MACO: A gapped-alignment scoring tool for comparing transcription factor binding sites.

by: Gang Su, Binchen Mao, Jin Wang

In Silico Biol, Vol. 6, No. 4. (29 May 2006)

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Abstract

We have implemented a novel gapped-alignment algorithm to compare Position Frequency Matrices (PFM) for Transcription Factor Binding Sites. The application compares an input PFM with those collected from public databases and outputs similarity scores, sequence alignments and related PFM clusters. MACO is freely accessible on a web server located at www.nicemice.cn/bioinfo/MACO. Source code is distributed upon request to the authors.

@article{citeulike:816850, abstract = {We have implemented a novel gapped-alignment algorithm to compare Position Frequency Matrices (PFM) for Transcription Factor Binding Sites. The application compares an input PFM with those collected from public databases and outputs similarity scores, sequence alignments and related PFM clusters. MACO is freely accessible on a web server located at www.nicemice.cn/bioinfo/MACO. Source code is distributed upon request to the authors.}, address = {The State Key Laboratory of Pharmaceutical Biotechnology and Model Animal Institute, Department of Biochemistry, Nanjing University, Nanjing 210093, P.R. China. Email: jwang@nju.edu.cn.}, author = {Su, Gang and Mao, Binchen and Wang, Jin }, citeulike-article-id = {816850}, issn = {1386-6338}, journal = {In Silico Biol}, keywords = {alignment, matrix, pwm, similarity}, month = {May}, number = {4}, posted-at = {2006-08-25 17:56:58}, priority = {3}, title = {MACO: A gapped-alignment scoring tool for comparing transcription factor binding sites.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/16922693}, volume = {6}, year = {2006} }

RIS record

TY - JOUR ID - citeulike:816850 L3 - citeulike-article-id:816850 TI - MACO: A gapped-alignment scoring tool for comparing transcription factor binding sites. JF - In Silico Biol VL - 6 IS - 4 AD - The State Key Laboratory of Pharmaceutical Biotechnology and Model Animal Institute, Department of Biochemistry, Nanjing University, Nanjing 210093, P.R. China. Email: jwang@nju.edu.cn. SN - 1386-6338 N2 - We have implemented a novel gapped-alignment algorithm to compare Position Frequency Matrices (PFM) for Transcription Factor Binding Sites. The application compares an input PFM with those collected from public databases and outputs similarity scores, sequence alignments and related PFM clusters. MACO is freely accessible on a web server located at www.nicemice.cn/bioinfo/MACO. Source code is distributed upon request to the authors. KW - alignment KW - matrix KW - pwm KW - similarity AU - Su, Gang AU - Mao, Binchen AU - Wang, Jin PY - 2006/05/29/ UR - http://view.ncbi.nlm.nih.gov/pubmed/16922693 ER -

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