WashU Epigenome Browser statistics

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Citations per year

Number of citations per year for the bioinformatics software tool WashU Epigenome Browser
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Tool usage distribution map

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Associated diseases

This word cloud represents WashU Epigenome Browser usage per disease context
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Popular tool citations

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WashU Epigenome Browser specifications

Information


Unique identifier OMICS_26072
Name WashU Epigenome Browser
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes

Taxon


  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Plants and Fungi
    • Arabidopsis thaliana
    • Glycine max
    • Saccharomyces cerevisiae
    • Schizosaccharomyces pombe
    • Zea mays
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus
  • Vertebrates
    • Danio rerio
    • Gallus gallus

Maintainers


  • person_outline Daofeng Li
  • person_outline Silas Hsu
  • person_outline Deepak Purushotham
  • person_outline Ting Wang

Additional information


http://wiki.wubrowse.org/

Publication for WashU Epigenome Browser

WashU Epigenome Browser citations

 (20)
library_books

Enhanced JBrowse plugins for epigenomics data visualization

2018
BMC Bioinformatics
PMCID: 5921565
PMID: 29699480
DOI: 10.1186/s12859-018-2160-z

[…] ed, it is imperative that graphical tools such as genome browsers are able to properly visualize these specialized data sets. Current genome browsers such as UCSC genome browser [], AnnoJ [], IGV [], WashU EpiGenome Browser [], Epiviz [], IGB [], and JBrowse [], have limited capability to visualize these data sets effectively, hindering the visualization and potential discoveries with new sequenci […]

library_books

Maternal 5mCpG Imprints at the PARD6G AS1 and GCSAML Differentially Methylated Regions Are Decoupled From Parent of Origin Expression Effects in Multiple Human Tissues

2018
Front Genet
PMCID: 5838017
PMID: 29545821
DOI: 10.3389/fgene.2018.00036

[…] pigenome.eu/GTEx Portal, https://www.gtexportal.org/NCBI SRA, https://www.ncbi.nlm.nih.gov/sra/NCBI GEO, http://www.ncbi.nlm.nih.gov/geo/Roadmap Epigenomics Browser, http://www.roadmapepigenomics.org/WashU Epigenome Browser, http://epigenomegateway.wustl.edu/FANTOM ZENBU Browser, http://fantom.gsc.riken.jp/zenbu/dbGaP, http://www.ncbi.nlm.nih.gov/gapPhenoScanner. http://www.phenoscanner.medschl.ca […]

library_books

MiR 93 5p Promotes Cell Proliferation through Down Regulating PPARGC1A in Hepatocellular Carcinoma Cells by Bioinformatics Analysis and Experimental Verification

2018
Genes
PMCID: 5793202
PMID: 29361788
DOI: 10.3390/genes9010051

[…] alculating the value of all the nodes that were carried out by Degree-sorted. For the ChIP-seq analysis, data was available from the GEO database (GSM935623 and GSM935628) and was visualized with the WashU EpiGenome Browser [,]. The immunofluorescence (IHC) results of PPARGC1A in HepG2 cells was obtained from The Human Protein Atlas database []. […]

library_books

Re analysis of public genetic data reveals a rare X chromosomal variant associated with type 2 diabetes

2018
Nat Commun
PMCID: 5778074
PMID: 29358691
DOI: 10.1038/s41467-017-02380-9

[…] ls/haploreg/haploreg.php), in order to assess which type of regulatory element was associated with the rs146662075 variant.To further evaluate the putative regulatory role of rs146662075, we used the WashU EpiGenome Browser (http://epigenomegateway.wustl.edu/browser/, last access on June 2016). We used the following public data hubs: (1) the reference human epigenomes from the Roadmap Epigenomics […]

library_books

BL Hi C is an efficient and sensitive approach for capturing structural and regulatory chromatin interactions

2017
Nat Commun
PMCID: 5696378
PMID: 29158486
DOI: 10.1038/s41467-017-01754-3

[…] .05 -B --SPMR --call-summits”. Then, the designed bait sequences for the enhancer anchor were used to select the target PETs and clusters for each 4C-seq library, which were further visualized by the WashU Epigenome Browser. […]

library_books

ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome scale datasets

2017
Nucleic Acids Res
PMCID: 5753386
PMID: 29149270
DOI: 10.1093/nar/gkx1108

[…] ANISEED 2015 featured Gbrowse 2.0 () genome browsers, which showed limitations as the size of the dataset increased. The WashU Epigenome browser () was selected as a replacement and adapted with the help of its developer. It offers increased speed and the ability to represent genome-wide chromatin interaction data (). W […]


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WashU Epigenome Browser institution(s)
Department of Genetics, Edison Family Center for Genome Sciences and Systems Biology, Washington University School of Medicine, St. Louis, MO, USA
WashU Epigenome Browser funding source(s)
Supported by NIH R01HG007354, R01HG007175, R01ES024992, U01CA200060, U24ES026699, U01 HG009391, and American Cancer Society RSG-14-049-01-DMC.

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