Track Data Hubs
 

Track data hubs are collections of tracks from outside of UCSC that can be imported into the Genome Browser. To import a public hub check the box in the list below. After import the hub will show up as a group of tracks with its own blue bar and label underneath the main browser graphic, and in the configure page. For more information, see the User's Guide.

NOTE: Because Track Hubs are created and maintained by external sources, UCSC is not responsible for their content.

Display Hub Name Description Assemblies URL
rfam12_ncRNA Rfam 12.0 non-coding RNA annotation hg38,mm10,ce10,galGal4,ci2,danRer7,dm6,sacCer3 ftp://ftp.ebi.ac.uk/pub/databases/Rfam/12.0/genome_browser_hub/hub.txt
UniProt Features ERROR: Couldn't make directory /usr/local/apache/trash/udcCache/ftp Debughg38 ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/genome_annotation_tracks/UP000005640_9606_hub/hub.txt
Principal Splice Isoforms APPRIS Selects a single CDS variant for each gene as the 'PRINCIPAL' isoform based on the range of protein features. hg38,hg19,mm10,danRer10,rn6,susScr3,panTro4,dm6,ce10 http://apprisws.bioinfo.cnio.es/trackHub/hub.txt
Peptide evidences CNIO Peptides detected from a re-analysis of multiple experiments and databases hg38,hg19 http://apprisws.bioinfo.cnio.es/trackHubPROTEO/hub.txt
CESAR Gene Mappings Human Exons mapped by CESAR bosTau7,ailMel1,allMis1,anoCar2,calJac3,canFam3,cavPor3,cerSim1,chrPic1,criGri1,danRer7,dasNov3,echTel2,equCab2,eriEur2,felCat5,fr3,gadMor1,galGal4,gasAcu1,geoFor1,gorGor3,hetGla2,latCha1,loxAfr3,macEug2,macFas5,melGal1,melUnd1,mm10,monDom5,musFur1,myoLuc2,nomLeu3,ochPri3,oreNil2,ornAna1,oryCun2,oryLat2,otoGar3,oviAri3,panTro4,papHam1,petMar2,ponAbe2,pteVam1,rheMac3,rn5,saiBol1,sarHar1,sorAra2,speTri2,susScr3,taeGut2,tetNig2,triMan1,turTru2,vicPac2,xenTro7,hub.amaVit1,hub.anaPla1,hub.apaSpi1,hub.araMac1,hub.astMex1,hub.camFer1,hub.capHir1,hub.cheMyd1,hub.chiLan1,hub.chlSab1,hub.chrAsi1,hub.colLiv1,hub.conCri1,hub.eleEdw1,hub.eptFus1,hub.falChe1,hub.falPer1,hub.ficAlb2,hub.hapBur1,hub.jacJac1,hub.lepOcu1,hub.lepWed1,hub.mayZeb1,hub.mesAur1,hub.micOch1,hub.myoDav1,hub.neoBri1,hub.octDeg1,hub.odoRosDiv1,hub.orcOrc1,hub.oryAfe1,hub.panHod1,hub.pelSin1,hub.pseHum1,hub.pteAle1,hub.punNye1,hub.takFla1,hub.tupChi1,hub.xipMac1,hub.zonAlb1 http://bds.mpi-cbg.de/hillerlab/CESAR/trackHub/hub.txt
EPD Viewer Hub Promoter specific experimental data and TSS annotation from the EPD database amel5,araTha1,zm3,spo2 http://epd.vital-it.ch/ucsc/epdHubCustomSpecies/epdHubCustomSpecies.txt
McGill EMC (CEEHRC) McGill Epigenomics Mapping Centre, Montreal, Quebec, Canada hg19 http://epigenomesportal.ca/hub/hub.txt
FANTOM5 ERROR: Couldn't open http://fantom.gsc.riken.jp/5/datahub/hub.txt Debughg38,mm10,hg19,mm9,canFam3,rn6,rheMac8 http://fantom.gsc.riken.jp/5/datahub/hub.txt
FANTOM5 CAGE RECLU DATA RIKEN FANTOM5 CAGE clusters by RECLU hg19,hg18 http://fantom.gsc.riken.jp/5/suppl/Ohmiya_et_al_2014/data/hub.txt
Blueprint Hub Blueprint Epigenomics Data Hub hg38 http://ftp.ebi.ac.uk/pub/databases/blueprint/releases/current_release/homo_sapiens/hub/hub.txt
ENCODE Analysis Hub ENCODE Integrative Analysis Data Hub hg19 http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/hub.txt
