Abstract
Peptidomics is the identification and study of the in vivo biologically active peptide profile. A combination of high performance liquid chromatography, mass spectrometry, and bioinformatics tools such as database search engines are commonly used to perform the analysis. We report a methodology based on a database system holding the completed translated genome, whereby de novo sequencing and genome-wide database searching are combined. The methodology was applied to the sea urchin neuropeptidome resulting in a 30% increase in identification rate.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 990-996 |
| Number of pages | 7 |
| Journal | Journal of Proteome Research |
| Volume | 9 |
| Issue number | 2 |
| DOIs | |
| State | Published - Feb 5 2010 |
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Keywords
- De novo sequencing
- Genome-wide database search
- Indexed genome
- Neuropeptide
- Peptidomics
- Sea urchin
ASJC Scopus subject areas
- Biochemistry
- Chemistry(all)
Cite this
A hybrid, de novo based, genome-wide database search approach applied to the sea urchin neuropeptidome. / Menschaert, Gerben; Vandekerckhove, Tom T.M.; Baggerman, Geert; Landuyt, Bart; Sweedler, Jonathan V.; Schoofs, Liliane; Luyten, Walter; Van Criekinge, Wim.
In: Journal of Proteome Research, Vol. 9, No. 2, 05.02.2010, p. 990-996.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - A hybrid, de novo based, genome-wide database search approach applied to the sea urchin neuropeptidome
AU - Menschaert, Gerben
AU - Vandekerckhove, Tom T.M.
AU - Baggerman, Geert
AU - Landuyt, Bart
AU - Sweedler, Jonathan V.
AU - Schoofs, Liliane
AU - Luyten, Walter
AU - Van Criekinge, Wim
PY - 2010/2/5
Y1 - 2010/2/5
N2 - Peptidomics is the identification and study of the in vivo biologically active peptide profile. A combination of high performance liquid chromatography, mass spectrometry, and bioinformatics tools such as database search engines are commonly used to perform the analysis. We report a methodology based on a database system holding the completed translated genome, whereby de novo sequencing and genome-wide database searching are combined. The methodology was applied to the sea urchin neuropeptidome resulting in a 30% increase in identification rate.
AB - Peptidomics is the identification and study of the in vivo biologically active peptide profile. A combination of high performance liquid chromatography, mass spectrometry, and bioinformatics tools such as database search engines are commonly used to perform the analysis. We report a methodology based on a database system holding the completed translated genome, whereby de novo sequencing and genome-wide database searching are combined. The methodology was applied to the sea urchin neuropeptidome resulting in a 30% increase in identification rate.
KW - De novo sequencing
KW - Genome-wide database search
KW - Indexed genome
KW - Neuropeptide
KW - Peptidomics
KW - Sea urchin
UR - http://www.scopus.com/inward/record.url?scp=76149127020&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=76149127020&partnerID=8YFLogxK
U2 - 10.1021/pr900885k
DO - 10.1021/pr900885k
M3 - Article
C2 - 20000637
AN - SCOPUS:76149127020
VL - 9
SP - 990
EP - 996
JO - Journal of Proteome Research
JF - Journal of Proteome Research
SN - 1535-3893
IS - 2
ER -