Beyond supplementary material · Opus Majus Theories supplied by reason should be verified by...
Transcript of Beyond supplementary material · Opus Majus Theories supplied by reason should be verified by...
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Beyondsupplementarymaterial:sharingdataeffectivelythroughrepositoriesanddatajournalsAndrewLHuftonManagingEditor,ScientificData
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Scienceisabouttrust(withevidence)
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OpusMajusTheoriessuppliedbyreasonshouldbeverifiedbysensorydata,aidedbyinstruments,andcorroboratedbytrustworthywitnesses
OpusTertiumThestrongestargumentprovesnothingsolongastheconclusionsarenotverifiedbyexperience.
RogerBacon,1214– 1292
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Backingupyourclaimswithevidencehasalwaysbeenakeypartofscience
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Withoutproperdatahandlingthingscangowrong…
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Raisingreportingstandardsfordatadescription
(a)WesternblotofcelllysatesofcontrolandRac1-siRNA-treatedMTLn3cells,blottedforRac1andβ-actin.Arepresentativeimageisshownfrom3blots.(b)MTLn3cellstransfectedwithcontrolorRac1siRNAandplatedonAlexa-405-conjugatedgelatinovernight.Arrowspointtoinvadopodia andsitesofdegradation.Scalebars,10μm.Representativeimagesetsareshownfrom50imagesetseachforthecontrolandRac1siRNA.(c)Quantificationofmeandegradationareapercellfromb,includingRac1inhibitorNSC23766treatmentat100μM.n =60fieldsforeachcondition,pooledfrom5independentexperiments;errorbarsares.e.m.Student’st-testwasused.**P =0.00022,^ ^P =0.011639.Uncropped images ofblotsareshowninSupplementaryFig.9.
Checklisttoimprovefigurelegendsandreportinghttp://www.nature.com/authors/policies/checklist.pdf
statementofreplication
definitionofn
definitionofstatistictestsNatureCellBiology 16,571–583(2014)doi:10.1038/ncb2972
rawsourcedata
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• Macroeconomicsgrewfromthesharingofgovernmentdatawitheconomists
• Meteorologyandclimatescience:Therehasbeeninternationalsharingofweatherdataforover100years
• Bioinformatics:MadepossiblebyopensharingofproteinstructureandDNAsequencedata
Large-scaledatasharingisalsonotnewwholefieldshavebeenbornfromeffectivedatasharing
Sieber,J.E.DataSharinginHistoricalPerspective (2015)http://www.socialsciencespace.com/2015/09/data-sharing-in-historical-perspective/Hufton,A.L.Sharingthestructuresdoi:10.1038/nature13369(2014)
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Datasharingadvancesscience
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Datasharingisinthepublicinterest
Ø Weencourageourauthorstosharedatarelatedtopublichealthemergenciesassoonaspossible,evenprior topeerrevieworpublication.
Nature 518, 477–479 (2015)
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Datasharing– everyone’sdoingit
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The current situation
• Mostresearchersaresharingdata,andusingthedataofothers
• Directcontactbetweenresearchers(onrequest)isacommonwayofsharingdata
• Repositoriesaresecondmostcommonmethodofsharing
Kratz JE,Strasser C(2015)ResearcherPerspectivesonPublicationandPeerReviewofData.PLoS ONE10(2):e0117619.
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FundamentalsharingpolicyforNature andtheNatureresearchjournals
Aninherentprincipleofpublicationisthatothersshouldbeabletoreplicateandbuildupontheauthors'publishedclaims.AconditionofpublicationinaNaturejournalisthatauthorsarerequiredtomakematerials,data,code,andassociatedprotocolspromptlyavailabletoreaderswithoutunduequalifications.Anyrestrictionsontheavailabilityofmaterialsorinformationmustbedisclosedtotheeditors…[and]…inthe submittedmanuscript.
Supportingdatamustbemadeavailabletoeditorsandpeer-reviewersatthetimeofsubmissionforthepurposesofevaluatingthemanuscript.
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Seehttp://www.nature.com/authors/policies/availability.html
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Sharinguponrequesthasproblems
Replotted from:Vinesetal. CurrentBiology(2014)doi:10.1016/j.cub.2013.11.014
RawdataatDryaddoi:10.5061/dryad.q3g37
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dataareextan
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ublications)
Ageofpublication(years)
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• Clearpreferenceforsharinglargedatasetsviapublicrepositories.
• Enforcedatadepositioninfieldswherethereisstrongcommunityconsensus
• ListofpublicdatarepositoriesnowmaintainedbyScientificData
• EncourageauthorstopublishDataDescriptorsatScientificData• before,withoraftertheanalysispaper• editorsworkwithauthors
• Dataavailabilitystatementsrequired
Data-accesspracticesstrengthenedinNaturejournals
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Shareyourdatainausefulmanner
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Opendataisaboutmorethandisclosure– itmustbe“FAIR”
• Findable• Accessible• Interoperable• Re-usable
How do you make your data useful?
