LASAGNA-Search 2.0: integrated transcription factor binding site search and visualization in a browser

• DOI: 10.1093/bioinformatics/btu115
• Publication Date: 2014-02-28T01:36:43Z
• Authors: Chih Lee; Chun-Hsi Huang
• Keywords: Genome browser; DNA binding site; Interactive Visualization; Transcription

LASAGNA-Search 2.0 is an integrated webtool for transcription factor (TF) binding site search and visualization. The tool based on the LASAGNA (Length-Aware Site Alignment Guided by Nucleotide Association) algorithm. It eliminates manual TF model collection promoter sequence retrieval. Search results can be visualized locally or in University of California Santa Cruz Genome Browser. Gene regulatory network inference offers another way A list TFs target genes all a user needs to start using tool. currently 1792 models supports 15 species automatic retrieval visualization user-friendly designed non-bioinformaticians suitable research teaching. We describe important changes made since initial release.LASAGNA-Search freely available without registration at http://biogrid.engr.uconn.edu/lasagna_search/.