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Peptidomics coming of age: a review of contributions from a bioinformatics angle

Gerben Menschaert UGent, Tom Vandekerckhove UGent, Geert Baggerman, Liliane Schoofs, Walter Luyten and Wim Van Criekinge UGent (2010) JOURNAL OF PROTEOME RESEARCH. 9(5). p.2051-2061
abstract
The term peptidomics for a new promising "omics" field was not introduced until the beginning of 2000. The approach has been proven successful in several domains such as neuroendocrine research and biomarker or drug discovery. This review reports on bioinformatics tools and methodologies within the peptidomics field and the application thereof. Obviously, a plethora of proteomics data analysis tools lends themselves to direct use in peptidomics because the latter is a subfield of the former, at least to a certain extent. Nevertheless, peptidomics-specific tool extensions, inventions, and validation procedures have emerged, and certain tools are more suitable for this subfield than others due to small but important differences in peptidomics sample analysis. This paper focuses on these topics. Furthermore, it gives a comprehensive overview of available online tools tailored to the peptidomics field. To conclude, an ideal pipeline for bioactive peptide identification is presented.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (review)
publication status
published
subject
keyword
TANDEM MASS-SPECTRA, CENTRAL-NERVOUS-SYSTEM, MS/MS fragmentation spectra, peptidomics, bioinformatics, mass spectrometry identification, PROTEIN IDENTIFICATION DATA, STABLE ISOTOPIC TAGS, POSTTRANSLATIONAL MODIFICATIONS, DROSOPHILA-MELANOGASTER, BIOMARKER DISCOVERY, CAENORHABDITIS-ELEGANS, ENDOGENOUS PEPTIDES, CEREBROSPINAL-FLUID
journal title
JOURNAL OF PROTEOME RESEARCH
J. Proteome Res.
volume
9
issue
5
pages
2051 - 2061
Web of Science type
Review
Web of Science id
000277353200001
JCR category
BIOCHEMICAL RESEARCH METHODS
JCR impact factor
5.46 (2010)
JCR rank
9/70 (2010)
JCR quartile
1 (2010)
ISSN
1535-3893
DOI
10.1021/pr900929m
language
English
UGent publication?
yes
classification
A1
copyright statement
I have transferred the copyright for this publication to the publisher
id
1038105
handle
http://hdl.handle.net/1854/LU-1038105
date created
2010-09-07 13:41:54
date last changed
2016-12-19 15:44:49
@article{1038105,
  abstract     = {The term peptidomics for a new promising {\textacutedbl}omics{\textacutedbl} field was not introduced until the beginning of 2000. The approach has been proven successful in several domains such as neuroendocrine research and biomarker or drug discovery. This review reports on bioinformatics tools and methodologies within the peptidomics field and the application thereof. Obviously, a plethora of proteomics data analysis tools lends themselves to direct use in peptidomics because the latter is a subfield of the former, at least to a certain extent. Nevertheless, peptidomics-specific tool extensions, inventions, and validation procedures have emerged, and certain tools are more suitable for this subfield than others due to small but important differences in peptidomics sample analysis. This paper focuses on these topics. Furthermore, it gives a comprehensive overview of available online tools tailored to the peptidomics field. To conclude, an ideal pipeline for bioactive peptide identification is presented.},
  author       = {Menschaert, Gerben and Vandekerckhove, Tom and Baggerman, Geert and Schoofs, Liliane and Luyten, Walter and Van Criekinge, Wim},
  issn         = {1535-3893},
  journal      = {JOURNAL OF PROTEOME RESEARCH},
  keyword      = {TANDEM MASS-SPECTRA,CENTRAL-NERVOUS-SYSTEM,MS/MS fragmentation spectra,peptidomics,bioinformatics,mass spectrometry identification,PROTEIN IDENTIFICATION DATA,STABLE ISOTOPIC TAGS,POSTTRANSLATIONAL MODIFICATIONS,DROSOPHILA-MELANOGASTER,BIOMARKER DISCOVERY,CAENORHABDITIS-ELEGANS,ENDOGENOUS PEPTIDES,CEREBROSPINAL-FLUID},
  language     = {eng},
  number       = {5},
  pages        = {2051--2061},
  title        = {Peptidomics coming of age: a review of contributions from a bioinformatics angle},
  url          = {http://dx.doi.org/10.1021/pr900929m},
  volume       = {9},
  year         = {2010},
}

Chicago
Menschaert, Gerben, Tom Vandekerckhove, Geert Baggerman, Liliane Schoofs, Walter Luyten, and Wim Van Criekinge. 2010. “Peptidomics Coming of Age: a Review of Contributions from a Bioinformatics Angle.” Journal of Proteome Research 9 (5): 2051–2061.
APA
Menschaert, G., Vandekerckhove, T., Baggerman, G., Schoofs, L., Luyten, W., & Van Criekinge, W. (2010). Peptidomics coming of age: a review of contributions from a bioinformatics angle. JOURNAL OF PROTEOME RESEARCH, 9(5), 2051–2061.
Vancouver
1.
Menschaert G, Vandekerckhove T, Baggerman G, Schoofs L, Luyten W, Van Criekinge W. Peptidomics coming of age: a review of contributions from a bioinformatics angle. JOURNAL OF PROTEOME RESEARCH. 2010;9(5):2051–61.
MLA
Menschaert, Gerben, Tom Vandekerckhove, Geert Baggerman, et al. “Peptidomics Coming of Age: a Review of Contributions from a Bioinformatics Angle.” JOURNAL OF PROTEOME RESEARCH 9.5 (2010): 2051–2061. Print.