Wilkinsonetal.Sci.Datadoi:10.1038/sdata.2016.18 (2016)
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Publishitassupplementaryinformation
• Oftensufficientforsmalldatasets• Generallystableovertime• Generallycompatiblewitharangeofinformationtypes
But,• Oftenpoorlycuratedandnotalwaysthoroughlyreviewed– quality
variessignificantly• Notoftenmachine-readable• Hardtociteseparately,lackofcredit
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A B C D E1 Group1 Group22 Day 03 Sodium 139 1424 Potassium 3.3 4.85 Chloride 100 1086 BUN 18 187 Creatine 1.2 1.28 Uric acid 5.5* 6.2*9 Day 710 Sodium 140 14611 Potassium 3.4 5.112 Chloride 97 108
S1Sh.cuo
Poordatalayout
Meaninglesscolumntitles
Specialcharacterscancausetextmining
errors
Nounits
Unhelpfuldocumentname
Undefinedabbreviation
Formattingforinformationthatshouldbeinmetadata
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A B C D E F1 Parameter Day Control Treated Units P2 Sodium 0 139 142 mEq/l 0.823 Sodium 7 140 146 mEq/l 0.704 Sodium 14 140 158 mEq/l 0.035 Sodium 21 143 160 mEq/l 0.026 Potassium 0 3.3 4.8 mEq/l 0.067 Potassium 7 3.4 5.1 mEq/l 0.078 Potassium 14 3.7 4.7 mEq/l 0.109 Potassium 21 3.1 3.6 mEq/l 0.5210 Chloride 0 100 108 mEq/l 0.5611 Chloride 7 97 108 mEq/l 0.6812 Chloride 14 101 106 mEq/l 0.79
Table_S1_Shanghai_blood.xls
Betterdatalayout
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• Manycommunitieshavedevelopedspecificguidelinesforreportingcertainkindsofdata
• Checkjournalguidelinestoseewhatisrequired.• Canhelpyouformatyourdatainausefulmanner
• Browseinformationonover600reportingstandards• Findstandardsthatarerelevanttoyourtypeofdata
Knowtherelevantstandardsinyourcommunity
(https://biosharing.org)
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Findtherightrepositoryforyourdata
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Findtherightrepositoryforyourdata
Whattolookforinadatarepository
• Qualitycuration
• Acommitmenttolong-termpreservation
• Featuresthatsupportcollaborativeanalysis
• Featuresthatallowyoukeepdataprivateuntilyouarereadytopublish.
• Investigatedataarchivingoptionsatyourinstitution
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Browseourrecommendeddatarepositoryonline.• Wecurrentlylistmorethan90 repositories,acrossthe
biological,physicalandsocialsciences• Weadviseauthorsonthebestplacetostoretheirdata
Findtherightrepositoryforyourdata
http://www.nature.com/sdata/policies/repositories
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Publishyourdata
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• Aclear,peerrevieweddescriptionofdata,tomaximizeusage• Citablepublicationsthatgivecreditforreusabledata• Severaljournalspublishdatapaperformats,includingGigaScience,Earth
SystemsScienceData,andatNature,ScientificData
thedatapaper
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Get Credit for Sharing Your DataPublications will be indexed and citeable.
Open-accessArticles are published by default under a Creative Commons Attribution licence (CC BY). Each publication supported by CC0 metadata.
Focused on Data ReuseAll the information others need to reuse the data; no interpretative analysis, or hypothesis testing
Peer-reviewedRigorous peer-review focused on technical data quality and reuse value
Promoting Community Data RepositoriesNot a new data repository; data stored in community data repositories
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LaunchedinMay2014
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TheDataDescriptorarticle-type
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Data DescriptorFocus on data reuse
Sections:• Title• Abstract• Background&Summary• Methods• DataRecords• TechnicalValidation• UsageNotes• Figures&Tables• References• DataCitations
• Detaileddescriptionsofthemethodsandtechnicalanalysessupportingthequalityofthemeasurements.
• Doesnotcontaintestsofnewscientifichypotheses
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• Screen results and in-depth analysis published in 2011 at PNAS
• Full screen data published at Scientific Datain 2014
• Data at figshare
• Data Descriptor cited 89 times according to Google Scholar!
ADataDescriptor
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Neuroscience
CodeinGitHub
• Previously unpublished dataset
• Data in OpenfMRI• Cited 39 times according
to Google Scholar• Authors ran an analysis
challenge after publication
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Thinkbeyondyourowndata
citethedataofotherswhenyouuseit
beadata-mindedpeer-reviewer
usedataresponsibly
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Getthemostfromyourdata
PreserveitEncouragereuse
Getcredit
Encourageotherstodothesame
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Now launched!
Visit nature.com/scientificdata
Email [email protected]
Tweet @ScientificData
Managing EditorAndrew L. [email protected]
Honorary Academic EditorSusanna-Assunta Sansone
Data Curation EditorVarsha Khodiyar
Senior Publishing AssistantJoseph Salter
Head of Data PublishingIain Hrynaszkiewicz
Thanks!
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