Guan Lab

Department of Computational Medicine & Bioinformatics
Thu, 07/30/2015 - 12:28 -- gyuanfan
TitleMI-PTV: A Tool for Visualizing the Chromosome-centric Human Proteome.
Publication TypeJournal Article
Year of Publication2015
AuthorsPanwar B, Menon R, Eksi R, Omenn GS, Guan Y
JournalJ Proteome Res
Date Published2015 Jul 23
ISSN1535-3907
Abstract

We have developed a web-based Michigan Proteome Visualization Tool (MI-PVT) to visualize and compare protein expression and isoform-level function across human chromosomes and tissues (http://guanlab.ccmb.med.umich.edu/mipvt). As proof-of-principle, we have populated the tool with Human Proteome Map (HPM) data. We were able to observe many biologically interesting features. From the vantage point of our chromosome 17 team, for example, we found more than 300 proteins from chromosome 17 expressed in each of the 30 tissues and cell types studied, with highest 685 expressed proteins in testis. Comparisons of expression levels across tissues showed low numbers of proteins expressed in esophagus, but esophagus had 12 cytoskeletal proteins coded on chromosome 17 with very high expression (> than 1000 spectral counts). This customized Michigan Proteome Visualization Tool (MI-PVT) should be helpful for biologists to browse and study specific proteins and protein datasets across tissues and chromosomes. Users can upload any data of interest on MI-PVT for visualization. Our aim is to integrate extensive mass-spectrometric proteomic data into the tool so as to facilitate finding chromosome-centric protein expression and correlation across tissues.

DOI10.1021/acs.jproteome.5b00525
Alternate JournalJ. Proteome Res.
PubMed ID26204236