cisreg.ca
Wasserman Lab Online ToolsWasserman Lab Online Tools
http://www.cisreg.ca/
Wasserman Lab Online Tools
http://www.cisreg.ca/
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Wasserman Lab Online Tools | cisreg.ca Reviews
https://cisreg.ca
Wasserman Lab Online Tools
cisreg.ca
RAVEN: Regulatory analysis of Variation in ENhancers
http://www.cisreg.ca/RAVEN
MSCAN
http://www.cisreg.ca/mscan
NovelFam3000
http://www.cisreg.ca/NovelFam
The NovelFam3000 application has been retired. All code and data has been archived and is available below:. This has several external dependencies. You may also access the code/data at our ftp. If you have problems accessing the data or any other questions, please contact David Arenillas (dave@cmmt.ubc.ca). Kemmer D, Podowski RM, Arenillas D, Lim J, Hodges E, Roth P, Sonnhammer EL, Höög C, Wasserman WW. NovelFam3000- uncharacterized human protein domains conserved across model organisms.
OrthoSeq
http://www.cisreg.ca/cgi-bin/orthoseq/index.pl
Your email address (report results will be sent to this address):. Enter sequence information below (note: OrthoSeq will perform repeat masking of sequences). Please enter sequence 1 information and click the radio button to the left of the chosen method of sequence entry. Or specify a sequence from ensembl:. Or Paste fasta formatted sequence here:. Upload Features for Analysis (optional). GFF File 1 (corresponding to sequence 1):. Or Paste GFF contents here:. Or specify a sequence from ensembl:.
oPOSSUM Main
http://www.cisreg.ca/oPOSSUM2
A new version of oPOSSUM is available here: oPOSSUM 3. OPOSSUM is a web-based system for the detection of over-represented transcription factor binding sites in the promoters of sets of genes. Human Single Site Analysis (SSA) is designed to detect over-represented conserved single. Sites in human and mouse genes. Reference: Ho Sui, et al. 2005) oPOSSUM: Identification of over-represented transcription factor binding sites in co-expressed genes. NAR. 33(10):3154-64. PMID: 15933209. And C briggsae genes.
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Wasserman Lab · GitHub
https://github.com/wassermanlab
Vancouver, British Columbia, Canada. Http:/ www.cisreg.ca. CAGEd-oPOSSUM: Motif enrichment analysis from CAGE derived TSSs. Aug 5, 2016. Aug 4, 2016. May 31, 2016. BioRuby gem for JASPAR. Sep 3, 2015. May 21, 2015. Mar 11, 2015. Feb 5, 2015. Transcription factor occupancy simulator. Oct 3, 2014. Jun 12, 2014. May 11, 2014. Development of modules for expanded JASPAR functionality in BioPython. May 24, 2013. Jun 5, 2012. You can't perform that action at this time. To refresh your session.
Welcome | TFe
http://cisreg.cmmt.ubc.ca/tfe
Sign in to TFe. Welcome to TFe, the transcription factor's best friend. About the TFe project. Example search terms: NFE2L2, Homo sapiens. GR, TCACTATGATTCAGCAACAAA, nuclear receptors. Or, go to a random article ». Here are some of our expert-curated articles. Browse all articles ». Brought to you by collaborators. And the Wasserman Lab. In Vancouver, Canada. Content subject to the Creative Commons Atribution-Share Alike 3.0 Unported License.
Wasserman Lab Alumni
http://cisreg.cmmt.ubc.ca/Alumni.html
Presentations from the Wasserman Group. Elodie Portales-Casamar, Ph.D. Neuroinformatics Core Manager, NeuroDevNet, NCE, Canada. Project and Outreach Coordinator, Life Sciences Institute, UBC, Canada. Margareta Faxen, PhD. Biosafety Officer, AZSHE, Sweden. Ekaterina (Katya) Nosova, PhD. Computational Biologist, Centre for Applied Neurogenetics, UBC, Canada. Virginie Bernard, PhD. Bioinformatics Manager, ICGex Bioinformatics team, Curie Institute, France. David Martin, PhD. Wynand Alkema, PhD. Program mana...
admin
http://www.mybiosoftware.com/author/admin
Supply Bioinformatics Softwares Everyday. PathScore – A Web tool for Identifying Altered Pathways in Cancer data. Comments Off on PathScore – A Web tool for Identifying Altered Pathways in Cancer data. Quantifies the level of enrichment of somatic mutations within curated pathways, applying a novel approach that identifies pathways enriched across patients. PathScore: a web tool for identifying altered pathways in cancer data. Gaffney SG, Townsend JP. Bioinformatics. 2016 Aug 8. pii: btw512. Maximum Like...
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CISRED
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cisRED: cis-regulatory element database
Databases of genome-wide regulatory module and element predictions. 26 Jul. 2007. 26 Sep. 2007. 18 Apr. 2007. 12 Feb. 2006. 18 Jul. 2008. Human Stat1 ChIP-seq peaks 1. 03 Apr. 2007. The cisRED database holds conserved sequence motifs identified by genome scale motif discovery, similarity, clustering, co-occurrence and coexpression calculations. Sequence inputs include low-coverage genome sequence. Data A Nucleic Acids Research article. Groups of 'similar' motifs. In promoter-based cisRED databases, seque...
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Wasserman Lab Online Tools
Welcome To The Wasserman Lab Website. About Wyeth Wasserman and the Wasserman Lab. Wasserman Lab Open Access Software. The source code for much of the newer Wasserman Lab software is available at GitHub. The ABC4DE web-interface allows for the analysis of sets of variants within a region of interest. For a given variant, the tool reports: 1) if it falls within a predicted regulatory region; 2) the predicted role for that region (promoter/enhancer); and 3) if the variant will alter a potential TFBSs.
Wasserman Lab Online Tools
Welcome To The Wasserman Lab Website. About Wyeth Wasserman and the Wasserman Lab. Wasserman Lab Open Access Software. The source code for much of the newer Wasserman Lab software is available at GitHub. An open-access tool for generating multiple different sequence backgrounds of comparable nucleotide composition relative to a set of input sequences. Transcription factor binding site detection using phylogenetic footprinting. The Gene Characterization Index. Transcription Factor Binding Profile Database.
www.cisreg.org
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