Datasets:

ksdrew
/

humap3

Test and training sets: Complexes from the ComplexPortal are split randomly into test and training sets. Due to redundancy in benchmark and to ensure disjoint test and training sets, complexes with pairs of proteins that overlap between test and training are removed. Positive ppis for both test and training sets are then generated by all pairs present in the same complex. Negative ppis for both test and training are generated by all pairs in separate complexes.

List of training complexes: ComplexPortal_reduced_20230309.train.txt
List of test complexes: ComplexPortal_reduced_20230309.test.txt
List of train positive ppis: ComplexPortal_reduced_20230309.train_ppis.txt
List of train negative ppis: ComplexPortal_reduced_20230309.neg_train_ppis.txt
List of test positive ppis: ComplexPortal_reduced_20230309.test_ppis.txt
List of test negative ppis : ComplexPortal_reduced_20230309.neg_test_ppis.txt

Files changed (6) hide show

ComplexPortal_reduced_20230309.neg_test_ppis.txt +0 -0
ComplexPortal_reduced_20230309.neg_train_ppis.txt +0 -0
ComplexPortal_reduced_20230309.test.txt +432 -0
ComplexPortal_reduced_20230309.test_ppis.txt +3312 -0
ComplexPortal_reduced_20230309.train.txt +434 -0
ComplexPortal_reduced_20230309.train_ppis.txt +3314 -0

ComplexPortal_reduced_20230309.neg_test_ppis.txt ADDED Viewed

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ComplexPortal_reduced_20230309.neg_train_ppis.txt ADDED Viewed

