Track Data Hubs

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Track Data Hubs

Public Hubs
Connected Hubs
Hub Development

Track data hubs are collections of external tracks that can be added to the UCSC Genome Browser. Click Connect to attach a hub and redirect to the assembly gateway page. Hub tracks will then show up in the hub's own blue bar track group under the browser graphic. For more information, including where to host your track hub, see our User's Guide.

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

Hub Name	Description	AssembliesClick to connect and browse directly
ABC of cellular microRNAome	Advanced BarChart configuration of cellular microRNAome. Evaluation of >20 billion small RNA-seq reads from 196 primary cell types (+plasma, +platelets) across 175 main studies.	hg38
ALFA Hub	NCBI's Allele Frequency Aggregator (ALFA) allele frequency for variants in dbGaP studies.	hg19, hg38
Bird Alignment (363 species)	Bird Alignment (363 species)	[+] Gallus_gallus, Acanthisitta_chloris...
Blueprint Hub	ERROR: Error in TCP non-blocking connect() 111 - Connection refused. Host ftp.ebi.ac.uk IP 193.62.193.165 port 80. Couldn't open http://ftp.ebi.ac.uk/pub/databases/blueprint/releases/current_release/homo_sapiens/hub/hub.txt Debug Help	hg38
BrainEpigenomeHub	DNA methylation, chromatin accessibility, and gene expression data from NeuN flow-sorted human brain samples	hg19
BRCAExchange	BRCAExchange annotated BRCA1/2 variants	hg19, hg38
Breast Cancer Epigenomics Track Hub	Breast Cancer Epigenomics Track Hub	hg19
Breast Cancer lncRNA	Breast Cancer lncRNA PMID 26236012	hg19
Broad Improved Canine Annotation v1	Broad Institute CanFam3 Improved Annotation Data v1	canFam3
C_elegans_isolates	C. elegans wild isolate assembly hub	[+] CB4856Princeton_JR-contig...
CADD	CADD Track for v1.3 to v1.7	hg19, hg38
Cancer Genomics Tracks	TCGA and ICGC Cancer Mutations, TCGA Expression, Immune Epitopes Database (IEDB), Cancer Immunity Peptides Database, Dienstmann Variant/Cancer database, CIVIC, MyCancerGenome.org, OncoKB	hg19
CCGP	The California Conservation Genomics Project (CCGP) assemblies	[+] GCA_026170555.1, GCA_026170545.1...
CEMT (CEEHRC)	Epigenomic Data tracks from BCGSC, Vancouver, B.C.	hg38, hg19
CESAR Gene Mappings	Human Exons mapped by CESAR	[+] bosTau7, ailMel1, allMis1, anoCar2, calJac3...
ChIP-seq data track HUBs from MSC cells from GSE79815	ChIP-seq data from the publication "Epigenetic plasticity drives adipogenic and osteogenic differentiation of marrow-derived mesenchymal stem cells" (10.1074/jbc.M116.736538) from GEO record GSE79815	mm9
Coloc segments	Colocalized segments of human genome for Roadmap cell types	hg19
Cotney Lab Human Craniofacial Epigenomics	Human Embryonic Craniofacial Tissue Epigenomic Data and Chromatin State Segmentations from the Cotney Lab at CHOP	hg19, mm9, hg38
Cotney Lab Human Embryonic Heart Hub	Human Embryonic Heart Tissue Epigenomic and Transcriptomic Data from the Cotney Lab at CHOP	hg19, hg38
COVID-19 Gene Annotation	ERROR: Error in TCP non-blocking connect() 111 - Connection refused. Host ftp.ebi.ac.uk IP 193.62.193.165 port 80. Couldn't open http://ftp.ebi.ac.uk/pub/databases/gencode/covid19_trackhub/hub.txt Debug Help	hg38
crisprware Cas9 and Cas12A	crisprware Cas9 and Cas12A	hg38, ce11, rn7, danRer11, dm6, mm39
Croc and Bird Hub	Croc, Bird, and Archosaur Assembly Hub	[+] allMis2, Anc00, Anc01, Anc02, Anc03, Anc04, Anc06...
