1. Amine specific peptide reactive group (NHS)
Quantitation by iTRAQ and TMT
Balance group mass
31-28 (neutral loss)
13C 18O (+3)
18O (+2)
13C (+1)
(+0)
Amine specific peptide reactive group (NHS)
Reporter group mass
(retains charge)
m/z 114 (+1) 13C
m/z 115 (+2) 13C2
m/z 116 (+3) 13C2 15N
m/z 117 (+4) 13C3 15N
Isobaric tag
Total mass 144

2. iTRAQ 8-plex

3. Tandem Mass Tags (TMT)

4. Participants Laboratory Instrument Search Engine CIMA QTOFµ Masot CIPF
QSTAR
ProteinPilot
CNB
MALDI TOFTOF 4800
Phenyx
ICS
INIBIC
LP-CSICUAB
LTQ
Sequest
PCB
MALDI TOFTOF 4700
Orbitrap
CMU (TMT)
(R1, R2, offgel) R2
Quixote
UCM-PCM
UCO (2)
UPF
18 Data sets

5. Results Not all protein data was submitted in the excel files.
The total number of unique peptide sequences within each data set are Of these sequences are unique in all the data sets.
# of peptides
Only 3 peptides found in 15 data sets: 1 from CYC, 1 from MYG and the other from Ecoli.
Data sets

6. Results

7. Results

8. Results

9. Results
MALDI TOFTOF
Q TOF
Orbitrap
LTQ
TMT
# of peptides
Data Set

10. Results

11. Results Ratio A/B Data Set Mascot Phenyx ProteinPilot Sequest TMT
Quixote
Ratio A/B
Data Set

12. Results
MALDI TOFTOF
Q TOF
Orbitrap
LTQ
TMT
Ratio A/B
Data Set