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ConTra v2 : a tool to identify transcription factor binding sites across species, update 2011

Stefan Broos (UGent) , Paco Hulpiau (UGent) , Jeroen Galle (UGent) , Bart Hooghe (UGent) , Frans Van Roy (UGent) and Pieter De Bleser (UGent)
(2011) NUCLEIC ACIDS RESEARCH. 39(suppl. 2). p.W74-W78
Author
Organization
Abstract
Transcription factors are important gene regulators with distinctive roles in development, cell signaling and cell cycling, and they have been associated with many diseases. The ConTra v2 web server allows easy visualization and exploration of predicted transcription factor binding sites in any genomic region surrounding coding or non-coding genes. In this new version, users can choose from nine reference organisms ranging from human to yeast. ConTra v2 can analyze promoter regions, 5'-UTRs, 3'-UTRs and introns or any other genomic region of interest. Hundreds of position weight matrices are available to choose from, but the user can also upload any other matrices for detecting specific binding sites. A typical analysis is run in four simple steps of choosing the gene, the transcript, the region of interest and then selecting one or more transcription factor binding sites. The ConTra v2 web server is freely available at http://bioit.dmbr.ugent.be/contrav2/index.php
Keywords
IDENTIFICATION, GENE-REGULATION, MICRORNAS, PROMOTER, EXPRESSION, INTRON, CELLS, RNAS

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Chicago
Broos, Stefan, Paco Hulpiau, Jeroen Galle, Bart Hooghe, Frans Van Roy, and Pieter De Bleser. 2011. “ConTra V2 : a Tool to Identify Transcription Factor Binding Sites Across Species, Update 2011.” Nucleic Acids Research 39 (suppl. 2): W74–W78.
APA
Broos, S., Hulpiau, P., Galle, J., Hooghe, B., Van Roy, F., & De Bleser, P. (2011). ConTra v2 : a tool to identify transcription factor binding sites across species, update 2011. NUCLEIC ACIDS RESEARCH, 39(suppl. 2), W74–W78.
Vancouver
1.
Broos S, Hulpiau P, Galle J, Hooghe B, Van Roy F, De Bleser P. ConTra v2 : a tool to identify transcription factor binding sites across species, update 2011. NUCLEIC ACIDS RESEARCH. 2011;39(suppl. 2):W74–W78.
MLA
Broos, Stefan, Paco Hulpiau, Jeroen Galle, et al. “ConTra V2 : a Tool to Identify Transcription Factor Binding Sites Across Species, Update 2011.” NUCLEIC ACIDS RESEARCH 39.suppl. 2 (2011): W74–W78. Print.
@article{2003438,
  abstract     = {Transcription factors are important gene regulators with distinctive roles in development, cell signaling and cell cycling, and they have been associated with many diseases. The ConTra v2 web server allows easy visualization and exploration of predicted transcription factor binding sites in any genomic region surrounding coding or non-coding genes. In this new version, users can choose from nine reference organisms ranging from human to yeast. ConTra v2 can analyze promoter regions, 5'-UTRs, 3'-UTRs and introns or any other genomic region of interest. Hundreds of position weight matrices are available to choose from, but the user can also upload any other matrices for detecting specific binding sites. A typical analysis is run in four simple steps of choosing the gene, the transcript, the region of interest and then selecting one or more transcription factor binding sites. The ConTra v2 web server is freely available at http://bioit.dmbr.ugent.be/contrav2/index.php},
  author       = {Broos, Stefan and Hulpiau, Paco and Galle, Jeroen and Hooghe, Bart and Van Roy, Frans and De Bleser, Pieter},
  issn         = {0305-1048},
  journal      = {NUCLEIC ACIDS RESEARCH},
  keyword      = {IDENTIFICATION,GENE-REGULATION,MICRORNAS,PROMOTER,EXPRESSION,INTRON,CELLS,RNAS},
  language     = {eng},
  number       = {suppl. 2},
  pages        = {W74--W78},
  title        = {ConTra v2 : a tool to identify transcription factor binding sites across species, update 2011},
  url          = {http://dx.doi.org/10.1093/nar/gkr355},
  volume       = {39},
  year         = {2011},
}

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