DANIO-CODE Track Hub	DANIO-CODE: Central repository for zebrafish genomic datasets	danRer10, danRer11
DASHR small ncRNA Hub	DASHR Human small non-coding RNA data	hg19
DASHR v2.0 Hub	DASHR v2.0 Human small non-coding RNA data hub	hg19, hg38
dbRIP_Hub	"dbRIP: Database of Polymorphic and Species-specific Retrotransposons in Humans"	hg19, hg38
dbVar Hub	NCBI's database of human genomic Structural Variation -- large variants >50 bp	hg19, hg38
Dfam database of TE families and annotations	Dfam database of Transposable Element families and genome annotations	hg38
Digital genomic footprinting (Vierstra et al., 2020)	Digital genomic footprinting from 243 cell & tissue types	hg38
ENCODE Analysis Hub	ENCODE Integrative Analysis Data Hub	hg19
ENCODE DNA Trackhub	ENCODE Trackhub for DNA-based assays	hg19, hg38, mm10
ENCODE integrative Trackhub	ENCODE Trackhub for integrative results	hg38, mm10
ENCODE RNA Trackhub	ENCODE Trackhub for RNA-based assays	hg19, hg38, mm10
ENIGMA BRCA1/BRCA2 specs 1.1.0	ENIGMA BRCA1/BRCA2 Panel Specifications of ACMG/AMP Guidelines version 1.1.0	hg38, hg19
Ensembl Regulatory Build	Evidence summaries and provisional results for the new Ensembl Regulatory Build	hg38, hg19, mm10
EPD Viewer Hub	Promoter specific experimental data and TSS annotation from the EPD database	[+] hg19, hg38, mm9, mm10, danRer7, rheMac8, galGal5, rn6...
Exp/Meth VNTR hub	Association of VNTRs with Expression and Methylation in GTEx, PCGC and PPMI	hg19, hg38
EyeBrowse	Eye tissue specific genes and markers, derived from NEIBank and other sources	[+] hg19, bosTau6, canFam2, cavPor3, danRer6, danRer7...
FaceBase Hub	Comprehensive craniofacial research data from FaceBase.org	mm9, mm10, hg18, hg19
FANTOM5	RIKEN FANTOM5 Phase1 and Phase2 data	hg38, mm10, hg19, mm9, canFam3, rn6, rheMac8, galGal5
FANTOM5 CAGE RECLU DATA	RIKEN FANTOM5 CAGE clusters by RECLU	hg19, hg18
GENCODE Annotation Updates	ERROR: Error in TCP non-blocking connect() 111 - Connection refused. Host ftp.ebi.ac.uk IP 193.62.193.165 port 80. Couldn't open http://ftp.ebi.ac.uk/pub/databases/gencode/update_trackhub/hub.txt Debug Help	hg38, mm39, mm10
GeneCards ncRNAs	An integrated compendium of ncRNA genes in GeneCards	hg38
GeneHancer	GeneHancer: genome-wide integration of regulatory elements and target genes in GeneCards	hg38, hg19
Golden Hamster genome	Genome assembly of Golden Hamster(Mesocricetus auratus) from Siomi lab	MesAur2.0
GTEx Analysis Hub	Genotype Tissue Expression (GTEx) Project Analysis Hub	hg19, hg38
GTEx RNA-seq Signal Hub	RNA-seq read coverage in 53 tissues from GTEx V6 (7572 samples)	hg19, hg38
HPRC	The Human Pangenome Reference Consortium	[+] GCA_018471515.1, GCA_018472595.1...
Human cellular microRNAome	microRNA RNA-seq based data from 46 primary cell types and 42 cancer or immortalized cell lines.	hg38
Human cellular microRNAome barCharts	Evaluation of >10 billion small RNA-seq reads from 78 primary cell types and 42 cancer or immortalized cell lines from 3 main studies.	hg38
Human Global Reference Genomes	Human Global Reference Genome assembly hub	[+] GCA_003601015.1_HG03807_prelim_1.0...
human p53 Binding And Expression Resource (BAER) hub	human p53 ChIP-seq coverage depth (tracks) & SISSRs peak calls with associated differential gene expression from published data as of May 2015	hg19
IDEAS roadmap 20states	Roadmap Epigenomics 20 state genome segmentation using the IDEAS algorithm	hg19
