3D Genome Workshop - Overview of ENCODEepigenomegateway.wustl.edu/support/2016ASHG/2016-10-18... ·...

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3D Genome Workshop - Overview of ENCODE Dan Gilchrist Na<onal Human Genome Research Ins<tute October 18, 2016

Transcript of 3D Genome Workshop - Overview of ENCODEepigenomegateway.wustl.edu/support/2016ASHG/2016-10-18... ·...

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3DGenomeWorkshop-OverviewofENCODE

DanGilchristNa<onalHumanGenomeResearchIns<tute

October18,2016

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TheENCODEProject3DDataAccessThroughtheENCODEPortalTheENCODEEncyclopediaToolsforInves<ga<ngGene<cVariants

3DGenomeWorkshop-OverviewofENCODE

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ENCODETutorialshPps://www.encodeproject.org/tutorials/hPp://www.genome.gov/27553900

ENCODETutorials

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ENCODE:Annota<ngthenon-codinggenome

Vastmajorityofcommondiseaseassocia<onsandheritabilitylieoutsideofcodingregionsNon-codingvariantsknowntocausehumandiseasesandalterhumantraits(FXS,ALS)

Stamatoyannopoulos,Science337:1190,2012

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GoalsofENCODE

Iden<fyallcandidatefunc<onalelementsinthehumanandmousegenomes

Promoters,enhancers,transcribedregionsMakeresourcefreelyavailabletothecommunityforuseinstudiesof:

Gene<cbasisofdisease

Generegula<onComputa<onaltooldevelopment

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ENCODEDataTypes

1000sofdatasets100sofbiosamples

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TheENCODEProject3DDataAccessThroughtheENCODEPortalTheENCODEEncyclopediaToolsforInves<ga<ngGene<cVariants

3DGenomeWorkshop-OverviewofENCODE

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ENCODEPortal–Unrestricteddataaccess

hPps://encodeproject.org

Selectdatasets

Clicktodownloadorvisualize

Dataalsoavailablethroughprograma<cwebservices

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TheENCODEProject3DDataAccessThroughtheENCODEPortalTheENCODEEncyclopediaToolsforInves<ga<ngGene<cVariants

3DGenomeWorkshop-OverviewofENCODE

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ENCODEAnnota<ons–theEncyclopedia

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TheENCODEProject3DDataAccessThroughtheENCODEPortalTheENCODEEncyclopediaToolsforInves<ga<ngGene<cVariants

3DGenomeWorkshop-OverviewofENCODE

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ToolsforVariantAnnota<on–FunSeq2

hPp://funseq2.gersteinlab.org/Fu,Khurana,Gerstein,GenomeBiology(15)102014

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ToolsforVariantAnnota<on-RegulomeDB

hPp://regulomedb.org/Boyle,Cherry,Snyder,GenomeResearch22-1790,2012

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ToolsforVariantAnnota<on-HaploReg

www.broadins<tute.org/mammals/haploreg/WardandKellis,NucleicAcidsResearch40-D930,2011

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Comingsoon–ENCODEElementVisualizer!!!

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Comingsoon–NextPhaseofENCODE

Star<ngin2017ElementmappinginnormalanddiseasesamplesCharacterizingfunc<onofcandidateelementsLikelytoincludeexpanded3Ddatasets

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ENCODEatASHG2016

ChatwithENCODEDataCoordina<onCenterandNHGRIENCODEStaff

NHGRIBooth#5172-3PMThursday10/20

ENCODEDCCWorkshop-OpenScience:QualityAssuranceandAnalysisofChIP-seqDataUsingtheENCODEUniformProcessingPipeline

BallroomB7:15AMFriday10/21

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EliseFeingold MikePazin18

ENCODEProjectPar<cipants


ENCODE Discussion - Schatzlabschatzlab.cshl.edu/teaching/2014/Genomics Lecture 2. ENCODE Disc… · 26/09/2014  · “Given that the ENCODE project did not assay all cell types,

ENCODE Discussion - Schatzlabschatzlab.cshl.edu/teaching/2014/Genomics Lecture 2. ENCODE Disc… · 26/09/2014  · “Given that the ENCODE project did not assay all cell types,

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Proposal to Encode the Khojki Script in ISO/IEC 10646ismaili.net/heritage/files/khojki-unicode.pdf · Proposal to Encode the Khojki Script in ISO ... Proposal to Encode the Khojki

Proposal to Encode the Khojki Script in ISO/IEC 10646ismaili.net/heritage/files/khojki-unicode.pdf · Proposal to Encode the Khojki Script in ISO ... Proposal to Encode the Khojki

Using ENCODE Data To Interpret Disease-associated ...Using ENCODE Data To Interpret Disease-associated Gene8c Variaon Mike Pazin Naonal Human Genome Research Ins8tute, NIH ENCODE Users

Using ENCODE Data To Interpret Disease-associated ...Using ENCODE Data To Interpret Disease-associated Gene8c Variaon Mike Pazin Naonal Human Genome Research Ins8tute, NIH ENCODE Users

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Gene regulaon: ENCODE project and the Human Epigenome Atlas€¦ · The ENCODE Project hLps:// The Encyclopedia of DNA Elements (ENCODE) Consor.um is an internaonal collaboraon of

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Stable Topological Signatures for Points on 3D Shapes - · PDF fileStable Topological Signatures for Points on 3D Shapes ... to many classical analysis and learning ... compactly encode

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Decode ENCODE

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The ENCODE Project

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ENCODE Ensembl Workbook - genome.gov

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ENCODE DCC Antibody Characterization CDP

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Preliminary proposal to encode Devanagari letter numerals · 2017-01-18 · Preliminary proposal to encode Devanagari letter numerals Srinidhi A and Sridatta A Tumakuru, India srinidhi.pinkpetals24@gmail.com,

Preliminary proposal to encode Devanagari letter numerals · 2017-01-18 · Preliminary proposal to encode Devanagari letter numerals Srinidhi A and Sridatta A Tumakuru, India [email protected],

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ENCODE ANALYSIS PIPELINES - Genome · Workshop Goals J. Seth Strattan, PhD ENCODE DCC 3 • Introduce the ENCODE Analysis Pipelines. • Run the transcription factor ChIP-seq pipeline

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"L2/18-126: Preliminary proposal to encode Old Uyghur in ... · L2/18-126 2018-04-30 PreliminaryproposaltoencodeOldUyghurinUnicode AnshumanPandey pandey@umich.edu April30,2018 1 Introduction

"L2/18-126: Preliminary proposal to encode Old Uyghur in ... · L2/18-126 2018-04-30 PreliminaryproposaltoencodeOldUyghurinUnicode AnshumanPandey [email protected] April30,2018 1 Introduction

Encode variation analysis. Analysis goals Quantify genetic variation in ENCODE regions Detect selective constraint in ENCODE features Develop rules for.

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