Are PHI-base 4 interaction IDs violating their own uniqueness rules? #14
Description
The PHI-base curator guidelines state the following about PHI-base accession IDs in PHI-base 4:
One number corresponding to one gene of one organism (even if there is more than
one interaction) from one paper.
My understanding is that there is a one-to-one mapping between a PHI-base accession ID (PHI ID) and the following triple of data types:
(PMID, Pathogen NCBI Taxonomy ID, UniProtKB accession number)
So, when grouping by the above data types, I would expect there to be one PHI ID for each group. Instead, there are over 100 groups where there is more than one PHI ID (a one-to-many mapping), as shown in the table below.
@martin2urban Is there some other criteria for assigning PHI IDs that I'm missing, or is the data below a result of an error in the logic used to assign the IDs?
| PMID | Pathogen ID | Protein ID | PHI ID |
|---|---|---|---|
| PMID:10383767 | 5693 | D3JLB9 | PHI:2574, PHI:2595 |
| PMID:10807578 | 5476 | Q9P8U9 | PHI:162, PHI:485 |
| PMID:11038529 | 5116 | Q00580 | PHI:49, PHI:770 |
| PMID:11310744 | 40559 | Q9UW03 | PHI:202, PHI:1160 |
| PMID:12514128 | 318829 | Q875L7 | PHI:322, PHI:7226 |
| PMID:12744465 | 40559 | Q9C2Y1 | PHI:278, PHI:1028 |
| PMID:12828637 | 317 | Q79LY0 | PHI:992, PHI:7237 |
| PMID:15306011 | 13684 | Q5J4D6 | PHI:365, PHI:2267 |
| PMID:15811992 | 5518 | I1RF62 | PHI:712, PHI:3991 |
| PMID:16113260 | 28901 | H9L495 | PHI:607, PHI:613 |
| PMID:16113260 | 28901 | Q8Z4N6 | PHI:609, PHI:616 |
| PMID:16113260 | 28901 | Q8Z6M8 | PHI:610, PHI:623 |
| PMID:16272431 | 5270 | Q705V7 | PHI:526, PHI:1071 |
| PMID:16278459 | 5518 | I1RHS7 | PHI:723, PHI:727 |
| PMID:16278459 | 5518 | I1RSU2 | PHI:724, PHI:730 |
| PMID:16353549 | 5507 | Q2KN79 | PHI:522, PHI:2808 |
| PMID:16593517 | 317 | P11437 | PHI:3372, PHI:3442 |
| PMID:16622070 | 13684 | Q1L2E2 | PHI:595, PHI:2248 |
| PMID:17020577 | 13684 | A9Z1V6 | PHI:1083, PHI:2272 |
| PMID:17020577 | 13684 | Q00LS5 | PHI:1082, PHI:2271 |
| PMID:17189344 | 318829 | Q3Y5V5 | PHI:1018, PHI:2042 |
| PMID:17250832 | 29003 | A0ST42 | PHI:737, PHI:2329 |
| PMID:17353894 | 318829 | G4MQ72 | PHI:774, PHI:792 |
| PMID:17353894 | 318829 | G4MRZ0 | PHI:773, PHI:791 |
| PMID:17353894 | 318829 | G4MSX7 | PHI:772, PHI:797 |
| PMID:17353894 | 318829 | G4NF05 | PHI:776, PHI:802 |
| PMID:17353894 | 318829 | G5EH19 | PHI:780, PHI:787, PHI:808 |