IMPACT regulatory element activity	Cell-type-specific regulatory element activity profiles across 707 unique combinations of transcription factor-cell type pairs. IMPACT predicts the epigenetic regulatory activity related to a particular transcription factor in a given cell type. IMPACT sc	hg19
JASPAR TFBS	TFBS predictions for profiles in the JASPAR CORE collections	[+] hg19, hg38, ce10, ce11, ci3, dm6, sacCer3, danRer10...
LIBD Human DLPFC Development	RNAseq data across human brain development by age group from LIBD	hg19
LNCipedia 5.2	LNCipedia 5.2 - A comprehensive compendium of human long non-coding RNAs	hg19, hg38
Mammal and Bird Alignment (605 species)	Mammal and Bird Alignment (605 species)	[+] Homo_sapiens, Gallus_gallus...
MethBase (Legacy)	MethBase: 605 DNA Methylation profiles reprocessed from NCBI SRA	[+] hg38, canFam3, panTro2, hg18, rheMac8, danRer11...
MethBase2	Thousands of analyzed methylomes / DNA methylation profiles from bisulfite sequencing data	[+] hg38, apiMel2, bosTau9, canFam6, danRer11, galGal6...
MGI Alleles and Phenotypes	Allele's and Phenotypes from the Mouse Genome Informatics (MGI) consortium	mm10
miRcode microRNA sites	Predicted microRNA target sites in GENCODE transcripts	hg19
mm9.SMC1.ChIAPET	Cohesin(Smc1)-associated chromatin interactions in murine embryonic stem cells	mm9
Mouse strain assemblies	Assembly and alignment data for 16 different mouse strains plus rat.	[+] mm10, rn6, 129S1_SvImJ, WSB_EiJ, SPRET_EiJ, AKR_J...
MutScore Variant Pathogenicity	MutScore Variant Pathogenicity	hg38, hg19
ORF Predictions	RNA-Seq, Ribo_Seq, and ORF Predictions	wuhCor1
Peptide evidences CNIO	Peptides detected from a re-analysis of multiple experiments and databases	hg38, hg19
Peterhof_yeasts	Peterhof_yeast	[+] sacCer3, 1B_D1606_spades...
PhyloCSF	Evolutionary protein-coding potential as measured by PhyloCSF	[+] hg19, hg38, mm10, mm39, galGal4, galGal6, dm6, ce11...
PhyloCSF++	Evolutionary protein-coding potential as measured by PhyloCSF++	rn6, fr3, gasAcu1, tarSyr2, sacCer3
Polytract Repeats	Very Short Tandem Repeats (MNR/DNR/TNR)	hg38, mm10, rn6, dm6
Predominant PAS and predominant hexamers	Predominant polyA sites and predominant hexamers	hg38, hg19
Primate x4 NeuroDiff and Human CRISPRa	RNAseq coverage tracks from 4 Primate neuro-differentiation assays and a human CRISPRa assay	hg19, panTro4, ponAbe2, rheMac8
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...
Promoterome CAGE and nucleosome positioning	Zebrafish promoterome based on Haberle et al. and Nepal et al.	danRer7
PsychENCODE MPRA Hub	ERROR: TCP non-blocking connect() to wyngb.gladstone.org IP 169.230.76.53 timed-out in select() after 10000 milliseconds. A connection timeout means that either the server is offline or its firewall, the UCSC firewall or any router between the two blocks the connection. Couldn't open http://wyngb.gladstone.org/data/swhalen/pec_mpra/hub.txt Debug Help	hg38
Purple sea star Assembly Hub	This is the Assembly Hub of the purple sea star (Pisaster ochraceus, assembly 12Jun2017_28pcJ)	12Jun2017_28pcJ
RefSeqFE Hub	NCBI RefSeq Functional Elements interactions and features	GCA_009914755.4, hg19, hg38, hs1, mm10, mm39
refTSS	refTSS	hg38, mm10
ReMap 2018 Regulatory Atlas	ReMap 2018: An atlas of regulatory regions from an integrative analysis of Human DNA-binding sequencing experiments. Go to ReMap for more info. Pubmed link.	hg38
ReMap 2020 Regulatory Atlas	ReMap 2020: An atlas of regulatory regions from an integrative analysis of Human and Arabidopsis thaliana DNA-binding sequencing experiments. Go to ReMap for more info.	hg38, araTha1
