Post-translational modification (PTM) identification
Identify and analyze PTMs in large-scale, 12 hour minimum ($564 internal, $720 external) per project.
1. List of modified and unmodified peptides with mass-shifts
Identify modified peptides along with the unmodified counterparts.
- Deliverables:
- reports generated by MODa (mass-shifts and peptide-spectral matches)
- Tools Used:
- MODa: (http://prix.hanyang.ac.kr/download/moda.jsp) used to identify mass-shifts on given peptides
2. Mapping mass-shifts to post-translational modifications and substitutions
Mapping the mass-shifts identified in step 1. to actual post-translational modifications and/or substitutions
- Deliverables:
- Mass-shift to PTM mapping
- Tools Used:
- ABRF delta mass: (https://www.abrf.org/index.cfm/dm.home?AvgMass=all ) used to identify PTMs mapping to mass-shifts identified above (i.e., 80 Dalton mass-shift on Serine indicates phosphorylation)
- ABRF delta mass: (https://www.abrf.org/index.cfm/dm.home?AvgMass=all ) used to identify PTMs mapping to mass-shifts identified above (i.e., 80 Dalton mass-shift on Serine indicates phosphorylation)
3. Comprehensive list of all modified peptides
List of all peptides mapped to proteins along with the site of modification (i.e., Serine phosphorylation)
- Deliverables:
- Excel file that has list of all modified peptide-spectral matches
