Name
Abstract | ||
|---|---|---|
Peptide-based proteomics supports identification and quanti. cation as well as localization of post-translational modi. cations (PTMs) within proteins extracted from biological samples. The 'bottom-up' approach involves the digestion of proteins into peptide fragments that can be detected and sequenced with liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS). A web-based application, iPEP, was developed to compare the effectiveness of different proteolytic digests in detecting specific sequences. Furthermore, peptide populations can be examined to help optimize detection of certain groups of proteins relative to the proteome and the digested peptidome. The application reports proteolytic peptide sequences, theoretical molecular weights and functional annotations using Gene Ontology ( GO) terms. The iPEP tool can assist with experimental design by maximizing the detection of proteins, consensus sites and modified residues of interest for individual proteins or as part of large-scale proteomic assays. Availability: http://ipep.mof.tt.org Contact: steven.eschrich@mof.tt.org; john.koomen@mof.tt.org |
Year | DOI | Venue |
|---|---|---|
2008 | 10.1093/bioinformatics/btn511 | BIOINFORMATICS |
Keywords | Field | DocType |
mass spectrometry | Proteomics,Computer science,Tandem mass spectrometry,Peptide,Bottom-up proteomics,Proteome,Mass spectrometry,Molecular mass,Bioinformatics,In silico | Journal |
Volume | Issue | ISSN |
24 | 23 | 1367-4803 |
Citations | PageRank | References |
0 | 0.34 | 2 |
Authors | ||
7 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Dihui Lu | 1 | 50 | 3.15 |
| Richard Z Liu | 2 | 0 | 0.34 |
| Victoria Izumi | 3 | 0 | 0.34 |
| David A. Fenstermacher | 4 | 15 | 2.04 |
| Eric B Haura | 5 | 0 | 0.68 |
| John Koomen | 6 | 77 | 10.39 |
| Steven Eschrich | 7 | 89 | 10.81 |