PMID: 8590181Oct 1, 1995Paper

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

Computer Applications in the Biosciences : CABIOS
Q K ChenG D Stormo

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.

Citations

Jul 15, 1999·Computers & Chemistry·A G PedersenS Brunak
Dec 5, 1998·Trends in Genetics : TIG·G LavorgnaT Werner
Feb 15, 2000·Research in Microbiology·A VanetM F Sagot
Feb 15, 2000·Research in Microbiology·M S Gelfand
Jun 1, 1997·Current Opinion in Structural Biology·L Duret, P Bucher
Dec 1, 1996·Nucleic Acids Research·J KleffeV Brendel
Jun 26, 2003·Nucleic Acids Research·Scott SchwartzWebb Miller
Jun 26, 2003·Nucleic Acids Research·A E KelE Wingender
Dec 25, 2008·Nucleic Acids Research·Keishin NishidaKenta Nakai
Dec 27, 2012·Nucleic Acids Research·Alvaro Sebastian, Bruno Contreras-Moreira
Aug 28, 2012·Nucleic Acids Research·Mark Maienschein-ClineFangping Mu
Sep 23, 2003·Nucleic Acids Research·Oliver D King, Frederick P Roth
Dec 14, 2011·Neuropathology : Official Journal of the Japanese Society of Neuropathology·Jessica K LerchVance P Lemmon
Dec 25, 2008·BMC Biotechnology·Vijayalakshmi H NagarajAnirvan M Sengupta
Jun 19, 2004·Proteome Science·Annette Höglund, Oliver Kohlbacher
Jan 25, 2007·Algorithms for Molecular Biology : AMB·C Steven CarmackCharles E Lawrence
Sep 18, 2009·Bioinformation·Naresh SenAshok Sharma
Feb 6, 2002·Genome Research·Matthias FrischThomas Werner
Oct 10, 2015·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Mauro LeonciniKarina Panucia Tillan
Feb 6, 2008·The FEBS Journal·Yongjuan ZhaoDexian Zheng
Sep 30, 2017·Bioinformatics·Wolfgang Kopp, Martin Vingron
Jul 2, 2003·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·Thomas WernerPeter J Nelson
Apr 16, 2002·Critical Reviews in Toxicology·Mark R FieldenTim R Zacharewski
Sep 4, 2020·Genetics·Stephen Small, David N Arnosti
Oct 6, 1997·Genome Research·J W Fickett, A G Hatzigeorgiou

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