ReMap 2022 Regulatory Atlas	ReMap 2022: A database of Human, Mouse, Drosophila and Arabidopsis regulatory regions from an integrative analysis of DNA-binding sequencing experiments Go to ReMap2022 for more info.	mm10, mm39, hg38, hg19, dm6, araTha1
rfam12_ncRNA	Rfam 12.0 non-coding RNA annotation	hg38, mm10, ce10, galGal4, ci2, danRer7, dm6, sacCer3
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, hg38
Roadmap Epigenomics Integrative Analysis Hub	Roadmap Epigenomics Integrative Analysis Hub at Washington University in St. Louis	hg19
Seq-data on mm9 NS5 cells	Set of sequencing data on mm9 NS5 cells	mm9
SIHUMI	simplified human intestinal microbiota HUB	[+] bact, bifi, blautia, anaero, ery, clostri, lacto...
singing mouse genome hub	This is the genome hub for Alston's singing mouse (Scotinomys teguina)	steguina
Splice Site Usage Hub	Splice Site Usage Values Calculated for 19 ENCODE Cell Lines from RNA-seq	hg19
sunflower_sea_star	Pycnopodia helianthoides (sunflower sea star)	sunflower_sea_star
Synonymous Constraint	Synonymous Constraint Elements and Synonymous Acceleration Elements in protein-coding regions	hg19, hg38, wuhCor1
T_cell_ATAC_ChIP_Pipkin	T cell ATACseq ChIPseq assembly by Pipkin lab	mm10
TOBIAS footprint prediction	Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal	hg38, mm10
Translation Initiation Sites (TIS)	Translation Initiation Sites (TIS) track	hg19
UCD Methylation	ERROR: TCP non-blocking connect() to lasallelab.genomecenter.ucdavis.edu IP 128.120.243.122 timed-out in select() after 10000 milliseconds. A connection timeout means that either the server is offline or its firewall, the UCSC firewall or any router between the two blocks the connection. Couldn't open http://lasallelab.genomecenter.ucdavis.edu/UCSChub/hub.txt Debug Help	[+] hg19, hg18, mm10, mm9, bosTau7, bosTau6, canFam3...
UCSC Repeat Browser 2020 Update	Human Repeat consensuses annotated with lifted tracks	hg38reps, hg19, hg38
Ultraconserved Elements	Ultra conserved Elements in the Human Genome. Science 304(5675) pp.1321-1325 (2004)	hg19
Umap and Bismap mappability	Uniquely mappable regions of genome and methylome	hg38, hg19, mm9, mm10
UMassMed ZHub	UMassMed H3K4me3 ChIP-seq data for Autistic brains	hg19
UniBind 2018 Hub	UniBind: A map of direct TF-DNA interactions from ChIP-seq and TF binding profiles	hg38
UniBind 2021 permissive Hub	UniBind 2021 hub for permissive direct TF-DNA interactions	[+] hg38, mm10, ce11, dm6, danRer11, spo2, sacCer3, rn6...
UniBind 2021 Robust Hub	UniBind 2021 hub for robust direct TF-DNA interactions	[+] hg38, mm10, ce11, dm6, danRer11, sacCer3, rn6, araTha1...
UniProt Features	UniProtKB reviewed protein features mapped to the Ensembl genome assembly.	hg38
Vista Enhancers	Vista Browser Track Hub	hg19, mm9, mm10
Wasp spider hub	This is the assembly hub of the wasp spider (Argiope bruennichi)	argiope
WormBase	WormBase nematode genomes	[+] brenneri, japonica, remanei, ovolvulus, briggsae...
Xmac	ERROR: TCP non-blocking connect() to www.3402bioinformaticsgroup.com IP 52.36.108.56 timed-out in select() after 10000 milliseconds. A connection timeout means that either the server is offline or its firewall, the UCSC firewall or any router between the two blocks the connection. Couldn't open http://www.3402bioinformaticsgroup.com/wp-content/uploads/2016/07/ucsc_track_hub/hub.txt Debug Help	X.maculatus
ZebrafishGenomics	Burgess Lab Zebrafish Genomic Resources	danRer11, danRer10, danRer7

