INTERNET BASED TOOLS RESOURCE FOR PROTEIN MASS SPECTROMETRY

基于互联网的蛋白质质谱工具资源

• 批准号: 8361488
• 负责人: JULIO C PADOVAN
• 金额: $ 1.04万
• 依托单位: ROCKEFELLER UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-03-01 至 2012-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8361488
• 关键词: Affect; Algorithms; Amino Acid Sequence; Amino Acids; Bioinformatics; Chemicals; Collection; Computational Biology; Cross-Linking Reagents; Databases; Disulfides; Funding; Grant; Internet; Libraries; Manuscripts; Maps; Mass Spectrum Analysis; Methods; Modification; Molecular Biology; National Center for Research Resources; Peptide Mapping; Peptide Sequence Determination; Peptides; Principal Investigator; Probability; Process; Protein Sequence Analysis; Proteins; Proteome; Research; Research Infrastructure; Resources; Retrieval; Source; United States National Institutes of Health; base; cost; crosslink; design; disulfide bond; macromolecule; oxidation; polypeptide; protein aminoacid sequence; tool

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. Primary support for the subproject and the subproject's principal investigator may have been provided by other sources, including other NIH sources. The Total Cost listed for the subproject likely represents the estimated amount of Center infrastructure utilized by the subproject, not direct funding provided by the NCRR grant to the subproject or subproject staff. We continue to maintain an internet based bioinformatic resource for protein mass spectrometry. WE also maintain the databases used to search for proteins and insert specialized databases upon request by our users. These tools ca be found at the universal resource locator http://www.rockefeller.edu/labheads/chait/tools.php and include: ProFound ProFound is a tool for searching a protein sequence collections with peptide mass maps. A Bayesian algorithm is used to rank the protein sequences in the database according to their probability of producing the peptide map. ProteinInfo ProteinInfo is a collection of tools for retrieval and analysis of protein sequences. The capabilities of the analysis tools include peptide mapping, mass spectrometric fragmentation analysis, disulfide mapping, etc. PeptideMap PeptideMap is a tool for finding modifications on polypeptide sequences. The modifications can be affecting single amino acids (e.g. phoshorylation or oxidation) or cross-linking two amino acids (e.g. disulfide bonds or chemical cross-linking reagents). PepFrag PepFrag is a tool for identifying proteins from a collection of sequences that matches a single tandem mass spectrum. X! Tandem X! Tandem is a tool for identifying proteins from a collection of peptide sequences that matches tandem mass spectra. X! Hunter X! Hunter is a tool for identifying proteins that matches tandem mass spectra to a library of spectra that have been confidently assigned to a particular peptide sequence. GPMDB GPMDB is a database of tandem mass spectra and their assigned peptide sequences. It is designed to aid in the difficult process of validating peptide MS/MS spectra. (A manuscript describing the Global Protein Machine is in press: D. Feny¿, J. Eriksson and R.C. Beavis, "Mass Spectrometric Protein Identification Using the Global Proteome Machine", Methods in Molecular Biology, Computational Biology, Ed. D. Feny¿, Humana Press, Totowa, NJ, in press 2010.) NCDIR Strain Database The National Center for Dynamic Interactome Research (NCDIR) Strain Database

这个子项目是利用这些资源的众多研究子项目之一