| PMID:17353894 | 318829 | O42622 | PHI:775, PHI:794 |
| PMID:17379549 | 1047171 | A5H456 | PHI:867, PHI:1159 |
| PMID:17511023 | 1047171 | F9XG32 | PHI:838, PHI:839, PHI:840, PHI:841, PHI:842, PHI:843, PHI:844, PHI:845, PHI:846 |
| PMID:17555268 | 85558 | Q7BT38 | PHI:1001, PHI:1003 |
| PMID:17560817 | 5111 | A3KLI8 | PHI:1038, PHI:1039 |
| PMID:17624327 | 5693 | H2DQH1 | PHI:2576, PHI:3501 |
| PMID:17722701 | 5507 | A8QJI7 | PHI:1020, PHI:1022, PHI:2362 |
| PMID:18034832 | 318829 | G4NDE1 | PHI:1017, PHI:2067 |
| PMID:18705871 | 5507 | A6N6J8 | PHI:1021, PHI:2981 |
| PMID:19161356 | 5507 | J9MAX2 | PHI:1107, PHI:1108 |
| PMID:19454732 | 318829 | C4B8B9 | PHI:2137, PHI:3498, PHI:3499 |
| PMID:19459949 | 1047171 | F9XG32 | PHI:1149, PHI:1150, PHI:1152, PHI:1153, PHI:1154, PHI:1155, PHI:1156, PHI:1157, PHI:1158 |
| PMID:19520179 | 1047171 | C5J0G7 | PHI:1075, PHI:2126 |
| PMID:19520179 | 1047171 | C5MK57 | PHI:1072, PHI:2124 |
| PMID:19520179 | 1047171 | C6K2F1 | PHI:1074, PHI:2125 |
| PMID:19520179 | 1047171 | C6KEF4 | PHI:1073, PHI:2123 |
| PMID:19520179 | 1047171 | C6KEF5 | PHI:1076, PHI:2127 |
| PMID:19909822 | 5518 | I1RKF3 | PHI:2418, PHI:2419 |
| PMID:20153837 | 5270 | D2EAX7 | PHI:2582, PHI:2603 |
| PMID:20447276 | 5518 | I1RJS9 | PHI:2326, PHI:2491 |
| PMID:20601497 | 272952 | Q4VKJ6 | PHI:4253, PHI:4254, PHI:4255, PHI:4256, PHI:4257 |
| PMID:20618707 | 5518 | I1RM09 | PHI:2325, PHI:2502 |
| PMID:20675574 | 318829 | G4MS03 | PHI:2006, PHI:2008 |
| PMID:22028654 | 5518 | A0A098D1L0 | PHI:1499, PHI:1501 |
| PMID:22028654 | 5518 | A0A098DDX5 | PHI:1648, PHI:1650 |
| PMID:22028654 | 5518 | A0A098E396 | PHI:1505, PHI:1624 |
| PMID:22028654 | 5518 | A0A1C3YJ08 | PHI:1544, PHI:1545 |
| PMID:22028654 | 5518 | A0A1C3YMR5 | PHI:1903, PHI:1905 |
| PMID:22416226 | 5270 | Q4P380 | PHI:2586, PHI:3510 |
| PMID:22827542 | 5507 | H9C592 | PHI:2590, PHI:2611 |
| PMID:22835272 | 5599 | F8R4Y0 | PHI:2587, PHI:2608 |
| PMID:22841690 | 5037 | B2CQJ9 | PHI:2588, PHI:2609 |
| PMID:22902811 | 5599 | I3QHH8 | PHI:2585, PHI:2606 |
| PMID:23211925 | 272952 | G3C9S3 | PHI:4766, PHI:4767 |
| PMID:23734779 | 272952 | G3C9N8 | PHI:2946, PHI:4774 |
| PMID:23734779 | 272952 | G3C9Q9 | PHI:2945, PHI:4775 |
| PMID:23734779 | 272952 | G3C9T3 | PHI:2947, PHI:4773 |
| PMID:23734779 | 272952 | G3C9T8 | PHI:2944, PHI:4772 |
| PMID:23883358 | 100787 | S6G070 | PHI:3706, PHI:3707 |
| PMID:23937726 | 552 | D4HUY4 | PHI:3674, PHI:3680 |
