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TopPIC: a software tool for top-down mass spectrometry-based proteoform identification and characterization.

ABSTRACT: Top-down mass spectrometry enables the observation of whole complex proteoforms in biological samples and provides crucial information complementary to bottom-up mass spectrometry. Because of the complexity of top-down mass spectra and proteoforms, it is a challenging problem to efficiently interpret top-down tandem mass spectra in high-throughput proteome-level proteomics studies. We present TopPIC, a tool that efficiently identifies and characterizes complex proteoforms with unknown primary structure alterations, such as amino acid mutations and post-translational modifications, by searching top-down tandem mass spectra against a protein database.

Availability and implementation

http://proteomics.informatics.iupui.edu/software/toppic/ CONTACT: xwliu@iupui.eduSupplementary information: Supplementary data are available at Bioinformatics online.

SUBMITTER: Kou Q

PROVIDER: S-EPMC5181555 | biostudies-literature | 2016 Nov

REPOSITORIES: biostudies-literature

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TopPIC: a software tool for top-down mass spectrometry-based proteoform identification and characterization.

Kou Qiang Q Xun Likun L Liu Xiaowen X

Bioinformatics (Oxford, England) 20160716 22

Top-down mass spectrometry enables the observation of whole complex proteoforms in biological samples and provides crucial information complementary to bottom-up mass spectrometry. Because of the complexity of top-down mass spectra and proteoforms, it is a challenging problem to efficiently interpret top-down tandem mass spectra in high-throughput proteome-level proteomics studies. We present TopPIC, a tool that efficiently identifies and characterizes complex proteoforms with unknown primary st ...[more]

PMID: 27423895

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