MATRIX SEARCH 1.0: A computer program that scans DNA sequences for transcriptional elements using a database of weight matrices

Qing K. Chen, Gerald Z. Hertz, Gary D. Stormo

Research output: Contribution to journalArticlepeer-review

111 Scopus citations

Abstract

The information matrix database (IMD), a database of weight matrices of transcription factor binding sites, is developed. MATRIX SEARCH, a program which can find potential transcription factor binding sites in DNA sequences using the IMD database, is also developed and accompanies the IMD database. MATRIX SEARCH adopts a user interface very similar to that of the SIGNAL SCAN program. MATRIX SEARCH allows the user to search an input sequence with the IMD automatically, to visualize the matrix representations of sites for particular factors, and to retrieve journal citations. The source code for MATRIX SEARCH is in the 'C' language, and the program is available for unix platforms.

Original languageEnglish
Pages (from-to)563-566
Number of pages4
JournalBioinformatics
Volume11
Issue number5
DOIs
StatePublished - Oct 1995

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