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DatasubmissiontoNCBI(SRA)
TableofContents
1.Quickview
2.ExampleSRASubmission
3.Detaileddescription
4.Additionalresources

Quickview

Beforeyoubegin

Registermetadata

Gatherinformation
Whydidyouperformyour
analysis?

Providetechnicaldetails

BioProject

Transmitdatafiles

SRAStudy

Adescriptionoftheresearch
effort
"Why"yousequencedyour
samples

Projecttitleandabstract
Aimsandobjectives
Organism(s)sequenced
Optional:Fundingsources,
publications,etc.
Whatdidyousequence?
Descriptivesampleinformation
Tabularformatisideal
Examples:Organism(s),
age(s),gender(s),location
data,cellline(s),etc.

BioSample

SRASample

Adescriptionofbiologicallyor
physicallyuniquespecimens
"What"yousequenced

Howdidyousequenceyour
samples?

SRAExperiment
Adescriptionofasample
specificsequencinglibrary
"How"youperformedthe
sequencing
MultipleExperimentscan
"point"toasingleSample,but
notviceversa

Sequencingmethods
Kitsused
Instrumentmodel(s)
Whatisyourdatafileformat?
Filesinacceptableformat(s):
BAM,FASTQ,etc.
MD5checksumforeachfile
Minimumof1uniquedataset
persample

1
ExampleSRASubmission

SRARun
AllfileslinkedtoaRunare
"merged"intoasingledataset
FilesareconvertedtoSRA
format
FilessubmittedbyFTPor
Asperaoncesteps1and2are
complete

Grey:Eachsubmissionshouldencompassasingle'project'.
Red:ProjectandsampleinformationareimportedfromtheSubmissionPortal.
Green:Eachsampleneeds1ormoresequencinglibraries(SRAExperiments).
Blue:Runsidentifyindividualfiles(orsetse.g.,pairedenddata).

Detaileddescription
1.Beginyoursubmissionbyregisteringprojectandsampleinformation
BioProjectisanoveralldescriptionofasingleresearchinitiativeaprojectwilltypicallyrelatetomultiplesamplesanddatasets
BioSampleisadescriptionofbiologicalsourcematerialeachphysicallyuniquespecimenshouldberegisteredasasingleBioSamplewitha
uniquesetofattributes
Pleaseseehereforexamplesofwhatweconsideruniquesamples
2.ImportyourBioProjectandBioSampleaccessionsintotheSRAwhileprovidingtechnicalinformationaboutsequencingmethods
CreateanewSRAsubmissionhere
Registeratleastoneuniquesequencinglibrary(click"NewExperiment")foreachBioSampleuserswithmanysamplesareencouragedto
emailtheSRAforsuggestionsandsupport
WhenregisteringSRAExperiments,youwilldesignateyourBioProjectandBioSampleaccessions,andtheywillbeimportedintotheSRA
3.Thefinalstepofthesubmissionistosenddatafiles.
Identifywhichdatafile(s)shouldbelinkedtoagivensequencinglibraryandspecifytheminone(ormore)Runs(click"NewRun"afterSRA
Experiment(s)havebeenmade)
SubmittersshouldcomputetheMD5sumofeachdatafilebeforehandthisisnecessarytoensuretheintegrityofsubmittedfiles
OncefilesaredesignatedinanSRARun,thesystemwillprovidethecurrentusernameandpasswordtoallowfilestobesentviaFTP
Userswithlargedatafiles(>1GB)and/orwhoarelocatedoverseasareencouragedtoinstallAsperaConnectandthencontacttheSRAfor
instructionsonhowtosendfiles

Additionalresources
1.SRAsubmissionquickstartguide:Astepbystepwalkthroughoftheentiresubmissionprocess,completewithscreenshotsand"howto"advice
2.SRAsubmissionFAQ:AquestionanswerformatpagethataddressesseveralcommonquestionsaboutsubmissiontotheSRA
3.SRAfileformatguide:AdetaileddescriptionoftheformatsthatareacceptableforsubmissiontotheSRA
4.SRAAsperaguide:AnoverviewofusingAsperaConnectandthecommandlinetool"ascp"touploadtoanddownloadfromtheSRA
WritetotheHelpDesk

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NationalCenterforBiotechnologyInformation

Accessibility

U.S.NationalLibraryofMedicine

Lastupdate:FriJan810:16:37EST2016

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