standards > model/format > DOI:10.25504/FAIRsharing.vttygv


ready BEDgraph


General Information
The bedGraph format allows display of continuous-valued data in track format. This display type is useful for probability scores and transcriptome data. This track type is similar to the wiggle (WIG) format, but unlike the wiggle format, data exported in the bedGraph format are preserved in their original state.



How to cite this record FAIRsharing.org: BEDgraph; BEDgraph; DOI: https://doi.org/10.25504/FAIRsharing.vttygv; Last edited: Feb. 22, 2018, 2:14 p.m.; Last accessed: Oct 20 2018 1:29 p.m.


Record updated: Oct. 24, 2016, 7:09 p.m. by The FAIRsharing Team.

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Additional Information


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Publications

CWig: compressed representation of Wiggle/BedGraph format.

Huy Hoang D,Sung WK
Bioinformatics 2014

View Paper (PubMed) View Publication

Related Standards

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Models and Formats

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Implementing Databases (5)
The UCSC Archaeal Genome Browser
The UCSC Archaeal Genome Browser is a window on the biology of more than 100 microbial species from the domain Archaea. Basic gene annotation is derived from NCBI Genbank/RefSeq entries, with overlays of sequence conservation across multiple species, nucleotide and protein motifs, non-coding RNA predictions, operon predictions, and other types of bioinformatic analyses. In addition, we display available gene expression data (microarray or high-throughput RNA sequencing). Direct contributions or notices of publication of functional genomic data or bioinformatic analyses from archaeal research labs are very welcome.

Ensembl
The Ensembl project is based at the European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI). It provides one of the most comprehensive and integrated resources of genomic data, which can be accessed through the web (www.ensembl.org) and through BioMart, FTP, Perl APIs, REST API and MySQL queries.

FlyMine
FlyMine is an integrated database of genomic, expression and protein data for Drosophila, Anopheles and C. elegans. Integrating data makes it possible to run sophisticated data mining queries that span domains of biological knowledge.

Eukaryotic Promoter Database
The Eukaryotic Promoter Database is an annotated non-redundant collection of eukaryotic POL II promoters, for which the transcription start site has been determined experimentally.

ReMap
ReMap is an integrative analysis of transcription factor ChIP-seq experiments publicly available, merged with the Encode dataset. The resource is an extensive regulatory catalogue of transcription factor binding sites from transcription factors (TFs). The data is available to browse or download either for a given transcription factor or for the entire dataset.

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