A hybrid, de novo based, genome-wide database search approach applied to the sea urchin neuropeptidome

Gerben Menschaert; Tom T.M. Vandekerckhove; Geert Baggerman; Bart Landuyt; Jonathan V. Sweedler; Liliane Schoofs; Walter Luyten; Wim Van Criekinge

doi:10.1021/pr900885k

A hybrid, de novo based, genome-wide database search approach applied to the sea urchin neuropeptidome

Gerben Menschaert, Tom T.M. Vandekerckhove, Geert Baggerman, Bart Landuyt, Jonathan V. Sweedler, Liliane Schoofs, Walter Luyten, Wim Van Criekinge

Research output: Contribution to journal › Article

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	https://doi.org/10.1021/pr900885k
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

Menschaert, G., Vandekerckhove, T. T. M., Baggerman, G., Landuyt, B., Sweedler, J. V., Schoofs, L., Luyten, W., & Van Criekinge, W. (2010). A hybrid, de novo based, genome-wide database search approach applied to the sea urchin neuropeptidome. Journal of Proteome Research, 9(2), 990-996. https://doi.org/10.1021/pr900885k

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

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Access to Document

10.1021/pr900885k