ABC of cellular microRNAome	Advanced BarChart configuration of cellular microRNAome. Evaluation of >20 billion small RNA-seq reads from 196 primary cell types (+plasma, +platelets) across 175 main studies.	hg38
ALFA Hub	NCBI's Allele Frequency Aggregator (ALFA) allele frequency for variants in dbGaP studies.	hg19, hg38
Bird Alignment (363 species)	Bird Alignment (363 species)	[+] Gallus_gallus, Acanthisitta_chloris...
Blueprint Hub	ERROR: Error in TCP non-blocking connect() 111 - Connection refused. Host ftp.ebi.ac.uk IP 193.62.193.165 port 80. Couldn't open http://ftp.ebi.ac.uk/pub/databases/blueprint/releases/current_release/homo_sapiens/hub/hub.txt Debug Help	hg38
BrainEpigenomeHub	DNA methylation, chromatin accessibility, and gene expression data from NeuN flow-sorted human brain samples	hg19
BRCAExchange	BRCAExchange annotated BRCA1/2 variants	hg19, hg38
Breast Cancer Epigenomics Track Hub	Breast Cancer Epigenomics Track Hub	hg19
Breast Cancer lncRNA	Breast Cancer lncRNA PMID 26236012	hg19
Broad Improved Canine Annotation v1	Broad Institute CanFam3 Improved Annotation Data v1	canFam3
C_elegans_isolates	C. elegans wild isolate assembly hub	[+] CB4856Princeton_JR-contig...
CADD	CADD Track for v1.3 to v1.7	hg19, hg38
Cancer Genomics Tracks	TCGA and ICGC Cancer Mutations, TCGA Expression, Immune Epitopes Database (IEDB), Cancer Immunity Peptides Database, Dienstmann Variant/Cancer database, CIVIC, MyCancerGenome.org, OncoKB	hg19
CCGP	The California Conservation Genomics Project (CCGP) assemblies	[+] GCA_026170555.1, GCA_026170545.1...
CEMT (CEEHRC)	Epigenomic Data tracks from BCGSC, Vancouver, B.C.	hg38, hg19
CESAR Gene Mappings	Human Exons mapped by CESAR	[+] bosTau7, ailMel1, allMis1, anoCar2, calJac3...
ChIP-seq data track HUBs from MSC cells from GSE79815	ChIP-seq data from the publication "Epigenetic plasticity drives adipogenic and osteogenic differentiation of marrow-derived mesenchymal stem cells" (10.1074/jbc.M116.736538) from GEO record GSE79815	mm9
Coloc segments	Colocalized segments of human genome for Roadmap cell types	hg19
Cotney Lab Human Craniofacial Epigenomics	Human Embryonic Craniofacial Tissue Epigenomic Data and Chromatin State Segmentations from the Cotney Lab at CHOP	hg19, mm9, hg38
Cotney Lab Human Embryonic Heart Hub	Human Embryonic Heart Tissue Epigenomic and Transcriptomic Data from the Cotney Lab at CHOP	hg19, hg38
COVID-19 Gene Annotation	ERROR: Error in TCP non-blocking connect() 111 - Connection refused. Host ftp.ebi.ac.uk IP 193.62.193.165 port 80. Couldn't open http://ftp.ebi.ac.uk/pub/databases/gencode/covid19_trackhub/hub.txt Debug Help	hg38
crisprware Cas9 and Cas12A	crisprware Cas9 and Cas12A	hg38, ce11, rn7, danRer11, dm6, mm39
Croc and Bird Hub	Croc, Bird, and Archosaur Assembly Hub	[+] allMis2, Anc00, Anc01, Anc02, Anc03, Anc04, Anc06...
DANIO-CODE Track Hub	DANIO-CODE: Central repository for zebrafish genomic datasets	danRer10, danRer11
DASHR small ncRNA Hub	DASHR Human small non-coding RNA data	hg19
DASHR v2.0 Hub	DASHR v2.0 Human small non-coding RNA data hub	hg19, hg38
dbRIP_Hub	"dbRIP: Database of Polymorphic and Species-specific Retrotransposons in Humans"	hg19, hg38
dbVar Hub	NCBI's database of human genomic Structural Variation -- large variants >50 bp	hg19, hg38
Dfam database of TE families and annotations	Dfam database of Transposable Element families and genome annotations	hg38
Digital genomic footprinting (Vierstra et al., 2020)	Digital genomic footprinting from 243 cell & tissue types	hg38
ENCODE Analysis Hub	ENCODE Integrative Analysis Data Hub	hg19
ENCODE DNA Trackhub	ENCODE Trackhub for DNA-based assays	hg19, hg38, mm10
ENCODE integrative Trackhub	ENCODE Trackhub for integrative results	hg38, mm10
ENCODE RNA Trackhub	ENCODE Trackhub for RNA-based assays	hg19, hg38, mm10
ENIGMA BRCA1/BRCA2 specs 1.1.0	ENIGMA BRCA1/BRCA2 Panel Specifications of ACMG/AMP Guidelines version 1.1.0	hg38, hg19
Ensembl Regulatory Build	Evidence summaries and provisional results for the new Ensembl Regulatory Build	hg38, hg19, mm10
EPD Viewer Hub	Promoter specific experimental data and TSS annotation from the EPD database	[+] hg19, hg38, mm9, mm10, danRer7, rheMac8, galGal5, rn6...
Exp/Meth VNTR hub	Association of VNTRs with Expression and Methylation in GTEx, PCGC and PPMI	hg19, hg38
EyeBrowse	Eye tissue specific genes and markers, derived from NEIBank and other sources	[+] hg19, bosTau6, canFam2, cavPor3, danRer6, danRer7...
