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ABRF's Informatics Group Seeks Participants for Study on Phosphopeptides and Phosphorylation Sites

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This story originally ran on Oct. 21.

The Proteome Informatics Research Group of the Association of Biomolecular Reference Facilities this week called for participants for its 2010 study evaluating the ability of proteomics laboratories to identify phosphopeptides and localize the phosphorylation sites.

In a statement announcing the study, iPRG said that the literature is increasingly being populated with LC-MS/MS phosphoproteomic studies containing thousands of phosphopeptide identifications accompanied by both precisely and not-so-precisely localized phosphorylation sites.

"Since each peptide is often the only peptide observed for a particular protein, both confident identification of the peptide and accurate localization of the site(s) of phosphorylation to particular Ser, Thr, Tyr, or His residues is one of the major challenges in proteome informatics," iPRG said.

For its study, whose results will be unveiled at the annual ABRF conference in March, an LC-MS/MS dataset from a lysate digested with trypsin and enriched with phosphopeptides using strong cation exchange fractionation followed by immobilized metal affinity chromatography will be provided.

Participants will receive detailed instructions and passwords to access the mass spectral data in several formats, a reference to a Fasta formatted protein sequence dataset, and a template for reporting study results.

Along with a final list of identified peptides and phosphorylation sites, participants will be asked to complete a web-based questionnaire about methods used to obtain the results.

Those interested in participating should send an e-mail to [email protected] before Nov. 30. "iPRG Study 2010 request" should be in the subject line. The study is open to ABRF members and non-members but because of the limited number of samples, priority will be given to members.

iPRG anticipates distributing the samples in mid-November. Results should be returned by Jan. 11, 2010.

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