Database Searching in Mass Spectrometry Based Proteomics

Attila Kertesz-Farkas; Beata Reiz; Michael P. Myers; Sandor Pongor

doi:10.2174/157489312800604354

ISSN: 1574-8936
E-ISSN: 2212-392X

Database Searching in Mass Spectrometry Based Proteomics
Authors: Attila Kertesz-Farkas¹, Beata Reiz², Michael P. Myers³ and Sandor Pongor⁴
View Affiliations Hide Affiliations

¹ Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, 34012 Trieste, Italy. ² Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, 34012 Trieste, Italy. ³ Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, 34012 Trieste, Italy. ⁴ Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, 34012 Trieste, Italy.
Source: Current Bioinformatics, Volume 7, Issue 2, Jun 2012, p. 221 - 230
DOI: https://doi.org/10.2174/157489312800604354
- Available online: 01 Jun 2012

Abstract

Bottom-up proteomics (mass spectrometry analysis of peptides obtained by proteolysis and separated by liquid chromatography, (LC-MS/MS)) is one of the most frequently used techniques for identifying and characterizing proteins in biological samples. A key element of the analysis is database searching when the mass spectra of the peptides are compared with a database of theoretically computed (or experimental) peptide spectra. Here we discuss the main computational approaches to spectrum database searching and the statistical analysis of the results.

Article metrics loading...

/content/journals/cbio/10.2174/157489312800604354

2012-06-01

2025-05-03

From This Site

/content/journals/cbio/10.2174/157489312800604354

dcterms_title,dcterms_subject,pub_keyword

-contentType:Contributor -contentType:Concept -contentType:Institution

10

5

Full text loading...

/content/journals/cbio/10.2174/157489312800604354

Article Type: Research Article

Keyword(s): 3D structure analysis); Database search; fragment; genome annotation; Liquid chromatography; Mass spectrometry; mass spectrum; pattern recognition; Protein identification; Proteomics

Most Cited Most Cited RSS feed

- A Review of Ensemble Methods in Bioinformatics
  
  Authors: Pengyi Yang, Yee Hwa Yang, Bing B. Zhou and Albert Y. Zomaya
- s Bioinformatics Tools for Mass Spectroscopy-Based Metabolomic Data Processing and Analysis
  
  Authors: Masahiro Sugimoto, Masato Kawakami, Martin Robert, Tomoyoshi Soga and Masaru Tomita
- Distance-based Support Vector Machine to Predict DNA N6- methyladenine Modification
  
  Authors: Haoyu Zhang, Quan Zou, Ying Ju, Chenggang Song and Dong Chen
- A Review on the Recent Developments of Sequence-based Protein Feature Extraction Methods
  
  Authors: Jun Zhang and Bin Liu
- Molecular Genetic Markers: Discovery, Applications, Data Storage and Visualisation
  
  Authors: Chris Duran, Nikki Appleby, David Edwards and Jacqueline Batley
- A Brief Survey of Machine Learning Methods in Protein Sub-Golgi Localization
  
  Authors: Wuritu Yang, Xiao-Juan Zhu, Jian Huang, Hui Ding and Hao Lin
- Cancer Diagnosis Through IsomiR Expression with Machine Learning Method
  
  Authors: Zhijun Liao, Dapeng Li, Xinrui Wang, Lisheng Li and Quan Zou
- The Advances and Challenges of Deep Learning Application in Biological Big Data Processing
  
  Authors: Li Peng, Manman Peng, Bo Liao, Guohua Huang, Weibiao Li and Dingfeng Xie
- Gene Expression Profile Classification: A Review
  
  Authors: Musa H. Asyali, Dilek Colak, Omer Demirkaya and Mehmet S. Inan
- Relevance of Molecular Docking Studies in Drug Designing
  
  Authors: Ritu Jakhar, Mehak Dangi, Alka Khichi and Anil K. Chhillar
More Less

Database Searching in Mass Spectrometry Based Proteomics

Abstract

Most Read This Month

Most Cited Most Cited RSS feed

s Bioinformatics Tools for Mass Spectroscopy-Based Metabolomic Data Processing and Analysis