Literature DB >> 16396501

Computational Proteomics Analysis System (CPAS): an extensible, open-source analytic system for evaluating and publishing proteomic data and high throughput biological experiments.

Adam Rauch1, Matthew Bellew, Jimmy Eng, Matthew Fitzgibbon, Ted Holzman, Peter Hussey, Mark Igra, Brendan Maclean, Chen Wei Lin, Andrea Detter, Ruihua Fang, Vitor Faca, Phil Gafken, Heidi Zhang, Jeffrey Whiteaker, Jeffrey Whitaker, David States, Sam Hanash, Amanda Paulovich, Martin W McIntosh.   

Abstract

The open-source Computational Proteomics Analysis System (CPAS) contains an entire data analysis and management pipeline for Liquid Chromatography Tandem Mass Spectrometry (LC-MS/MS) proteomics, including experiment annotation, protein database searching and sequence management, and mining LC-MS/MS peptide and protein identifications. CPAS architecture and features, such as a general experiment annotation component, installation software, and data security management, make it useful for collaborative projects across geographical locations and for proteomics laboratories without substantial computational support.

Mesh：

Year:  2006        PMID： 16396501     DOI： 10.1021/pr0503533

Source DB:  PubMed          Journal:  J Proteome Res        ISSN： 1535-3893            Impact factor:   4.466


  88 in total

1.  Integrated transcriptomic and proteomic analysis of the physiological response of Escherichia coli O157:H7 Sakai to steady-state conditions of cold and water activity stress.

Authors:  Chawalit Kocharunchitt; Thea King; Kari Gobius; John P Bowman; Tom Ross
Journal:  Mol Cell Proteomics       Date:  2011-10-18       Impact factor: 5.911

Review 2.  Proteomics: a pragmatic perspective.

Authors:  Parag Mallick; Bernhard Kuster
Journal:  Nat Biotechnol       Date:  2010-07-09       Impact factor: 54.908

3.  Increased plasma levels of the APC-interacting protein MAPRE1, LRG1, and IGFBP2 preceding a diagnosis of colorectal cancer in women.

Authors:  Jon J Ladd; Tina Busald; Melissa M Johnson; Qing Zhang; Sharon J Pitteri; Hong Wang; Dean E Brenner; Paul D Lampe; Raju Kucherlapati; Ziding Feng; Ross L Prentice; Samir M Hanash
Journal:  Cancer Prev Res (Phila)       Date:  2012-01-25

4.  SpyA is a membrane-bound ADP-ribosyltransferase of Streptococcus pyogenes which modifies a streptococcal peptide, SpyB.

Authors:  Natalia Korotkova; Jessica S Hoff; Devon M Becker; John Kyle Heggen Quinn; Laura M Icenogle; Steve L Moseley
Journal:  Mol Microbiol       Date:  2012-01-30       Impact factor: 3.501

5.  Challenges and solutions in proteomics.

Authors:  Huang Hongzhan; Hem D Shukla; Wu Cathy; Saxena Satya
Journal:  Curr Genomics       Date:  2007-03       Impact factor: 2.236

6.  The Aspergillus fumigatus sitA Phosphatase Homologue Is Important for Adhesion, Cell Wall Integrity, Biofilm Formation, and Virulence.

Authors:  Vinícius Leite Pedro Bom; Patrícia Alves de Castro; Lizziane K Winkelströter; Marçal Marine; Juliana I Hori; Leandra Naira Zambelli Ramalho; Thaila Fernanda dos Reis; Maria Helena S Goldman; Neil Andrew Brown; Ranjith Rajendran; Gordon Ramage; Louise A Walker; Carol A Munro; Marina Campos Rocha; Iran Malavazi; Daisuke Hagiwara; Gustavo H Goldman
Journal:  Eukaryot Cell       Date:  2015-04-24

7.  Automated platform for fractionation of human plasma glycoproteome in clinical proteomics.

Authors:  Majlinda Kullolli; William S Hancock; Marina Hincapie
Journal:  Anal Chem       Date:  2010-01-01       Impact factor: 6.986

8.  Staphylococcus aureus elicits marked alterations in the airway proteome during early pneumonia.

Authors:  Christy L Ventura; Roger Higdon; Laura Hohmann; Daniel Martin; Eugene Kolker; H Denny Liggitt; Shawn J Skerrett; Craig E Rubens
Journal:  Infect Immun       Date:  2008-10-13       Impact factor: 3.441

9.  Two-dimensional strong cation exchange/porous layer open tubular/mass spectrometry for ultratrace proteomic analysis using a 10 microm id poly(styrene- divinylbenzene) porous layer open tubular column with an on-line triphasic trapping column.

Authors:  Quanzhou Luo; Ye Gu; Shiaw-Lin Wu; Tomas Rejtar; Barry L Karger
Journal:  Electrophoresis       Date:  2008-04       Impact factor: 3.535

10.  A conserved deubiquitinating enzyme controls cell growth by regulating RNA polymerase I stability.

Authors:  Lauren A Richardson; Benjamin J Reed; J Michael Charette; Emily F Freed; Eric K Fredrickson; Melissa N Locke; Susan J Baserga; Richard G Gardner
Journal:  Cell Rep       Date:  2012-08-16       Impact factor: 9.423
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