The iSRM workflow development process is iterative. The preliminary method is used to acquire data, which is in turn used to refine the method. Pinpoint software also provides tools for evaluating this preliminary data. The target peptides that show the best responses are retained while target peptides that do not show good responses are removed from the final iSRM method. This ensures that the limited, fixed cycle time is used to analyze only peptides that provide high-quality results.

• Easy import and processing of panels of targeted proteins/peptides selected from discovery experiments
• Automated searching of user-created and public (e.g. Peptide Atlas) MS/MS spectral libraries, or in-silico prediction of target peptides for hypothesis-driven experiments
• Automated selection of the most abundant precursor and product ions, with highly accurate, automated determination of optimal collision energies for SRM transitions
• Flexible method design that can integrate high-resolution precursor selection, timed acquisition, and full MS/MS scans (QED) into SRM assays
• Spectral matching capabilities between experimental and library data provides unique correlation analysis with probability scoring for targeted peptide verification with high confidence.
• Customizable reports that can integrate discovery results with relative and absolute quantitation results
• Easy result export for method refinement for subsequent qualitative and quantitative experiments

• Proteome Discoverer software

• SIEVE software

• TSQ family of triple quadrupole mass spectrometers

• HeavyPeptide AQUA custom heavy peptides

• SILAC reagents and kits

• Tandem Mass Tags (TMT)