3d genome workshop - overview of encodeepigenomegateway.wustl.edu/support/2016ashg/2016-10-18... ·...
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3DGenomeWorkshop-OverviewofENCODE
DanGilchristNa<onalHumanGenomeResearchIns<tute
October18,2016
TheENCODEProject3DDataAccessThroughtheENCODEPortalTheENCODEEncyclopediaToolsforInves<ga<ngGene<cVariants
3DGenomeWorkshop-OverviewofENCODE
ENCODETutorialshPps://www.encodeproject.org/tutorials/hPp://www.genome.gov/27553900
ENCODETutorials
ENCODE:Annota<ngthenon-codinggenome
Vastmajorityofcommondiseaseassocia<onsandheritabilitylieoutsideofcodingregionsNon-codingvariantsknowntocausehumandiseasesandalterhumantraits(FXS,ALS)
Stamatoyannopoulos,Science337:1190,2012
GoalsofENCODE
Iden<fyallcandidatefunc<onalelementsinthehumanandmousegenomes
Promoters,enhancers,transcribedregionsMakeresourcefreelyavailabletothecommunityforuseinstudiesof:
Gene<cbasisofdisease
Generegula<onComputa<onaltooldevelopment
ENCODEDataTypes
1000sofdatasets100sofbiosamples
TheENCODEProject3DDataAccessThroughtheENCODEPortalTheENCODEEncyclopediaToolsforInves<ga<ngGene<cVariants
3DGenomeWorkshop-OverviewofENCODE
ENCODEPortal–Unrestricteddataaccess
hPps://encodeproject.org
Selectdatasets
Clicktodownloadorvisualize
Dataalsoavailablethroughprograma<cwebservices
TheENCODEProject3DDataAccessThroughtheENCODEPortalTheENCODEEncyclopediaToolsforInves<ga<ngGene<cVariants
3DGenomeWorkshop-OverviewofENCODE
ENCODEAnnota<ons–theEncyclopedia
TheENCODEProject3DDataAccessThroughtheENCODEPortalTheENCODEEncyclopediaToolsforInves<ga<ngGene<cVariants
3DGenomeWorkshop-OverviewofENCODE
ToolsforVariantAnnota<on–FunSeq2
hPp://funseq2.gersteinlab.org/Fu,Khurana,Gerstein,GenomeBiology(15)102014
ToolsforVariantAnnota<on-RegulomeDB
hPp://regulomedb.org/Boyle,Cherry,Snyder,GenomeResearch22-1790,2012
ToolsforVariantAnnota<on-HaploReg
www.broadins<tute.org/mammals/haploreg/WardandKellis,NucleicAcidsResearch40-D930,2011
Comingsoon–ENCODEElementVisualizer!!!
Comingsoon–NextPhaseofENCODE
Star<ngin2017ElementmappinginnormalanddiseasesamplesCharacterizingfunc<onofcandidateelementsLikelytoincludeexpanded3Ddatasets
ENCODEatASHG2016
ChatwithENCODEDataCoordina<onCenterandNHGRIENCODEStaff
NHGRIBooth#5172-3PMThursday10/20
ENCODEDCCWorkshop-OpenScience:QualityAssuranceandAnalysisofChIP-seqDataUsingtheENCODEUniformProcessingPipeline
BallroomB7:15AMFriday10/21
EliseFeingold MikePazin18
ENCODEProjectPar<cipants