Java GUI for InterProScan (JIPS): A tool to help process multiple InterProScans and perform ortholog analysis

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dc.contributor.authorSyed, Aijazuddin
dc.contributor.authorUpton, Chris
dc.date.accessioned2014-08-11T19:09:03Z
dc.date.available2014-08-11T19:09:03Z
dc.date.copyright2006en_US
dc.date.issued2006-10-20
dc.descriptionBioMed Centralen_US
dc.description.abstractBackground: Recent, rapid growth in the quantity of available genomic data has generated many protein sequences that are not yet biochemically classified. Thus, the prediction of biochemical function based on structural motifs is an important task in post-genomic analysis. The InterPro databases are a major resource for protein function information. For optimal results, these databases should be searched at regular intervals, since they are frequently updated. Results: We describe here a new program JIPS (Java GUI for InterProScan), a tool for tracking and viewing results obtained from repeated InterProScan searches. JIPS stores matches (in a local database) obtained from InterProScan searches performed with multiple versions of the InterPro database and highlights hits that have been added since the last search of the InterPro database. Results are displayed in an easy-to-use tabular format. JIPS also contains tools to assist with ortholog-based comparative studies of protein signatures. Conclusion: JIPS is an efficient tool for performing repeated InterProScans on large batches of protein sequences, tracking and viewing search results, and mining the collected data.en_US
dc.description.reviewstatusRevieweden_US
dc.description.scholarlevelFacultyen_US
dc.description.sponsorshipThis work was supported by a NIH/NAID Contract HHSN266200400036C and by a NSERC Strategic grant to CU.en_US
dc.identifier.citationSyed & Upton. Java GUI for InterProScan (JIPS). BMC Bioinformatics 2006, 7 :462en_US
dc.identifier.urihttp://www.biomedcentral.com/1471-2105/7/462
dc.identifier.urihttp://dx.doi.org/v\10.1186/1471-2105-7-462
dc.identifier.urihttp://hdl.handle.net/1828/5544
dc.language.isoenen_US
dc.publisherBioMed Centralen_US
dc.subject.departmentDepartment of Microbiology and Biochemistry
dc.subject.departmentDepartment of Biochemistry and Microbiology
dc.titleJava GUI for InterProScan (JIPS): A tool to help process multiple InterProScans and perform ortholog analysisen_US
dc.typeArticleen_US

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