Laboratory of Computational and Quantitative Biology (LCQB)
UMR 7238 CNRS - Sorbonne Université
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SIC: A tool to detect short inverted segments in a biological sequence.
| Title | SIC: A tool to detect short inverted segments in a biological sequence. |
| Publication Type | Journal Article |
| Year of Publication | 2003 |
| Authors | Robelin, D, Richard, H, Prum, B |
| Journal | Nucleic Acids Res |
| Volume | 31 |
| Issue | 13 |
| Pagination | 3669-71 |
| Date Published | 2003 Jul 1 |
| ISSN | 1362-4962 |
| Keywords | Base Sequence, Codon, Internet, Markov Chains, Repetitive Sequences, Nucleic Acid, Sequence Analysis, DNA, Software, User-Computer Interface |
| Abstract | The web software SIC provides a tool to search for short inverted segments (length 3-5000 bp) in a DNA sequence. The sequence is assumed to follow a Markov model. A statistic which is sensitive to inversion is presented. Searching inverted segments is done by a scanning approach after the user specifies the size of the scanning window and the order of the Markov chain. A list of the highest score segments is given with an assessment of the randomness of the result. SIC can be accessed via the URL: http://stat.genopole.cnrs.fr/SIC/. |
| Alternate Journal | Nucleic Acids Res. |
| PubMed ID | 12824390 |
| PubMed Central ID | PMC169195 |
