cisred.org

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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cisRED: cis-regulatory element database | cisred.org Reviews

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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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cisRED: cis-regulatory element database | cisred.org Reviews

https://cisred.org

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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cisred.org

1

cisRED: cis-regulatory element database

http://www.cisred.org/content/methods/news/mouse4_initial_release

New mouse v4 database. New mouse v4 database. The v3.1 motif coordinates were 'lifted' to the NCBI m37 (mm9) assembly. The v4 motifs are compatible with (and will be available at) Ensembl 47. View all cisRED news items. Questions or comments: cisred@bcgsc.ca.

2

cisRED: cis-regulatory element database

http://www.cisred.org/content/methods/news/cele4_release

C elegans v4 database. C elegans v4 database. Annotation: 17740 motifs have been annotated with TRANSFAC models at a p-value threshold 1e-05; 23331 motifs have been annotated with JASPAR models at a p-value threshold of 1e-04; 7449 motifs have been annotated with models based on experimentally proven C. elegans TFBS from the ORegAnno database at a p-value threshold of 1.5e-04. View all cisRED news items. Questions or comments: cisred@bcgsc.ca.

3

cisRED: cis-regulatory element database

http://www.cisred.org/mouse3

Search for any of the following:. Ensembl gene IDs (e.g. ENSMUSG00000000001). Gene symbols (e.g. NP 001013818.1, Uty). CisRED motif IDs (e.g. craMmus1). CisRED group IDs (e.g. crtMmus200436). CisRED module IDs (e.g. crmMmus2). Find motif sequences on either strand that contain an IUPAC. Query sequence, e.g. TAARNGCMT. Search Groups and Modules. Associated with at least one. Of these JASPAR, TRANSFAC or ORegAnno models:. For each chromosome, get the search region locations and annotation information.

4

cisRED: cis-regulatory element database

http://www.cisred.org/mouse4

Search for any of the following:. Ensembl gene IDs (e.g. ENSMUSG00000000001). Gene symbols (e.g. NP 001013818.1, Uty). CisRED motif IDs (e.g. craMmus1). CisRED group IDs (e.g. crtMmus4000). Find motif sequences on either strand that contain an IUPAC. Query sequence, e.g. TAARNGCMT. Search Groups and Modules. Associated with at least one. Of these JASPAR, TRANSFAC or ORegAnno models:. View a list of all the search regions in this database, and the number of motifs found in each region. The v3.1 motifs...

5

cisRED: cis-regulatory element database

http://www.cisred.org/content/methods/news/browse_by_location

View all cisRED news items. Questions or comments: cisred@bcgsc.ca.

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genomesciencesinstitute.com

Scientific Data — Canada's Michael Smith Genome Sciences Centre

http://www.genomesciencesinstitute.com/data

Only in current section. The GSC creates and serves many scientific databases, data assets and data services. CEEHRC: Canadian Epigenetics, Environment and Health Research Consortium Platform. C Elegans Gene Expression. For both Chromatin- immunoprecipation Transcription Factors. Sequence files and the associated probability files are also provided. FPC Mapping data files from species we have fingerprinted. Mouse Atlas of Gene Expression. The Mouse Atlas of Gene Expression is a quantitative and comprehen...

bcgsc.ca

Scientific Data — Canada's Michael Smith Genome Sciences Centre

http://www.bcgsc.ca/data

Only in current section. The GSC creates and serves many scientific databases, data assets and data services. CEEHRC: Canadian Epigenetics, Environment and Health Research Consortium Platform. C Elegans Gene Expression. For both Chromatin- immunoprecipation Transcription Factors. Sequence files and the associated probability files are also provided. FPC Mapping data files from species we have fingerprinted. Mouse Atlas of Gene Expression. The Mouse Atlas of Gene Expression is a quantitative and comprehen...

may2009.archive.ensembl.org

Ensembl genome browser v54: Homo sapiens - Frequently Asked Questions -

http://may2009.archive.ensembl.org/Help/Faq

Does Ensembl have promoters or regulatory regions? Canonical promoters are not available in Ensembl. However, you can find promoter associated Regulatory Features for human, which have been generated by the Ensembl Regulatory Build. These are displayed in the browser via the Regulatory Features track or can be accessed from the functional genomics. Database. Other regulatory data are also available, such as CTCF binding sites and motifs from the cisRED. These can be found in the Region in detail. Ensembl...

bioinfo-btg09-grupo02.wikispaces.com

bioinfo-btg09-grupo02 - 3-Material y métodos

http://bioinfo-btg09-grupo02.wikispaces.com/3-Material%20y%20métodos

Skip to main content. Get your Wikispaces Classroom now:. The easiest way to manage your class. 4- Resultados y discusión. En la práctica de bases de datos moleculares hemos utilizado la de proteinas UNIPROT www.uniprot.org. Donde se pone el nombre del gen. Además hemos utilizado las bases de datos de ADN , EMBL y GeneBank. Para la búsqueda de similitud se puede utilizar el portal del EBI http:/ www.ebi.ac.uk/Tools/similarity.html. Tambien está http:/ www.genomesonline.org. Para la práctica de matrices d...

genomesciencesinstitute.org

Scientific Data — Canada's Michael Smith Genome Sciences Centre

http://www.genomesciencesinstitute.org/data

Only in current section. The GSC creates and serves many scientific databases, data assets and data services. CEEHRC: Canadian Epigenetics, Environment and Health Research Consortium Platform. C Elegans Gene Expression. For both Chromatin- immunoprecipation Transcription Factors. Sequence files and the associated probability files are also provided. FPC Mapping data files from species we have fingerprinted. Mouse Atlas of Gene Expression. The Mouse Atlas of Gene Expression is a quantitative and comprehen...

nar.oxfordjournals.org

cisRED: a database system for genome-scale computational discovery of regulatory elements

http://nar.oxfordjournals.org/cgi/content/full/34/suppl_1/D68

View Current Issue (Volume 44 Issue 14 19 August 2016). CisRED: a database system for genome-scale computational discovery of regulatory elements. S J M Jones. Canada's Michael Smith Genome Sciences Centre, British Columbia Cancer Agency Vancouver, BC, Canada. Department of Computing Science, University of Alberta Edmonton, AB, Canada. To whom correspondence should be addressed. Tel: 1 604 675 8170; Fax: 1 604 876 3561; Email: grobertson{at}bcgsc.ca. August 15, 2005. October 8, 2005. October 8, 2005.

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cisrecife.blogspot.com

Centro Integrado de Saúde de Recife

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cisred.com

CISRED

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cisred.org

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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CIS Refunds Information

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CIS Refunds

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cisreg.ca

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.

cisreg.cmmt.ubc.ca

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.