| PMID:23937726 | 552 | D4HUY5 | PHI:3673, PHI:3679 |
| PMID:23937726 | 552 | D4HX89 | PHI:3675, PHI:3681 |
| PMID:23937726 | 552 | D4I0C5 | PHI:3676, PHI:3682 |
| PMID:23937726 | 552 | D4IAW2 | PHI:3672, PHI:3678 |
| PMID:23937726 | 552 | Q9X3T0 | PHI:3671, PHI:3677 |
| PMID:24261846 | 31870 | C9W7X1 | PHI:3933, PHI:9080 |
| PMID:24473076 | 5270 | G0X840 | PHI:3130, PHI:4051 |
| PMID:24722578 | 5518 | I1RA07 | PHI:4209, PHI:4236 |
| PMID:25166864 | 287 | Q9HWS6 | PHI:3211, PHI:3212 |
| PMID:25299517 | 318829 | G4MZS3 | PHI:3316, PHI:5605 |
| PMID:25299517 | 318829 | G4NGB1 | PHI:3311, PHI:5661 |
| PMID:25299517 | 318829 | G4NII8 | PHI:3307, PHI:3313 |
| PMID:26368514 | 305 | Q8XPQ6 | PHI:5129, PHI:5166 |
| PMID:26368514 | 305 | Q8XRK9 | PHI:5121, PHI:5163 |
| PMID:26368514 | 305 | Q8XYB9 | PHI:5141, PHI:5177 |
| PMID:26368514 | 305 | Q8XYE3 | PHI:5143, PHI:5179 |
| PMID:26368514 | 305 | Q8XYF8 | PHI:5133, PHI:5172 |
| PMID:26368514 | 305 | Q8Y164 | PHI:5139, PHI:5175 |
| PMID:26764912 | 106654 | A0A2T7FJE6 | PHI:5507, PHI:5522 |
| PMID:27226300 | 777 | Q83FB9 | PHI:6350, PHI:6355 |
| PMID:27322386 | 34373 | N1J7E2 | PHI:6352, PHI:6357 |
| PMID:27322386 | 34373 | N1JJH4 | PHI:6351, PHI:6356 |
| PMID:27613851 | 317 | Q887C1 | PHI:6727, PHI:6728 |
| PMID:27911947 | 632 | P17778 | PHI:6824, PHI:6830 |
| PMID:28715477 | 287 | A0A0H2ZGI5 | PHI:7297, PHI:7304 |
| PMID:28970272 | 813 | A0A0H3MCG4 | PHI:10157, PHI:10158 |
| PMID:29109173 | 28901 | D0ZWU0 | PHI:9831, PHI:9832, PHI:9833 |
| PMID:29970468 | 1311 | Q8E3H1 | PHI:8189, PHI:8190 |
| PMID:30042200 | 287 | A0A0H2Z8M3 | PHI:8252, PHI:8254 |
| PMID:30370586 | 27334 | A0A0A2JZB1 | PHI:8722, PHI:8724 |
| PMID:30379939 | 1314 | D4QE70 | PHI:8604, PHI:8605 |
| PMID:30642903 | 1280 | W8U4S5 | PHI:10293, PHI:10292 |
| PMID:30828283 | 347 | A0A0K0GGA9 | PHI:9012, PHI:9013 |
| PMID:30828283 | 347 | A0A0K0GHK1 | PHI:9016, PHI:9017 |
| PMID:30833360 | 1781 | B2HE54 | PHI:10154, PHI:10155 |
| PMID:31802604 | 5270 | A0A0D1E1M6 | PHI:11413, PHI:11415 |
| PMID:32678853 | 5476 | Q5ANH2 | PHI:10624, PHI:11159 |
| PMID:33200669 | 318829 | G4N713 | PHI:10874, PHI:10925 |
| PMID:33475797 | 746128 | B0XMW7 | PHI:11453, PHI:11454 |
| PMID:34151378 | 287 | Q9HX66 | PHI:11622, PHI:11623 |
| PMID:9100386 | 317 | O08243 | PHI:971, PHI:972 |
| PMID:9724634 | 5693 | Q94795 | PHI:2580, PHI:2601 |
| PMID:9768518 | 40559 | O94100 | PHI:103, PHI:1027 |