{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,16]],"date-time":"2025-10-16T20:11:01Z","timestamp":1760645461588},"reference-count":4,"publisher":"Oxford University Press (OUP)","issue":"20","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":3324,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2007,10,15]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Summary: TMpro is a transmembrane (TM) helix prediction algorithm that uses language processing methodology for TM segment identification. It is primarily based on the analysis of statistical distributions of properties of amino acids in transmembrane segments. This article describes the availability of TMpro on the internet via a web interface. The key features of the interface are: (i) output is generated in multiple formats including a user-interactive graphical chart which allows comparison of TMpro predicted segment locations with other labeled segments input by the user, such as predictions from other methods. (ii) Up to 5000 sequences can be submitted at a time for prediction. (iii) TMpro is available as a web server and is published as a web service so that the method can be accessed by users as well as other services depending on the need for data integration.<\/jats:p><jats:p>Availability: \u00a0http:\/\/linzer.blm.cs.cmu.edu\/tmpro\/ (web server and help), http:\/\/blm.sis.pitt.edu:8080\/axis\/services\/TMProFetcherService (web service)<\/jats:p><jats:p>Contact: \u00a0judithks@cs.cmu.edu or jks33@pitt.edu<\/jats:p>","DOI":"10.1093\/bioinformatics\/btm398","type":"journal-article","created":{"date-parts":[[2007,8,28]],"date-time":"2007-08-28T00:13:35Z","timestamp":1188260015000},"page":"2795-2796","source":"Crossref","is-referenced-by-count":8,"title":["TMpro web server and web service: transmembrane helix prediction through amino acid property analysis"],"prefix":"10.1093","volume":"23","author":[{"given":"Madhavi","family":"Ganapathiraju","sequence":"first","affiliation":[{"name":"1 Language Technologies Institute, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA 15213, 2School of Information Sciences, University of Pittsburgh, Pittsburgh, PA 15213 and 3Department of Structural Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA"}]},{"given":"Christopher Jon","family":"Jursa","sequence":"additional","affiliation":[{"name":"1 Language Technologies Institute, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA 15213, 2School of Information Sciences, University of Pittsburgh, Pittsburgh, PA 15213 and 3Department of Structural Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA"}]},{"given":"Hassan A.","family":"Karimi","sequence":"additional","affiliation":[{"name":"1 Language Technologies Institute, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA 15213, 2School of Information Sciences, University of Pittsburgh, Pittsburgh, PA 15213 and 3Department of Structural Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA"}]},{"given":"Judith","family":"Klein-Seetharaman","sequence":"additional","affiliation":[{"name":"1 Language Technologies Institute, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA 15213, 2School of Information Sciences, University of Pittsburgh, Pittsburgh, PA 15213 and 3Department of Structural Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA"},{"name":"1 Language Technologies Institute, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA 15213, 2School of Information Sciences, University of Pittsburgh, Pittsburgh, PA 15213 and 3Department of Structural Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA"}]}],"member":"286","published-online":{"date-parts":[[2007,8,27]]},"reference":[{"key":"2023041106212804200_","doi-asserted-by":"crossref","unstructured":"Ganapathiraju M \u00a0et al. Transmembrane helix prediction using amino acid property features and latent semantic analysis InCoB2007 2007 Hong Kong SAR http:\/\/srs1.bic.nus.edu.sg\/ocs\/viewabstract.php?id=46","DOI":"10.1186\/1471-2105-9-S1-S4"},{"key":"2023041106212804200_","doi-asserted-by":"crossref","first-page":"567","DOI":"10.1006\/jmbi.2000.4315","article-title":"Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes","volume":"305","author":"Krogh","year":"2001","journal-title":"J. Mol. Biol"},{"key":"2023041106212804200_","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1016\/0022-2836(82)90515-0","article-title":"A simple method for displaying the hydropathic character of a protein","volume":"157","author":"Kyte","year":"1982","journal-title":"J. Mol. Biol"},{"key":"2023041106212804200_","doi-asserted-by":"crossref","first-page":"1908","DOI":"10.1110\/ps.04625404","article-title":"Best alpha-helical transmembrane protein topology predictions are achieved using hidden Markov models and evolutionary information","volume":"13","author":"Viklund","year":"2004","journal-title":"Protein Sci"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/23\/20\/2795\/49817910\/bioinformatics_23_20_2795.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/23\/20\/2795\/49817910\/bioinformatics_23_20_2795.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,5,13]],"date-time":"2023-05-13T22:54:40Z","timestamp":1684018480000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/23\/20\/2795\/229583"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2007,8,27]]},"references-count":4,"journal-issue":{"issue":"20","published-print":{"date-parts":[[2007,10,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btm398","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2007,10,15]]},"published":{"date-parts":[[2007,8,27]]}}}