[Protein-analysis] Case Study - Towards a global phosphoproteome data set - enquiry for data

Søren Schandorff Gade-Jørgensen sgade at proxeon.com
Thu Apr 27 06:32:03 EST 2006


We are working on towards having a data set of as many phosphorylations as possible.
This data set is made publically available (on request) as an annotated report at the protein level - i.e. listing which proteins that are known to be phosphorylated and which study that reported this.

Go here to see an example with part of the report:

We like to ask whether anyone have published phosphorylation data sets that they like to see included. The data set will be included at the protein level in the public report and with detailed results to customers of ProteinCenter.

We are combined these phosphorylation data sets in ProteinCenter(tm) and used the application for complex comparison studies of phosphoproteomes derived from experimental data, available databases and literature.

We currently include:
7110 phosphorylations in 2757 proteins
And much more will come soon.

Experimental data that are currently included is:
#Global phosphoproteome of HT-29 human colon adenocarcinoma cells.J Proteome Res. 2005 Jul-Aug;4(4):1339-46.
#Phosphorylation state of postsynaptic density proteins, Journal of Neurochemistry, 2005, 92, 1306-1316 J. C. Trinidad,* et. al and A. L.
#Global phosphoproteome analysis on human HepG2 hepatocytes using reversed-phase diagonal LC Proteomics 2005, 5, 3589-3599 Kris Gevaert, et. al and Joël Vandek
#Large-scale characterization of HeLa cell nuclear phosphoproteins.
Beausoleil SA, et. al , Gygi SP. Proc Natl Acad Sci U S A. 2004 Aug 17;101(33):12130-5. Epub 2004 Aug 9.
#Comprehensive Identification of Phosphorylation Sites in Postsynaptic Density Preparations JC Trinidad1, et. al , AL Burlingame1,4
MCP Papers in Press. Published on February 1, 2006 as Manuscript T500041-MCP200
#Burlingame2006_multipeptide_Table2synap.csv includes information regarding the 1008 unique phosphopeptides identified
postsynaptic density,
#Burlingame2006_singlepeptideTable4synap.csv includes information for all proteins identified by a single peptide.

best wishes,
Soeren Schandorff, Proxeon

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