Table 4.
Collagen Identifications
| Gene Name |
MW. | ID. Count Avg. Sequence |
Coverage | Avg. Unique Peptides |
Norm. Spectral Intensity |
|||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Rank | Accession | Collagen Chain | Type | (kDa) | N | I | IIb | N | I | IIb | N | I | IIb | I/N | IIb/I | |
| 1 | IPI00188909 | COL1A1 | alpha-1(I) | Fibrillar | 138 | 4 | 4 | 4 | 56% | 54% | 51% | 59 | 54 | 50 | 0.79 *** | 0.97 |
| 2 | IPI00188921 | COL1A2 | alpha-2(I) | Fibrillar | 130 | 4 | 4 | 4 | 53% | 51% | 53% | 50 | 45 | 48 | 0.80 | 1.11 |
| 3 | IPI00366944 | COL3A1 | alpha-1(III) | Fibrillar | 139 | 4 | 4 | 4 | 47% | 48% | 45% | 51 | 49 | 51 | 1.04 | 0.99 |
| 207 | IPI00780087 | COL4A1 | alpha-1(IV) | 3D-Network | 161 | 4 | 4 | 4 | 5% | 4% | 5% | 5 | 4 | 5 | 1.05 | 0.93 |
| 91 | IPI00365380 | COL4A2 | alpha-2(IV) | 3D-Network | 168 | 4 | 4 | 4 | 10% | 11% | 8% | 12 | 12 | 10 | 1.01 | 1.05 |
| 129 | IPI00201608 | COL5A1 | alpha-1(V) | Fibrillar | 184 | 4 | 4 | 4 | 7% | 6% | 6% | 7 | 8 | 7 | 0.87 | 0.92 |
| 118 | IPI00366945 | COL5A2 | alpha-2(V) | Fibrillar | 145 | 4 | 4 | 4 | 11% | 12% | 11% | 9 | 10 | 9 | 1.37 | 0.81 |
| 419 | IPI00199738 | COL5A4 | alpha-4(V) | Fibrillar | 172 | 4 | 4 | 4 | 2% | 3% | 2% | 3 | 3 | 3 | 2.41 | 0.59 |
| 45 | IPI00371853 | COL6A1 | alpha-1(VI) | Microfibril | 109 | 4 | 4 | 4 | 21% | 16% | 18% | 17 | 13 | 15 | 0.43 * | 1.27 |
| 62 | IPI00372839 | COL6A2 | alpha-2(VI) | Microfibril | 110 | 4 | 4 | 4 | 15% | 11% | 11% | 16 | 12 | 13 | 0.33 ** | 1.40 |
| 4 | IPI00565677 | COL6A3 | alpha-3(VI) | Microfibril | 288 | 4 | 4 | 4 | 27% | 25% | 23% | 70 | 59 | 58 | 0.46 ** | 1.17 * |
| 253 | IPI00765205 | COL6A3 | alpha-3(VI) | Microfibril | 240 | 3 | 4 | 4 | 36% | 27% | 23% | 2 | 4 | 3 | 1.44 | 0.93 |
| 843 | IPI00778143^ | COL6A6 | alpha-6(VI) | Microfibril | 247 | 0 | 2 | 0 | - | 2% | - | - | 3 | - | Up | Down |
| 64 | IPI00767686 | COL7A1 | alpha-1(VII) | Anchoring | 295 | 4 | 4 | 4 | 7% | 11% | 10% | 14 | 26 | 25 | 6.36 ** | 0.86 |
| 312 | IPI00189714^ | COL12A1 | alpha-1(XII) | FACIT | 342 | 4 | 4 | 4 | 1% | 2% | 2% | 3 | 4 | 6 | 2.33 | 1.05 |
| 6 | IPI00360766^ | COL14A1 | alpha-1(XIV) | FACIT | 192 | 4 | 4 | 4 | 31% | 31% | 31% | 47 | 46 | 45 | 0.77 | 1.26 * |
| 54 | IPI00364868^ | COL15A1 | alpha-1(XV) | Multiplexin | 138 | 4 | 4 | 4 | 8% | 8% | 7% | 11 | 11 | 10 | 0.59 ** | 0.83 |
| 474 | IPI00191320^ | COL17A1 | alpha-1(XVII) | TM. | 144 | 2 | 4 | 2 | 1% | 4% | 3% | 3 | 4 | 4 | 1.80 * | 0.70 |
| 121 | IPI00214859^ | COL18A1 | alpha-1(XVIII) | Multiplexin | 157 | 4 | 4 | 4 | 5% | 5% | 3% | 9 | 10 | 7 | 0.91 | 0.54 * |
^
() peptides match to additional IPI entries
*
() P < 0.05
**
() P < 0.01
***
() P < 0.001
ID Count= number of runs, out of the four experiments, in which a protein was identified. Norm. Spectral Intensity=summed intensity of MS/MS product ions for all spectra mapped to a given protein normalized by molecular weight.