The diff for this file is too large to render. See raw diff

ComplexPortal_reduced_20230309.test.txt ADDED Viewed

	@@ -0,0 +1,432 @@

+P01127 P09619
+P30926 Q15822
+Q92794 P55201 Q8WYH8 Q9HAF1
+Q00535 Q13319
+P42336 O00459
+P14678 P62308 P62318 P62316 P62304 P62314 P62306
+O75886 O14964
+O15269 Q969W0 Q9NUV7
+Q16520 Q9NR55
+O75143 Q9BSB4 Q8TDY2 O75385
+Q9NR55 P18847
+Q8N684 O43809
+P48549 P48544
+P52294 Q14974
+Q9Y2Z9 Q99807 O75208 Q5HYK3 Q9NZJ6 Q9Y3A0
+P35638 O14867
+P13942 P12107 P02458
+O75899 Q9UBS5
+O15066 Q9Y496
+O60896 Q16602
+P62072 Q6PF06 Q53H12 Q9Y584 Q9BSF4 Q9Y5J7
+P62072 Q9Y5J7
+Q9NV96 O94823
+Q14457 Q6ZNE5 Q99570 Q8NEB9
+Q16520 Q16649
+Q9NR55 P49716
+P42224 Q00978 P52630
+P01860 A0M8Q6
+Q8TF05 P60510
+P24941 P78396
+P17301 P05556
+Q9NV96 Q9NTI2
+Q9H4D5 Q9UKK6
+O15525 P18847
+Q9NY27 P60510
+Q9NTJ3 P42695 O95347 Q86XI2 Q6IBW4
+Q9NR55 P05412
+P15336 P15408
+Q16520 P49716
+Q9H974 Q9BXR0
+O14867 O75444
+P01834 P01880
+P05412 Q8N1L9
+P49715 P18847
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+Q96JB2 Q9H9E3 Q8WTW3 Q96MW5 P83436 Q14746 Q9Y2V7 Q9UP83
+Q96NY9 A4GXA9
+P19793 Q15596
+P46937 P28347
+P42229 P51692
+Q6P1K2 Q9H410 Q9H081 Q96IY1
+P47870 O14764 Q16445
+C4AMC7 Q12768 Q9Y3C0 Q2M389 Q9Y4E1
+P01876 A0M8Q6
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+P49715 Q9Y2D1
+Q00653 Q01201
+Q9H0R6 O75879 O43716
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+O60675 Q9BYV9
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+P42336 Q92569
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+O75636 O00187
+Q9P0L0 P22059
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+O75444 Q9BYV9
+P01877 P0CG04
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+Q96BI3 Q92542 P49810 Q9NZ42
+P07814 P54136 Q13155 Q12904 P56192 Q9P2J5 P47897 Q15046 P41252 O43324 P14868
+P35638 Q16520
+P05023 P05026 P54710
+O43264 Q6NUQ1 A2RRP1
+Q14118 Q9NSN8 O43556 O60941 P11532 Q13424 Q96LD1
+Q8NCA5 Q92499 Q9Y3I0 Q52LJ0 Q9Y224 Q9BVC5 Q8IWT0
+P26717 Q13241
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+Q9NR55 P18848
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+Q05586 Q12879
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+Q9Y230 Q96MX6 Q9NUG6 L0R819 Q9H6T3 O15212 P19388 O94763 Q9UBK9 Q9UHV9 Q9NWS0 Q9Y265
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+O00499 P01106
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+P10415 Q9BXH1
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+Q05586 O15399
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+Q6N069 P41227
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+A6NHX0 Q8WTX7
+O75528 O75529 Q14CW9 Q92830 Q9Y4A5 O00268 Q9NPA8 Q15545 Q15542 O75486 Q6P1X5 Q16514 Q9UPT9 Q16594 O15265 P49848 Q12962
+O95264 P46098
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+P18848 O43889
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+Q9UI30 Q9NRN9
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+P01871 A0M8Q6
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+P49715 P18848
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+O75496 D6RGH6
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+Q14790 Q13158 Q13546
+P18847 P01100
+Q9Y5J9 Q9Y5L4
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+P48740 O75636
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+P40763 Q14765
+Q13794 Q07820
+P49354 P49356
+P35638 Q9NR55
+P01880 P0DOY3
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+Q9BVA0 Q8IYT4
+O95628 Q9H9A5 Q92600 O75175 Q9ULM6 Q9NZN8 Q9C0C2 Q9UKZ1 Q9UIV1 A5YKK6
+O75496 Q9H211
+Q9H074 Q14103 P11940 O60506 O75534
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+Q9Y5R8 Q8IUR0 Q7Z392 Q8WVT3 O43617 P0DI82 O75865 Q9UL33 Q9Y2L5 Q9Y296
+Q16534 Q8N1L9
+P01861 P0CF74
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+O14867 P17544
+Q9NPJ8 Q9H1B4
+P18848 Q16236
+O43520 Q9NV96
+P18848 Q8N1L9
+Q04864 P19838
+P29460 Q9NPF7
+Q9Y6Z7 O00187 Q9BWP8
+Q15788 P19793
+O15525 O14867
+P62158 P51787
+P01859 P0CF74
+Q8N1B4 Q9UID3 Q9P1Q0 Q5VIR6
+P07359 P40197 P14770 P13224
