Journal Article

Sipros/ProRata: a versatile informatics system for quantitative community proteomics

Yingfeng Wang, Tae-Hyuk Ahn, Zhou Li and Chongle Pan

in Bioinformatics

Volume 29, issue 16, pages 2064-2065
Published in print August 2013 | ISSN: 1367-4803
Published online June 2013 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btt329
Sipros/ProRata: a versatile informatics system for quantitative community proteomics

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Summary: Sipros/ProRata is an open-source software package for end-to-end data analysis in a wide variety of community proteomics measurements. A database-searching program, Sipros 3.0, was developed for accurate general-purpose protein identification and broad-range post-translational modification searches. Hybrid Message Passing Interface/OpenMP parallelism of the new Sipros architecture allowed its computation to be scalable from desktops to supercomputers. The upgraded ProRata 3.0 performs label-free quantification and isobaric chemical labeling quantification in addition to metabolic labeling quantification. Sipros/ProRata is a versatile informatics system that enables identification and quantification of proteins and their variants in many types of community proteomics studies.

Availability: Both programs are freely available under the GNU GPL license at Sipros.omicsbio.org and ProRata.omicsbio.org.

Contact: panc@ornl.gov

Supplementary information: Supplementary data are available at Bioinformatics online.

Journal Article.  1435 words. 

Subjects: Bioinformatics and Computational Biology

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