Translation Initiation Sites (TIS) Translation Initiation Sites (TIS) track hg19 http://gengastro.med.tu-dresden.de/suppl/footprint/Hub/tisHub.txt
Ultraconserved Elements Ultra conserved Elements in the Human Genome Science 304(5675) pp.1321-1325 (2004) hg19 http://genome-test.cse.ucsc.edu/~hiram/hubs/GillBejerano/hub.txt
Plants CSHL Biology of Genomes meeting 2013 demonstration assembly hub araTha1,braRap1,ricCom1 http://genome-test.cse.ucsc.edu/~hiram/hubs/Plants/hub.txt
EcoliCompHub ERROR: Couldn't open http://genome-test.cse.ucsc.edu/~nknguyen/ecoli/publicHubs/pangenome/hub.txt DebugEscherichiaColi042Uid161985,EscherichiaColi536Uid58531,EscherichiaColi55989Uid59383,EscherichiaColiAbu83972Uid161975,EscherichiaColiApecO1Uid58623,EscherichiaColiAtcc8739Uid58783,EscherichiaColiBl21De3Uid161947,EscherichiaColiBl21De3Uid161949,EscherichiaColiBl21GoldDe3PlyssAgUid59245,EscherichiaColiBw2952Uid59391,EscherichiaColiBRel606Uid58803,EscherichiaColiCft073Uid57915,EscherichiaColiDh1Uid161951,EscherichiaColiDh1Uid162051,EscherichiaColiCloneDI14Uid162049,EscherichiaColiCloneDI2Uid162047,EscherichiaColiE24377aUid58395,EscherichiaColiEd1aUid59379,EscherichiaColiEtecH10407Uid161993,EscherichiaColiHsUid58393,EscherichiaColiIai1Uid59377,EscherichiaColiIai39Uid59381,EscherichiaColiIhe3034Uid162007,EscherichiaColiK12SubstrDh10bUid58979,EscherichiaColiK12SubstrMg1655Uid57779,EscherichiaColiK12SubstrW3110Uid161931,EscherichiaColiKo11flUid162099,EscherichiaColiKo11flUid52593,EscherichiaColiLf82Uid161965,EscherichiaColiNa114Uid162139,EscherichiaColiO103H212009Uid41013,EscherichiaColiO104H42009el2050Uid175905,EscherichiaColiO104H42009el2071Uid176128,EscherichiaColiO104H42011c3493Uid176127,EscherichiaColiO111H11128Uid41023,EscherichiaColiO127H6E234869Uid59343,EscherichiaColiO157H7Ec4115Uid59091,EscherichiaColiO157H7Edl933Uid57831,EscherichiaColiO157H7SakaiUid57781,EscherichiaColiO157H7Tw14359Uid59235,EscherichiaColiO26H1111368Uid41021,EscherichiaColiO55H7Cb9615Uid46655,EscherichiaColiO55H7Rm12579Uid162153,EscherichiaColiO7K1Ce10Uid162115,EscherichiaColiO83H1Nrg857cUid161987,EscherichiaColiP12bUid162061,EscherichiaColiS88Uid62979,EscherichiaColiSe11Uid59425,EscherichiaColiSe15Uid161939,EscherichiaColiSms35Uid58919,ShigellaBoydiiSb227Uid58215,ShigellaBoydiiCdc308394Uid58415,ShigellaDysenteriaeSd197Uid58213,ShigellaFlexneri2002017Uid159233,ShigellaFlexneri2a2457tUid57991,ShigellaFlexneri2a301Uid62907,ShigellaFlexneri58401Uid58583,ShigellaSonneiSs046Uid58217,ShigellaSonnei53gUid84383,EscherichiaColiUm146Uid162043,EscherichiaColiUmn026Uid62981,EscherichiaColiUmnk88Uid161991,EscherichiaColiUti89Uid58541,EscherichiaColiWUid162011,EscherichiaColiWUid162101,EscherichiaColiXuzhou21Uid163995,reference http://genome-test.cse.ucsc.edu/~nknguyen/ecoli/publicHubs/pangenome/hub.txt
