Table 2.
Impact of considering amino acid modifications on the total number of identified proteins, peptides, and iTRAQ labeling.
| 144KNt | 144KNt_144Y | 144KNt_144C | 144KNt_14K | 144KNt_42K | 144KNt_43K | 144KNt_48C | 144KNt_16M | |
|---|---|---|---|---|---|---|---|---|
| 1. Total proteins (p<0.001) # | 183 | 199 | 179 | 182 | 198 | 193 | 183 | 184 |
| 2. Total peptides # | 3526 | 3760 | 3512 | 3498 | 3609 | 3632 | 3536 | 3616 |
| 3. Total Nt labeled # | 3333 | 3529 | 3338 | 3253 | 3372 | 3407 | 3350 | 3417 |
| 4. Nt labeled % | 95 | 94 | 95 | 93 | 93 | 94 | 95 | 94 |
| 5. Total K residues # | 4268 | 4607 | 4252 | 4385 | 4497 | 4602 | 4292 | 4413 |
| 6. K iTRAQ labeled # | 4145 | 4431 | 4127 | 4081 | 4183 | 4250 | 4172 | 4272 |
| 7. K iTRAQ labeled % | 97 | 96 | 97 | 93 | 93 | 92 | 97 | 97 |
| 8. Additional AA residues # | 2230 | 166 | 4385 | 4497 | 4602 | 171 | 1213 | |
| 9. Additional AA labeled # | 254 | 46 | 181 | 171 | 192 | 28 | 131 | |
| 10. Additional AA labeled % | 11 | 28 | 4 | 4 | 4 | 16 | 11 | |
| 11. Peptides w. labeled AA # | 245 | 45 | 139 | 134 | 165 | 21 | 124 | |
| 12. Peptides w. labeled AA % | 6.5 | 1.3 | 3.9 | 3.7 | 4.5 | 0.6 | 3.4 | |
| 13. Peptides w. labeled AA (p<0.001) | 118 | 10 | 2 | 15 | 36 | 0 | 38 |
Note 1: AA stands for amino acid.
Note 2: The 144Y and 144C conditions involve additional labeling of only internal Y and C (N-terminals are assumed to be labeled).