Abstract
Amino acid sequence database is one of the essential components in the current proteomics with mass spectrometry. Protein identification routine as well as posttranslational modification analysis is based on correlation between the mass spectrometry data of peptides obtained from proteome and the entry sequences in the database. While different sequence databases are available from public resources for the correlation search, these primary sequence data can be processed into more useful forms. In alteration of the unmodified precursor sequences according to their biological processes and variations, the altered sequence database allows to output the search results on the matured polypeptides. Modification of the composition in sequence database would be practically beneficial to the wide range from the detail analysis focusing on a single protein to the biomarker discovery studies for the clinical utility.
Keywords: Alternative splicing, database search program, peptide identification, posttranslational processing, sequence annotation, sequence database, tandem mass spectrometry
Current Proteomics
Title: Amino Acid Sequence Database Suitable for the Protein and Proteome Analysis
Volume: 5 Issue: 4
Author(s): Takao Kawakami, Junko Ozaki, Kazuhiro Kondo, Shinji Sato and Harunobu Yunokawa
Affiliation:
Keywords: Alternative splicing, database search program, peptide identification, posttranslational processing, sequence annotation, sequence database, tandem mass spectrometry
Abstract: Amino acid sequence database is one of the essential components in the current proteomics with mass spectrometry. Protein identification routine as well as posttranslational modification analysis is based on correlation between the mass spectrometry data of peptides obtained from proteome and the entry sequences in the database. While different sequence databases are available from public resources for the correlation search, these primary sequence data can be processed into more useful forms. In alteration of the unmodified precursor sequences according to their biological processes and variations, the altered sequence database allows to output the search results on the matured polypeptides. Modification of the composition in sequence database would be practically beneficial to the wide range from the detail analysis focusing on a single protein to the biomarker discovery studies for the clinical utility.
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Cite this article as:
Kawakami Takao, Ozaki Junko, Kondo Kazuhiro, Sato Shinji and Yunokawa Harunobu, Amino Acid Sequence Database Suitable for the Protein and Proteome Analysis, Current Proteomics 2008; 5 (4) . https://dx.doi.org/10.2174/157016408786733815
DOI https://dx.doi.org/10.2174/157016408786733815 |
Print ISSN 1570-1646 |
Publisher Name Bentham Science Publisher |
Online ISSN 1875-6247 |
Call for Papers in Thematic Issues
Mass spectrometry data acquisition and analysis for proteomics
The Thematic Issue on "Mass spectrometry data acquisition and analysis for proteomics" aims to explore the latest advancements and challenges in the field of proteomics through the lens of mass spectrometry. Proteomics, the large-scale study of proteins and their functions, plays a crucial role in understanding various biological processes and ...read more
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The Editors of the Current Proteomics (CP) journal are highly privileged to welcome scientists to submit their scientific research and review articles to be considered for publication in the upcoming thematic issue. The topics should cover various aspects of peptides in regard to their synthetic methodologies, formulation approaches, pharmacological challenges, ...read more
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