplot(data = rpcbNull) +
     labs(x = "", y = "Standardized mean difference (SMD)") +
     theme_bw() +
     theme(panel.grid.minor = element_blank(),
-          panel.grid.major.x = element_blank())
+          panel.grid.major.x = element_blank(),
+          strip.text = element_text(size = 8, margin = margin(4), vjust = 1.5),
+          # panel.margin = unit(-1, "lines"),
+          strip.background = element_rect(fill = alpha("tan", .4)),
+          axis.text = element_text(size = 8))
 
 @
-\caption{Standardized mean difference effect estimates with 95\% confidence
-  interval for the ``null findings'' (with $p_{o} > 0.05$) and their replication
-  studies from the Reproducibility Project: Cancer Biology \citep{Errington2021}.
-  The identifier above each plot indicates (Original paper number, Experiment
-  number, Effect number, Internal replication number). The data were downloaded
-  from \url{https://doi.org/10.17605/osf.io/e5nvr}. The relevant variables were
-  extracted from the file ``\texttt{RP\_CB Final Analysis - Effect level
-    data.csv}''.}
-\label{fig:nullfindings}
+\caption{tba}
+\label{fig:nullfindings_BF}
 \end{figure}
 
 
-- 
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