FaceBase Hub	Comprehensive craniofacial research data from FaceBase.org	mm9, mm10, hg18, hg19
FANTOM5	RIKEN FANTOM5 Phase1 and Phase2 data	hg38, mm10, hg19, mm9, canFam3, rn6, rheMac8, galGal5
FANTOM5 CAGE RECLU DATA	RIKEN FANTOM5 CAGE clusters by RECLU	hg19, hg18
GENCODE Annotation Updates	ERROR: Error in TCP non-blocking connect() 111 - Connection refused. Host ftp.ebi.ac.uk IP 193.62.193.165 port 80. Couldn't open http://ftp.ebi.ac.uk/pub/databases/gencode/update_trackhub/hub.txt Debug Help	hg38, mm39, mm10
GeneCards ncRNAs	An integrated compendium of ncRNA genes in GeneCards	hg38
GeneHancer	GeneHancer: genome-wide integration of regulatory elements and target genes in GeneCards	hg38, hg19
Golden Hamster genome	Genome assembly of Golden Hamster(Mesocricetus auratus) from Siomi lab	MesAur2.0
GTEx Analysis Hub	Genotype Tissue Expression (GTEx) Project Analysis Hub	hg19, hg38
GTEx RNA-seq Signal Hub	RNA-seq read coverage in 53 tissues from GTEx V6 (7572 samples)	hg19, hg38
HPRC	The Human Pangenome Reference Consortium	[+] GCA_018471515.1, GCA_018472595.1...
Human cellular microRNAome	microRNA RNA-seq based data from 46 primary cell types and 42 cancer or immortalized cell lines.	hg38
Human cellular microRNAome barCharts	Evaluation of >10 billion small RNA-seq reads from 78 primary cell types and 42 cancer or immortalized cell lines from 3 main studies.	hg38
Human Global Reference Genomes	Human Global Reference Genome assembly hub	[+] GCA_003601015.1_HG03807_prelim_1.0...
human p53 Binding And Expression Resource (BAER) hub	human p53 ChIP-seq coverage depth (tracks) & SISSRs peak calls with associated differential gene expression from published data as of May 2015	hg19
IDEAS roadmap 20states	Roadmap Epigenomics 20 state genome segmentation using the IDEAS algorithm	hg19
IMPACT regulatory element activity	Cell-type-specific regulatory element activity profiles across 707 unique combinations of transcription factor-cell type pairs. IMPACT predicts the epigenetic regulatory activity related to a particular transcription factor in a given cell type. IMPACT sc	hg19
JASPAR TFBS	TFBS predictions for profiles in the JASPAR CORE collections	[+] hg19, hg38, ce10, ce11, ci3, dm6, sacCer3, danRer10...
LIBD Human DLPFC Development	RNAseq data across human brain development by age group from LIBD	hg19
LNCipedia 5.2	LNCipedia 5.2 - A comprehensive compendium of human long non-coding RNAs	hg19, hg38
Mammal and Bird Alignment (605 species)	Mammal and Bird Alignment (605 species)	[+] Homo_sapiens, Gallus_gallus...
MethBase (Legacy)	MethBase: 605 DNA Methylation profiles reprocessed from NCBI SRA	[+] hg38, canFam3, panTro2, hg18, rheMac8, danRer11...
MethBase2	Thousands of analyzed methylomes / DNA methylation profiles from bisulfite sequencing data	[+] hg38, apiMel2, bosTau9, canFam6, danRer11, galGal6...
MGI Alleles and Phenotypes	Allele's and Phenotypes from the Mouse Genome Informatics (MGI) consortium	mm10
miRcode microRNA sites	Predicted microRNA target sites in GENCODE transcripts	hg19
mm9.SMC1.ChIAPET	Cohesin(Smc1)-associated chromatin interactions in murine embryonic stem cells	mm9
Mouse strain assemblies	Assembly and alignment data for 16 different mouse strains plus rat.	[+] mm10, rn6, 129S1_SvImJ, WSB_EiJ, SPRET_EiJ, AKR_J...
MutScore Variant Pathogenicity	MutScore Variant Pathogenicity	hg38, hg19
ORF Predictions	RNA-Seq, Ribo_Seq, and ORF Predictions	wuhCor1
Peptide evidences CNIO	Peptides detected from a re-analysis of multiple experiments and databases	hg38, hg19
Peterhof_yeasts	Peterhof_yeast	[+] sacCer3, 1B_D1606_spades...
PhyloCSF	Evolutionary protein-coding potential as measured by PhyloCSF	[+] hg19, hg38, mm10, mm39, galGal4, galGal6, dm6, ce11...
PhyloCSF++	Evolutionary protein-coding potential as measured by PhyloCSF++	rn6, fr3, gasAcu1, tarSyr2, sacCer3
Polytract Repeats	Very Short Tandem Repeats (MNR/DNR/TNR)	hg38, mm10, rn6, dm6
Predominant PAS and predominant hexamers	Predominant polyA sites and predominant hexamers	hg38, hg19
Primate x4 NeuroDiff and Human CRISPRa	RNAseq coverage tracks from 4 Primate neuro-differentiation assays and a human CRISPRa assay	hg19, panTro4, ponAbe2, rheMac8
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...
Promoterome CAGE and nucleosome positioning	Zebrafish promoterome based on Haberle et al. and Nepal et al.	danRer7