+P56645 Q16526
+P35659 O75533 Q9NR30 Q9UIG0 Q9BQG0 O00159 Q03468 O60264
+Q9H9S4 Q7RTN6 Q15831
+P15336 P18848
+P27658 P25067
+Q14031 P29400
+P61326 Q9Y5S9
+P52630 P42226
+P48740 P11226
+Q9BQ95 Q9Y375 Q8IUX1 Q9GZY4 Q96B77 Q9H845
+P18848 Q9Y5Q3
+O14867 Q9Y5Q3
+P16220 P18848
+P05787 P05783
+Q96E22 Q86SQ9
+P00488 P05160
+Q13485 Q15796
+P01215 P01222
+P24863 P49336
+P48382 O00287 O14593
+P01871 P0CG05
+O15212 Q9NQP4 O60925 Q9UHV9 Q99471 P61758
+Q9NR55 Q16534
+P07942 Q9Y6N6 P24043
+Q15054 Q9UI95 P49005 O60673
+Q49AN0 O15055
+Q96GM5 Q12824 Q6STE5 Q8WUB8 P51531 O96019 Q8TAQ2 P60709 Q969G3 Q92922 Q8NFD5
+Q14714 Q9Y4J8 Q13424 Q13326 Q14118 Q92629 Q13884 Q16585 P46939 Q16586
+P01859 P01834
+P98161 Q13563
+O43482 Q6P0N0 Q9NYP9
+P35638 P18848
+Q96I99 P53597
+Q14494 P17544
+Q07817 Q92934
+P05556 O75578
+P01877 A0M8Q6
+O15131 Q14974
+P10415 P55957
+P10070 Q9UMX1
+P19793 P55055
+Q9UI30 Q96BT7
+Q92902 Q9NQG7
+P01579 O60674 P15260 P23458 P38484
+P47870 O14764 P48169
+O00187 Q15485
+Q9Y490 P18206
+Q15788 P10276
+Q92837 P49841
+Q9NSD9 Q9Y285
+Q16520 Q14494
+Q96A33 Q9Y284
+O14964 Q92783
+Q8TEP8 O00444
+P18848 P18846
+P35638 Q8N1L9
+O00566 Q9NV31 Q96G21
+Q9H1I8 Q8N3C0 Q15650
+P20248 P24941
+Q147X3 Q5VZE5 Q9BRA0
+P49368 P50990 P48643 P40227 P50991 P17987 P78371 Q99832
+P08603 P01024 P0C0L5 P06681
+P0DOY3 P01854
+P01857 A0M8Q6
+Q3MIR4 P98198
+O60894 P30988
+Q8N4P2 Q8IY31 Q9Y547 A0AVF1 Q96AJ1 Q9NQC8 Q13099 Q9H7X7 Q9BW83 Q8WYA0 Q96LB3 Q9UG01 Q9P2H3 Q9NWB7 Q9Y366 Q8TDR0
+Q9BXJ7 O60494
+Q9NUG6 Q9UBK9 O15212 O94763 Q9UHV9
+Q9BYV9 Q9Y5Q3
+P01100 P17544
+O14867 P01100
+Q8IV16 P06858
+P48740 Q15485
+Q08379 Q9BQQ3
+P01861 P0DOY3
+O75818 P78346 P78345 O95707 O75817 Q969H6 Q9BUL9 Q99575
+Q16520 P53567
+O96008 Q96B49 Q9NS69 O94826 Q9P0U1 Q8N4H5 Q15388
+P56282 Q9NR33 Q07864 Q9NRF9
+Q00536 Q8ND76
+Q9BYV9 Q14494
+O94817 Q9H1Y0
+Q9H079 Q8IYT4
+P05556 Q9UKX5
+P17676 P18847
+P40763 P42224
+O00327 O15516
+P53420 Q01955 P29400
+P08240 Q9Y5M8
+Q16630 O43809
+Q9HCI7 Q68DK7 Q8N5Y2 Q9H7Z6
+P01857 P0CG05
+Q8TBF5 Q9H3S5
+O43837 P50213 P51553
+P15336 P15407
+Q8IYI0 Q9UI95 Q6ZNX1 Q86V20
+O60603 Q15399
+Q9NPJ8 Q9UBU9
+P17787 P36544
+P01229 P01215
+P49715 Q8N1L9
+Q13349 P05107
+O14893 Q9UHI6 Q8WXD5 Q9Y3F4 Q8TEQ6 Q16637 Q9NWZ8 Q9H840 P57678
+P01834 P01871
+Q9UN37 O75351
+Q15744 Q9Y2D1
+Q13404 P61088
+P08238 Q16543
+Q9ULX9 O14867
+P68871 P69905
+Q9BV44 Q9UI30
+P21127 Q9UK58
+P01106 P61244
+P41743 Q8TEW0 Q9NPB6
+P34903 P18507 P28472
+O95149 Q14974
+P16234 P04085
+Q10567 O43747 P56377 Q9BXS5
+Q9BXR5 Q15399
+Q14493 A9UHW6
+O00505 Q14974
+Q86U28 Q5T440
+P53384 Q9Y5Y2
+P53611 Q92696
+Q9Y6J6 Q12809
+Q15477 Q6PGP7 Q9GZS3
+P0CG04 P01857
+P15336 P35638
+P55211 P99999 O14727
+P01877 P0DOY3
+P20248 P06493
+Q15131 Q8N1B3
+Q10567 O43747 Q9Y6Q5 P61966
+O94973 P53680 Q96CW1 P63010
+Q9Y6Z7 P48740 Q9BWP8
+P17275 P17544
+P16144 P23229
+P0CG04 P01854
+Q9Y2C9 O00206
+Q9Y6K9 O15111 O14920
+Q15744 P18848
+O00187 O00602
+O15269 Q9NUV7 Q8NFR3
+Q9UBE0 Q9UBT2
+P60903 P07355
+P46531 Q92585 Q06330
+P18848 P49716
+Q8IXJ9 Q92560
+Q9UPY3 Q9UKV8 Q15633
+O14617 Q92572 O00203 Q9Y2T2
+P18848 Q9NS37
+Q6UVJ0 Q15468 Q9HC77
+Q9NV96 O60312
+Q9NV96 Q8TF62
+P48507 P48506
+P01860 P0CG05
+P01130 Q8NBP7
+P42336 P27986
+Q9BPX3 Q9NTJ3 Q15003 O95347 Q15021
+Q9P0J1 Q8NCN5
+P05997 P20908
+Q15825 P32297 P17787 Q05901
+Q96E14 Q9H9A7 P54132 Q13472
+P01861 P0CG05
+P00749 P05121
+P27986 P42338
+O43520 Q3MIR4
+P0CF74 P01880
+Q15744 P18847
+P01871 P0DOY3
+Q9BUR5 Q16891 Q9BRQ6 Q5TGZ0 Q5XKP0 Q6UXV4 Q9NX63
+Q13765 P20290
+O15372 O15371 Q13347 Q7L2H7 O75821 O75822 O00303 P60228 Q14152 Q9UBQ5 P55884 Q99613 Q9Y262
+O60762 Q9P2X0 O94777
+P48740 O00602
+Q9BVA0 O75449
+P17787 Q15822
+P12694 P09622 P21953 P11182
+P32297 P17787
+P05556 P56199
+Q03405 P00749
+Q9UBU9 Q9UKK6
+Q9NR55 Q9BYV9
+Q16520 Q9Y2D1
+P11498 P40925 P48163
+P05412 P17544
+Q13535 Q8WXE1
+Q02153 P33402
+P07358 P07357 P13671 P01031 P07360 P02748 P10643
+Q9Y5N5 Q9UI30
+P15336 P01100
+P25205 P33992 P33991 P33993 P49736 Q14566
+P29460 P29597 Q9NPF7 O60674 P42701 Q5VWK5
+P55268 Q9Y6N6 O15230
+P43246 P20585