EcoliCompHubWtDups ERROR: Couldn't open http://genome-test.cse.ucsc.edu/~nknguyen/ecoli/publicHubs/pangenomeWithDups/hub.txt DebugEscherichiaColi042Uid161985,EscherichiaColi536Uid58531,EscherichiaColi55989Uid59383,EscherichiaColiAbu83972Uid161975,EscherichiaColiApecO1Uid58623,EscherichiaColiAtcc8739Uid58783,EscherichiaColiBl21De3Uid161947,EscherichiaColiBl21De3Uid161949,EscherichiaColiBl21GoldDe3PlyssAgUid59245,EscherichiaColiBw2952Uid59391,EscherichiaColiBRel606Uid58803,EscherichiaColiCft073Uid57915,EscherichiaColiDh1Uid161951,EscherichiaColiDh1Uid162051,EscherichiaColiCloneDI14Uid162049,EscherichiaColiCloneDI2Uid162047,EscherichiaColiE24377aUid58395,EscherichiaColiEd1aUid59379,EscherichiaColiEtecH10407Uid161993,EscherichiaColiHsUid58393,EscherichiaColiIai1Uid59377,EscherichiaColiIai39Uid59381,EscherichiaColiIhe3034Uid162007,EscherichiaColiK12SubstrDh10bUid58979,EscherichiaColiK12SubstrMg1655Uid57779,EscherichiaColiK12SubstrW3110Uid161931,EscherichiaColiKo11flUid162099,EscherichiaColiKo11flUid52593,EscherichiaColiLf82Uid161965,EscherichiaColiNa114Uid162139,EscherichiaColiO103H212009Uid41013,EscherichiaColiO104H42009el2050Uid175905,EscherichiaColiO104H42009el2071Uid176128,EscherichiaColiO104H42011c3493Uid176127,EscherichiaColiO111H11128Uid41023,EscherichiaColiO127H6E234869Uid59343,EscherichiaColiO157H7Ec4115Uid59091,EscherichiaColiO157H7Edl933Uid57831,EscherichiaColiO157H7SakaiUid57781,EscherichiaColiO157H7Tw14359Uid59235,EscherichiaColiO26H1111368Uid41021,EscherichiaColiO55H7Cb9615Uid46655,EscherichiaColiO55H7Rm12579Uid162153,EscherichiaColiO7K1Ce10Uid162115,EscherichiaColiO83H1Nrg857cUid161987,EscherichiaColiP12bUid162061,EscherichiaColiS88Uid62979,EscherichiaColiSe11Uid59425,EscherichiaColiSe15Uid161939,EscherichiaColiSms35Uid58919,ShigellaBoydiiSb227Uid58215,ShigellaBoydiiCdc308394Uid58415,ShigellaDysenteriaeSd197Uid58213,ShigellaFlexneri2002017Uid159233,ShigellaFlexneri2a2457tUid57991,ShigellaFlexneri2a301Uid62907,ShigellaFlexneri58401Uid58583,ShigellaSonneiSs046Uid58217,ShigellaSonnei53gUid84383,EscherichiaColiUm146Uid162043,EscherichiaColiUmn026Uid62981,EscherichiaColiUmnk88Uid161991,EscherichiaColiUti89Uid58541,EscherichiaColiWUid162011,EscherichiaColiWUid162101,EscherichiaColiXuzhou21Uid163995,reference http://genome-test.cse.ucsc.edu/~nknguyen/ecoli/publicHubs/pangenomeWithDups/hub.txt
Croc and Bird Hub ERROR: Couldn't open http://genome-test.soe.ucsc.edu/~jcarmstr/crocBrowserRC2/hub.txt DebugallMis2,Anc00,Anc01,Anc02,Anc03,Anc04,Anc06,Anc07,Anc08,Anc09,Anc10,Anc11,Anc12,Anc13,Anc14,Anc15,Anc16,Anc17,Anc18,Anc19,Anc20,Anc21,Anc05,melUnd1,galGal4,ficAlb2,croPor2,ghaGan1,cheMyd1,anoCar2,anaPla1,geoFor1,strCam0,chrPic1,amaVit1,falPer1,colLiv1,falChe1,araMac1,pelSin1,apaSpi1,pseHum1,melGal1,zonAlb1,taeGut2 http://genome-test.soe.ucsc.edu/~jcarmstr/crocBrowserRC2/hub.txt
Cancer Genomics Tracks ERROR: Couldn't make directory /usr/local/apache/trash/udcCache/http/genome-test.soe.ucsc.edu Debughg19 http://genome-test.soe.ucsc.edu/~max/immuno/track/hub/hub.txt
GTEx RNA-seq Signal Hub RNA-seq read coverage in 53 tissues from GTEx V6 (7572 samples) hg19,hg38 http://hgdownload.soe.ucsc.edu/hubs/gtex/hub.txt
GTEx Analysis Hub ERROR: Couldn't make directory /usr/local/apache/trash/udcCache/http/hgdownload.soe.ucsc.edu/hubs Debughg19,hg38 http://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hub.txt
WormBase WormBase nematode genomes brenneri,japonica,remanei,ovolvulus,briggsae,brugia,brugia3,elegans,s_ratti http://hubs.yllb.de/pub/databases/wormbase/releases/current-production-release/MULTI_SPECIES/hub/hub.txt
