Paz, I., Akerman, M., Dror, I., Kosti, I., Mandel-Gutfreund, Y. (May 2010) SFmap: a web server for motif analysis and prediction of splicing factor binding sites. Nucleic Acids Research, 38 (S2). W281-W285. ISSN 03051048 (ISSN)
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Abstract
Alternative splicing (AS) is a post-transcriptional process considered to be responsible for the huge diversity of proteins in higher eukaryotes. AS events are regulated by different splicing factors (SFs) that bind to sequence elements on the RNA. SFmap is a web server for predicting putative SF binding sites in genomic data (http://sfmap.technion.ac.il). SFmap implements the COS(WR) algorithm, which computes similarity scores for a given regulatory motif based on information derived from its sequence environment and its evolutionary conservation. Input for SFmap is a human genomic sequence or a list of sequences in FASTA format that can either be uploaded from a file or pasted into a window. SFmap searches within a given sequence for significant hits of binding motifs that are either stored in our database or defined by the user. SFmap results are provided both as a text file and as a graphical web interface.
| Item Type: | Paper |
|---|---|
| Subjects: | bioinformatics > genomics and proteomics > computers > computer software bioinformatics > genomics and proteomics > genetics & nucleic acid processing > protein structure, function, modification > protein expression > post-translational modification |
| CSHL Authors: | |
| Communities: | CSHL Post Doctoral Fellows CSHL labs > Krainer lab |
| Depositing User: | CSHL Librarian |
| Date: | 25 May 2010 |
| Date Deposited: | 05 Oct 2011 13:55 |
| Last Modified: | 01 May 2013 16:46 |
| PMCID: | PMC2896136 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/15503 |
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