PsychENCODE MPRA Hub	ERROR: TCP non-blocking connect() to wyngb.gladstone.org IP 169.230.76.53 timed-out in select() after 10000 milliseconds. A connection timeout means that either the server is offline or its firewall, the UCSC firewall or any router between the two blocks the connection. Couldn't open http://wyngb.gladstone.org/data/swhalen/pec_mpra/hub.txt Debug Help	hg38
Purple sea star Assembly Hub	This is the Assembly Hub of the purple sea star (Pisaster ochraceus, assembly 12Jun2017_28pcJ)	12Jun2017_28pcJ
RefSeqFE Hub	NCBI RefSeq Functional Elements interactions and features	GCA_009914755.4, hg19, hg38, hs1, mm10, mm39
refTSS	refTSS	hg38, mm10
ReMap 2018 Regulatory Atlas	ReMap 2018: An atlas of regulatory regions from an integrative analysis of Human DNA-binding sequencing experiments. Go to ReMap for more info. Pubmed link.	hg38
ReMap 2020 Regulatory Atlas	ReMap 2020: An atlas of regulatory regions from an integrative analysis of Human and Arabidopsis thaliana DNA-binding sequencing experiments. Go to ReMap for more info.	hg38, araTha1
ReMap 2022 Regulatory Atlas	ReMap 2022: A database of Human, Mouse, Drosophila and Arabidopsis regulatory regions from an integrative analysis of DNA-binding sequencing experiments Go to ReMap2022 for more info.	mm10, mm39, hg38, hg19, dm6, araTha1
rfam12_ncRNA	Rfam 12.0 non-coding RNA annotation	hg38, mm10, ce10, galGal4, ci2, danRer7, dm6, sacCer3
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, hg38
Roadmap Epigenomics Integrative Analysis Hub	Roadmap Epigenomics Integrative Analysis Hub at Washington University in St. Louis	hg19
Seq-data on mm9 NS5 cells	Set of sequencing data on mm9 NS5 cells	mm9
SIHUMI	simplified human intestinal microbiota HUB	[+] bact, bifi, blautia, anaero, ery, clostri, lacto...
singing mouse genome hub	This is the genome hub for Alston's singing mouse (Scotinomys teguina)	steguina
Splice Site Usage Hub	Splice Site Usage Values Calculated for 19 ENCODE Cell Lines from RNA-seq	hg19
sunflower_sea_star	Pycnopodia helianthoides (sunflower sea star)	sunflower_sea_star
Synonymous Constraint	Synonymous Constraint Elements and Synonymous Acceleration Elements in protein-coding regions	hg19, hg38, wuhCor1
T_cell_ATAC_ChIP_Pipkin	T cell ATACseq ChIPseq assembly by Pipkin lab	mm10
TOBIAS footprint prediction	Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal	hg38, mm10
Translation Initiation Sites (TIS)	Translation Initiation Sites (TIS) track	hg19
UCD Methylation	ERROR: TCP non-blocking connect() to lasallelab.genomecenter.ucdavis.edu IP 128.120.243.122 timed-out in select() after 10000 milliseconds. A connection timeout means that either the server is offline or its firewall, the UCSC firewall or any router between the two blocks the connection. Couldn't open http://lasallelab.genomecenter.ucdavis.edu/UCSChub/hub.txt Debug Help	[+] hg19, hg18, mm10, mm9, bosTau7, bosTau6, canFam3...
UCSC Repeat Browser 2020 Update	Human Repeat consensuses annotated with lifted tracks	hg38reps, hg19, hg38
Ultraconserved Elements	Ultra conserved Elements in the Human Genome. Science 304(5675) pp.1321-1325 (2004)	hg19
Umap and Bismap mappability	Uniquely mappable regions of genome and methylome	hg38, hg19, mm9, mm10
UMassMed ZHub	UMassMed H3K4me3 ChIP-seq data for Autistic brains	hg19
UniBind 2018 Hub	UniBind: A map of direct TF-DNA interactions from ChIP-seq and TF binding profiles	hg38
UniBind 2021 permissive Hub	UniBind 2021 hub for permissive direct TF-DNA interactions	[+] hg38, mm10, ce11, dm6, danRer11, spo2, sacCer3, rn6...
UniBind 2021 Robust Hub	UniBind 2021 hub for robust direct TF-DNA interactions	[+] hg38, mm10, ce11, dm6, danRer11, sacCer3, rn6, araTha1...
UniProt Features	UniProtKB reviewed protein features mapped to the Ensembl genome assembly.	hg38
Vista Enhancers	Vista Browser Track Hub	hg19, mm9, mm10
Wasp spider hub	This is the assembly hub of the wasp spider (Argiope bruennichi)	argiope
WormBase	WormBase nematode genomes	[+] brenneri, japonica, remanei, ovolvulus, briggsae...
Xmac	ERROR: TCP non-blocking connect() to www.3402bioinformaticsgroup.com IP 52.36.108.56 timed-out in select() after 10000 milliseconds. A connection timeout means that either the server is offline or its firewall, the UCSC firewall or any router between the two blocks the connection. Couldn't open http://www.3402bioinformaticsgroup.com/wp-content/uploads/2016/07/ucsc_track_hub/hub.txt Debug Help	X.maculatus
ZebrafishGenomics	Burgess Lab Zebrafish Genomic Resources	danRer11, danRer10, danRer7

