ProteoRed WG1-WG2 Meeting

Pamplona, December 10th 2013

PME10 PROPOSALS

MSRT1 SIGMA-ALDRICH

TASK M5 M6 M7 M8 M9 M10 M11

STD1: Selection of a peptide standard for normalization of LC retention times (PME10)

STD2: Definition of chromatographic conditions and analysis of the standard.

STD3: Selection and preparation of a target test sample (peptides, cell extract)1.

STD4: SRM analysis of standard spiked sample.

STD5: Data analysis

STD6: Data sharing and final evaluation meeting (ProteoRed PME10)

TASK M5 M6 M7 M8 M9 M10 M11

STD1: Selection of a peptide standard for normalization of LC retention times (PME10)

STD2: Definition of chromatographic conditions and analysis of the standard.

STD3: Selection and preparation of a target test sample (peptides, cell extract)1.

STD4: SRM analysis of standard spiked sample.

STD5: Data analysis

STD6: Data sharing and final evaluation meeting (ProteoRed PME10)

1. Select a cell extract and SRM transitions already described in the consortium.

Objectives:

1) Test Rt standards for SRM methods inter-platform interchangeability

2) Multilaboratory test targeted quantification of Chr16 proteins

Experiment Design:

- Sample: total lysate extract of a model cell line in SpHPP-Chr16 ?

- SRM SpHPP validated methods

- Rt stds- Internal / External - Different gradient lenghts 30-60-90 min

- Labeled peptide standards for selected proteins -> absolute quantitation

PME10