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A quantitative proteomics design for systematic identification of protease cleavage events

Francis Impens UGent, Niklaas Colaert UGent, Kenny Helsens UGent, Bart Ghesquière UGent, Evy Timmerman UGent, Pieter-Jan De Bock UGent, Benjamin M Chain, Joël Vandekerckhove UGent and Kris Gevaert UGent (2010) MOLECULAR & CELLULAR PROTEOMICS. 9(10). p.2327-2333
abstract
We present here a novel proteomics design for systematic identification of protease cleavage events by quantitative N-terminal proteomics, circumventing the need for time-consuming manual validation. We bypass the singleton detection problem of protease-generated neo-N-terminal peptides by introducing differential isotopic proteome labeling such that these substrate reporter peptides are readily distinguished from all other N-terminal peptides. Our approach was validated using the canonical human caspase-3 protease and further applied to mouse cathepsin D and E substrate processing in a mouse dendritic cell proteome, identifying the largest set of protein protease substrates ever reported and gaining novel insight into substrate specificity differences of these cathepsins.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
SITES, SILAC, TOOL, EXPRESSION, CATHEPSIN-E, N-TERMINAL PEPTIDES, APOPTOSIS, PRODUCTS
journal title
MOLECULAR & CELLULAR PROTEOMICS
Mol. Cell. Proteomics
volume
9
issue
10
pages
2327 - 2333
Web of Science type
Article
Web of Science id
000282368900020
JCR category
BIOCHEMICAL RESEARCH METHODS
JCR impact factor
8.354 (2010)
JCR rank
5/70 (2010)
JCR quartile
1 (2010)
ISSN
1535-9476
DOI
10.1074/mcp.M110.001271
language
English
UGent publication?
yes
classification
A1
copyright statement
I have transferred the copyright for this publication to the publisher
id
1064426
handle
http://hdl.handle.net/1854/LU-1064426
date created
2010-10-26 14:12:08
date last changed
2013-01-30 09:41:25
@article{1064426,
  abstract     = {We present here a novel proteomics design for systematic identification of protease cleavage events by quantitative N-terminal proteomics, circumventing the need for time-consuming manual validation. We bypass the singleton detection problem of protease-generated neo-N-terminal peptides by introducing differential isotopic proteome labeling such that these substrate reporter peptides are readily distinguished from all other N-terminal peptides. Our approach was validated using the canonical human caspase-3 protease and further applied to mouse cathepsin D and E substrate processing in a mouse dendritic cell proteome, identifying the largest set of protein protease substrates ever reported and gaining novel insight into substrate specificity differences of these cathepsins.},
  author       = {Impens, Francis and Colaert, Niklaas and Helsens, Kenny and Ghesqui{\`e}re, Bart and Timmerman, Evy and De Bock, Pieter-Jan and Chain, Benjamin M and Vandekerckhove, Jo{\"e}l and Gevaert, Kris},
  issn         = {1535-9476},
  journal      = {MOLECULAR \& CELLULAR PROTEOMICS},
  keyword      = {SITES,SILAC,TOOL,EXPRESSION,CATHEPSIN-E,N-TERMINAL PEPTIDES,APOPTOSIS,PRODUCTS},
  language     = {eng},
  number       = {10},
  pages        = {2327--2333},
  title        = {A quantitative proteomics design for systematic identification of protease cleavage events},
  url          = {http://dx.doi.org/10.1074/mcp.M110.001271},
  volume       = {9},
  year         = {2010},
}

Chicago
Impens, Francis, Niklaas Colaert, Kenny Helsens, Bart Ghesquière, Evy Timmerman, Pieter-Jan De Bock, Benjamin M Chain, Joël Vandekerckhove, and Kris Gevaert. 2010. “A Quantitative Proteomics Design for Systematic Identification of Protease Cleavage Events.” Molecular & Cellular Proteomics 9 (10): 2327–2333.
APA
Impens, F., Colaert, N., Helsens, K., Ghesquière, B., Timmerman, E., De Bock, P.-J., Chain, B. M., et al. (2010). A quantitative proteomics design for systematic identification of protease cleavage events. MOLECULAR & CELLULAR PROTEOMICS, 9(10), 2327–2333.
Vancouver
1.
Impens F, Colaert N, Helsens K, Ghesquière B, Timmerman E, De Bock P-J, et al. A quantitative proteomics design for systematic identification of protease cleavage events. MOLECULAR & CELLULAR PROTEOMICS. 2010;9(10):2327–33.
MLA
Impens, Francis, Niklaas Colaert, Kenny Helsens, et al. “A Quantitative Proteomics Design for Systematic Identification of Protease Cleavage Events.” MOLECULAR & CELLULAR PROTEOMICS 9.10 (2010): 2327–2333. Print.