Enter hub URLs below to connect hubs. Hubs connected this way are not accessible to other users by default.

If you wish to share your hub you can create a session link. First, connect the hub and configure the tracks image as desired, then navigate to My Sessions (My Data > My Sessions). The resulting stable link can be added to publications and shared freely. You, as the author, also have the power to update the session contents freely. Alternatively, you may build a link with the hub URL to allow users to retain their browser configuration, connected hubs, and custom tracks.

See our public hub guidelines for information on submitting a new public hub.

URL:
Display	Hub Name	Description	AssembliesClick to connect and browse directly. Click copy icon to copy URL to clipboard for sharing.
	LINE1_ALS_Hub	LINE1_ALS_Hub	hg38

Create your own hub

For information on making track hubs, see the following pages:

You may also contact us if you have any issues or questions on hub development.

Check a hub for errors

Hub URL: Load Example URL

Use the URL bar above to check a hub for errors. This will validate the hub's configuration files, including hub.txt, genomes.txt and trackDb.txt. It will also present a hierarchical tree of tracks with any errors in red. A hub with no errors still shows the tree which can be used to explore the track hierarchy. Hub error checking will always refresh the files and never use our remote file cache (see below).

Enable Genome Browser debugging modes

These apply to all connected hubs. By default, caching is activated and track load times are not shown, but you can change these settings while developing your hub: