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- Title
BLogo: a tool for visualization of bias in biological sequences.
- Authors
Wencheng Li; Bo Yang; Shaoguang Liang; Yonghua Wang; Chris Whiteley; Yicheng Cao; Xiaoning Wang
- Abstract
Summary: Blogo is a web-based tool that detects and displays statistically significant position-specific sequence bias with reduced background noise. The over-represented and under-represented symbols in a particular position are shown above and below the zero line. When the sequences are in open reading frames, the background frequency of nucleotides could be calculated separately for the three positions of a codon, thus greatly reducing the background noise. The χ2-test or Fishers exact test is used to evaluate the statistical significance of every symbol in every position and only those that are significant are highlighted in the resulting logo. The perl source code of the program is freely available and can be run locally. Availability: http://acephpx.cropdb.org/blogo/, http://www.bioinformatics.org/blogo/ Contact: lwcbio@yahoo.com.cn; xnwang@21cn.net Supplementary information: Supplementary data are available atBioinformatics online.
- Publication
Bioinformatics, 2008, Vol 24, Issue 19, p2254
- ISSN
1367-4803
- Publication type
Academic Journal
- DOI
10.1093/bioinformatics/btn407