{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,12]],"date-time":"2026-03-12T07:33:20Z","timestamp":1773300800134,"version":"3.50.1"},"reference-count":5,"publisher":"Oxford University Press (OUP)","issue":"20","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,10,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: TFInfer is a novel open access, standalone tool for genome-wide inference of transcription factor activities from gene expression data. Based on an earlier MATLAB version, the software has now been extended in a number of ways. It has been significantly optimised in terms of performance, and it was given novel functionality, by allowing the user to model both time series and data from multiple independent conditions. With a full documentation and intuitive graphical user interface, together with an in-built data base of yeast and Escherichia coli transcription factors, the software does not require any mathematical or computational expertise to be used effectively.<\/jats:p>\n               <jats:p>Availability: \u00a0http:\/\/homepages.inf.ed.ac.uk\/gsanguin\/TFInfer.html<\/jats:p>\n               <jats:p>Contact: \u00a0gsanguin@staffmail.ed.ac.uk<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btq469","type":"journal-article","created":{"date-parts":[[2010,8,26]],"date-time":"2010-08-26T00:33:02Z","timestamp":1282782782000},"page":"2635-2636","source":"Crossref","is-referenced-by-count":24,"title":["TFInfer: a tool for probabilistic inference of transcription factor activities"],"prefix":"10.1093","volume":"26","author":[{"given":"H. M. Shahzad","family":"Asif","sequence":"first","affiliation":[{"name":"1 School of Informatics, University of Edinburgh, 10 Crichton Street, Edinburgh EH8 9AB, 2Department of Molecular Biology and Biotechnology, University of Sheffield, Western Bank, Sheffield S10 2TN and 3School of Computer Science, University of Manchester, Oxford Road, Manchester M13 9PL, UK"}]},{"given":"Matthew D.","family":"Rolfe","sequence":"additional","affiliation":[{"name":"1 School of Informatics, University of Edinburgh, 10 Crichton Street, Edinburgh EH8 9AB, 2Department of Molecular Biology and Biotechnology, University of Sheffield, Western Bank, Sheffield S10 2TN and 3School of Computer Science, University of Manchester, Oxford Road, Manchester M13 9PL, UK"}]},{"given":"Jeff","family":"Green","sequence":"additional","affiliation":[{"name":"1 School of Informatics, University of Edinburgh, 10 Crichton Street, Edinburgh EH8 9AB, 2Department of Molecular Biology and Biotechnology, University of Sheffield, Western Bank, Sheffield S10 2TN and 3School of Computer Science, University of Manchester, Oxford Road, Manchester M13 9PL, UK"}]},{"given":"Neil D.","family":"Lawrence","sequence":"additional","affiliation":[{"name":"1 School of Informatics, University of Edinburgh, 10 Crichton Street, Edinburgh EH8 9AB, 2Department of Molecular Biology and Biotechnology, University of Sheffield, Western Bank, Sheffield S10 2TN and 3School of Computer Science, University of Manchester, Oxford Road, Manchester M13 9PL, UK"}]},{"given":"Magnus","family":"Rattray","sequence":"additional","affiliation":[{"name":"1 School of Informatics, University of Edinburgh, 10 Crichton Street, Edinburgh EH8 9AB, 2Department of Molecular Biology and Biotechnology, University of Sheffield, Western Bank, Sheffield S10 2TN and 3School of Computer Science, University of Manchester, Oxford Road, Manchester M13 9PL, UK"}]},{"given":"Guido","family":"Sanguinetti","sequence":"additional","affiliation":[{"name":"1 School of Informatics, University of Edinburgh, 10 Crichton Street, Edinburgh EH8 9AB, 2Department of Molecular Biology and Biotechnology, University of Sheffield, Western Bank, Sheffield S10 2TN and 3School of Computer Science, University of Manchester, Oxford Road, Manchester M13 9PL, UK"}]}],"member":"286","published-online":{"date-parts":[[2010,8,24]]},"reference":[{"key":"2023012507554179400_B1","doi-asserted-by":"crossref","first-page":"4516","DOI":"10.1074\/jbc.M808210200","article-title":"Carbon monoxide-releasing antibacterial molecules target respiration and global transcriptional regulators","volume":"284","author":"Davidge","year":"2009","journal-title":"J. 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