Cancer genome polyA site & usage An in-depth map of polyadenylation sites in cancer (matched-pair tissues and cell lines) hg19 http://johnlab.org/xpad/Hub/UCSC.txt
UCD Methylation ERROR: TCP non-blocking connect() to lasallelab.genomecenter.ucdavis.edu timed-out in select() after 10000 milliseconds - Cancelling! Couldn't open http://lasallelab.genomecenter.ucdavis.edu/UCSChub/hub.txt Debughg19,hg18,mm10,mm9,bosTau7,bosTau6,canFam3,equCab2,monDom5,rheMac2,rheMac3 http://lasallelab.genomecenter.ucdavis.edu/UCSChub/hub.txt
DASHR small ncRNA DASHR Human non-coding RNA annotation hg19 http://lisanwanglab.org/DASHR/tracks/hub.txt
Ensembl Regulatory Build Evidence summaries and provisional results for the new Ensembl Regulatory Build hg38,hg19,mm10 http://ngs.sanger.ac.uk/production/ensembl/regulation/hub.txt
GRC Genome Issues under Review Genome Reference Consortium: Genome issues and other features hg38,hg19,mm10,mm9,danRer7,danRer10 http://ngs.sanger.ac.uk/production/grit/track_hub/hub.txt
CPTAC Hub v1 Clinical Proteomic Tumor Analysis Consortium (CPTAC) Hub v1 hg19 http://openslice.fenyolab.org/tracks/CPTAC/cptac/v1/hub.txt
lncRNA in Breast Cancer ERROR: TCP non-blocking connect() to pecan.swmed.edu timed-out in select() after 10000 milliseconds - Cancelling! Couldn't open http://pecan.swmed.edu/public/breast_cancer_lncrna_pmid_26236012/hub.txt Debughg19 http://pecan.swmed.edu/public/breast_cancer_lncrna_pmid_26236012/hub.txt
Vista Enhancers Vista Browser Track Hub hg19,mm9,mm10 http://portal.nersc.gov/dna/RD/ChIP-Seq/VISTA_enhancer_e/VistaEnhancerTrackHub/hub.txt
Peterhof_yeasts Assemblies, SNV and CNV data for Saccharomyces cerevisiae strains of the Peterhof Genetic Collection sacCer3,1B_D1606_spades,1B_D1606_chromosomer,15V_P4_spades,15V_P4_chromosomer,25_25_2V_P3982_spades,25_25_2V_P3982_chromosomer,74_D964_spades,74_chromosomer,15V_P4_test,6P_33G_D373_spades,6P_33G_D373_chromosomer http://public.dobzhanskycenter.ru/PeterhofYeastHub/hub.txt
Porcine DNA methylation DNA methylation levels from 9 week old Landrace x Yorkshire crossbred pigs and cell line 3D4/2. susScr3 http://public.hpcagrogenomics.wur.nl/ABGC/Track_Hubs/Chankyu/hub.txt
Hippocampal DNA methylation and gene transcription Hippocampal DNA methylation and gene expression patterns in porcine biomedical models of cognitive development susScr3 http://public.hpcagrogenomics.wur.nl/ABGC/Track_Hubs/Cognition/hub.txt
Porcine DNA methylation and gene transcription DNA methylation and gene expression levels for eight tissues from the adult female Duroc chosen for production of the swine reference genome. susScr3 http://public.hpcagrogenomics.wur.nl/ABGC/Track_Hubs/TJ_Tabasco/hub.txt
ZebrafishGenomics ERROR: getaddrinfo() error on hostName=research.nhgri.nih.gov: Temporary failure in name resolution Couldn't open http://research.nhgri.nih.gov/manuscripts/Burgess/zebrafish/downloads/NHGRI-1/hub.txt DebugdanRer7,danRer10 http://research.nhgri.nih.gov/manuscripts/Burgess/zebrafish/downloads/NHGRI-1/hub.txt
ChromosomeAssembliesGR Comparative data and New chromosome assemblies for Falcon and Pigeon from Damas et al., 2016 Genome Research colLiv2,galGal4,falPer2 http://sftp.rvc.ac.uk/rvcpaper/birdsHUB/hub.txt