ComplexPortal_reduced_20230309.test_ppis.txt ADDED Viewed

	@@ -0,0 +1,3312 @@

+P62310	P62316
+P54646	Q9Y478
+Q96DE5	Q9UJX4
+Q15543	Q15545
+P82933	Q92552
+P62310	Q8WVK2
+O75865	Q8IUR0
+O15235	P82912
+P61803	Q9NRP0
+Q13099	Q9Y366
+O15371	Q9Y262
+P07919	P31930
+P62072	Q9Y584
+O95149	Q14974
+O94826	Q96B49
+P09669	P10606
+O15212	O94763
+O60675	Q9BYV9
+P13073	P24311
+Q8N2Z9	Q9NSP4
+A0AVF1	Q9NQC8
+O15372	P60228
+P82921	Q9Y291
+Q96B26	Q9NQT5
+P82912	Q92552
+Q03188	Q6IPU0
+P82664	Q96BP2
+P62310	Q9BTD8
+Q15029	Q96DI7
+P01876	P0CG04
+Q16891	Q9BUR5
+P51398	Q9Y3D9
+O75643	Q8WWY3
+O00602	P48740
+P01876	P0DOY3
+P62314	Q9BTD8
+Q96EY7	Q9Y399
+A0M8Q6	P01857
+P09012	Q15029
+O75643	O94906
+Q9Y3D5	Q9Y3D9
+O94906	P14678
+O14867	O60675
+P00414	P09669
+Q9BYV9	Q9Y4A8
+Q8TEQ6	Q8WXD5
+Q6IPU0	Q9BS16
+O43747	P56377
+Q5UCC4	Q9BV81
+P17275	Q8N1L9
+Q96EL2	Q9Y2R5
+P00156	P31930
+P00749	Q03405
+Q71F23	Q8N0S6
+P49841	Q92837
+Q9UK45	Q9Y333
+A8MT69	Q92674
+O00483	P14406
+Q13326	Q13884
+Q53GS9	Q9Y4Y9
+Q96FH0	Q9BQD3
+P51398	P82921
+O94906	Q9Y333
+P62306	Q6P2Q9
+Q7L2H7	Q99613
+Q06330	Q92585
+P22695	P31930
+P00156	P47985
+Q9UIV1	Q9ULM6
+O60941	P11532
+P82650	P82930
+Q13326	Q14118
+Q15543	Q15544
+P82933	Q96EL2
+Q6IPU0	Q7L2Z9
+Q8N4V1	Q9BV81
+P82912	Q9Y2R9
+P82914	Q9Y2R5
+P51398	Q9Y3D5
+P20226	Q16514
+Q13409	Q14204
+O43172	Q8WVK2
+O95628	Q9UKZ1
+P54136	Q12904
+Q9Y3D3	Q9Y3D5
+Q13042	Q9H1A4
+Q8IY31	Q9NQC8
+Q9NQT4	Q9Y3B2
+P83876	Q9Y4Z0
+P78537	Q9BQD3
+P00403	P15954
+P11532	Q96LD1
+P40227	P48643
+O00459	P42338
+P82914	P82921
+P00395	P12074
+O60674	P23458
+Q8N4P2	Q8WYA0
+Q13352	Q9H3R5
+Q14CW9	Q15542
+Q14686	Q6ZW49
+P31930	P47985
+P82673	Q96BP2
+O95347	Q15021
+O43292	Q969N2
+Q9H6T3	Q9UBK9
+O95777	Q6P2Q9
+Q15906	Q9GZN1
+O75175	Q9UKZ1
+P46939	Q16585
+P01031	P10643
+P61758	Q99471
+O43290	O75643
+Q6P1M3	Q92796
+O75821	P55884
+Q9Y399	Q9Y3D3
+O43172	O95777
+Q96B45	Q9BQD3
+Q13075	Q9ULZ3
+P82663	Q9Y676
+P82675	Q9BYN8
+P51398	Q9BYN8
+Q92922	Q969G3
+O95777	P62308
+Q15542	Q7Z7C8
+P51531	Q8WUZ0
+O95777	P62306
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ComplexPortal_reduced_20230309.train.txt ADDED Viewed

	@@ -0,0 +1,434 @@

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ComplexPortal_reduced_20230309.train_ppis.txt ADDED Viewed

	@@ -0,0 +1,3314 @@

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