DNA Methylation Hundreds of analyzed methylomes from bisulfite sequencing data hg38,hg19,hg18,mm9,mm10,panTro2,danRer7,canFam3,rn5,rheMac3,tair10 http://smithlab.usc.edu/trackdata/methylation/hub.txt
FaceBase Hub Comprehensive craniofacial research data from FaceBase.org mm9,hg18,hg19,mm10 http://trackhub.facebase.org/hub.txt
Promoterome CAGE and nucleosome positioning Zebrafish promoterome based on Haberle et al. and Nepal et al. danRer7 http://trackhub.genereg.net/promoterome/hub.txt
Roadmap Epigenomics Integrative Analysis Hub Roadmap Epigenomics Integrative Analysis Hub at Washington University in St. Louis hg19 http://vizhub.wustl.edu/VizHub/RoadmapIntegrative.txt
Roadmap Epigenomics Data Complete Collection at Wash U VizHub Roadmap Epigenomics Human Epigenome Atlas Data Complete Collection, VizHub at Washington University in St. Louis hg19 http://vizhub.wustl.edu/VizHub/RoadmapReleaseAll.txt
C_elegans_isolates C. elegans wild isolate assembly hub CB4856Princeton_JR-contig,CB4856Princeton_cycle20,CB4856Princeton_Contigs http://waterston.gs.washington.edu/trackhubs/isolates/hub.txt
454 K562andHelaS3RNAseq Whole-Cell 454 Hela and K562 RNAseq hg19 http://web.stanford.edu/~htilgner/2012_454paper/data/hub.txt
CEMT (CEEHRC) Epigenomic Data tracks from BCGSC, Vancouver hg19 http://www.bcgsc.ca/downloads/edcc/data/CEMT/hub/bcgsc_datahub.txt
Human Islet lncRNAs Pancreatic islet long non coding RNA transcripts (Akerman et al 2016) hg19 http://www.imperial.ac.uk/medicine/beta-cell-genome-regulation-laboratory/data/HILNCs/HILNCs.txt
miRcode microRNA sites Predicted microRNA target sites in GENCODE transcripts hg19 http://www.mircode.org/ucscHub/hub.txt
mm9.SMC1.ChIAPET Cohesin(Smc1)-associated chromatin interactions in murine embryonic stem cells mm9 http://younglab.wi.mit.edu/mESC_ChIAPET_hub/hub.txt
UMassMed ZHub ERROR: getaddrinfo() error on hostName=zlab-trackhub.umassmed.edu: Temporary failure in name resolution Couldn't open http://zlab-trackhub.umassmed.edu/shulhah/hub.txt Debughg19 http://zlab-trackhub.umassmed.edu/shulhah/hub.txt
ChIP-seq data track HUBs from MSC cells from GSE79815 ERROR: Couldn't open https://biochem.wisc.edu/sites/default/files/labs/pike/genome-ucsc/GSE79815_MSC_HUB/hub.txt Debugmm9 https://biochem.wisc.edu/sites/default/files/labs/pike/genome-ucsc/GSE79815_MSC_HUB/hub.txt
Cotney Lab Human Craniofacial Epigenomics Human Embryonic Craniofacial Tissue Epigenomic Data and Chromatin State Segmentations from the Cotney Lab at UConn Health hg19,mm9 https://cotneylab.cam.uchc.edu/~jcotney/CRANIOFACIAL_HUB/Craniofacial_Data_Hub.txt
PhyloCSF Evolutionary protein-coding potential as measured by PhyloCSF hg19,hg38,mm10,galGal4,dm6 https://data.broadinstitute.org/compbio1/PhyloCSFtracks/trackHub/hub.txt
GeneHancer enhancers GeneHancer: genome-wide integration of enhancers and target genes in GeneCards hg38 https://genecards.weizmann.ac.il/geneloc/gh_hub/hub.txt
Umap and Bismap mappability Uniquely mappable regions of genome and methylome hg38,hg19,mm9,mm10 https://pmgenomics.ca/hoffmanlab/proj/bismap/trackhub/hub.txt
LIBD Human DLPFC Development ERROR: Couldn't open https://s3.amazonaws.com/DLPFC_n36/humanDLPFC/hub.txt Debughg19 https://s3.amazonaws.com/DLPFC_n36/humanDLPFC/hub.txt
No Unlisted Track Hubs
Contact genome@soe.ucsc.edu to add a public hub.