similarity_results.csv

Method,sparse_MF_correlation,sparse_CC_correlation,sparse_BP_correlation,sparse_Ave_correlation,200_MF_correlation,200_CC_correlation,200_BP_correlation,200_Ave_correlation,500_MF_correlation,500_CC_correlation,500_BP_correlation,500_Ave_correlation,sparse_MF_pvalue,sparse_BP_pvalue,sparse_CC_pvalue,sparse_Ave_pvalue,200_MF_pvalue,200_BP_pvalue,200_CC_pvalue,200_Ave_pvalue,500_MF_pvalue,500_BP_pvalue,500_CC_pvalue,500_Ave_pvalue
AAC,-0.0120530487301072,0.0912116785938685,0.2141018739428611,0.0977535012688741,,,,,,,,,,,,,,,,,,,,
APAAC,0.1716732195001037,0.240874262539882,0.2735843497262189,0.2287106105887349,,,,,,,,,,,,,,,,,,,,
LEARNED-VEC,0.4099830116701563,0.3051938408310146,0.2987112063885428,0.3379626862965713,,,,,,,,,,,,,,,,,,,,
PROTVEC,0.1854412229985308,0.2058335849333736,0.2952566916292122,0.2288438331870389,,,,,,,,,,,,,,,,,,,,
K-SEP,0.2222351644321201,0.2943533697632057,0.2924105791926405,0.2696663711293221,,,,,,,,,,,,,,,,,,,,
MUT2VEC,0.5462247913812742,0.3948878923766817,0.5799222876570942,0.50701165713835,,,,,,,,,,,,,,,,,,,,
GENE2VEC,0.1756222504801268,0.359607993537279,0.407953665862896,0.3143946366267673,,,,,,,,,,,,,,,,,,,,
XLNET,0.2270935836252544,0.2549405428464779,0.3090004241910071,0.2636781835542465,,,,,,,,,,,,,,,,,,,,
T5,0.5663605927245389,0.3984518032670328,0.2126939158889831,0.392502103960185,,,,,,,,,,,,,,,,,,,,
SEQVEC,0.4237953500744624,0.4242066438730631,0.2436484071644948,0.3638834670373401,,,,,,,,,,,,,,,,,,,,
TCGA-EMBEDDING,0.0375448135213401,0.5033396964743626,0.4822408636127631,0.3410417912028219,,,,,,,,,,,,,,,,,,,,
PFAM,0.3489483982233921,0.510730419386372,0.422215963284985,0.4272982602982497,,,,,,,,,,,,,,,,,,,,
CPC-PROT,0.0604542610865414,-0.0869798610000177,0.1090657842339456,0.0275133947734897,,,,,,,,,,,,,,,,,,,,
ESM1B,0.384697625027269,0.3731936223537567,0.4151856052080267,0.3910256175296842,,,,,,,,,,,,,,,,,,,,
BERT-BFD,0.2918631086847955,0.4157201514424359,0.3234845992693526,0.3436892864655279,,,,,,,,,,,,,,,,,,,,
BERT-PFAM,0.4964861293154893,0.2217707389039976,0.2068266617033433,0.3083611766409434,,,,,,,,,,,,,,,,,,,,
ALBERT,0.2218813721583892,0.3181002150766988,0.3690126305036619,0.3029980725795833,,,,,,,,,,,,,,,,,,,,
BLAST,0.1127460653100103,0.0884833522711429,0.3431671202767732,0.1814655126193088,,,,,,,,,,,,,,,,,,,,
HMMER,0.1373599246282869,0.3218542802568603,0.1577102930764373,0.2056414993205282,,,,,,,,,,,,,,,,,,,,
UNIREP,0.4213327475751828,0.3247590759614522,0.4695106024457135,0.4052008086607828,,,,,,,,,,,,,,,,,,,,
ESM2,0.2977856665086115,0.281050143088217,0.4273702754644458,0.3354020283537581,,,,,,,,,,,,,,,,,,,,
ESM3,0.5102468363444927,0.5762295810448107,0.4227236525442803,0.5030666899778612,,,,,,,,,,,,,,,,,,,,
SaProt,0.4031774477652035,0.3690662827280969,0.2418927575878248,0.3380454960270417,,,,,,,,,,,,,,,,,,,,
ProstT5,0.4474307637665665,0.4155957269059172,0.0806352476756064,0.3145539127826967,,,,,,,,,,,,,,,,,,,,
ProtHGT-TAPE-MF-sim,0.0676426208867526,0.2256642052045639,0.1130999435347261,0.1354689232086809,0.1046625870719076,0.0238279343234809,0.0698222676221539,0.0661042630058474,0.0562899711836086,0.0114963837042151,0.0325825354877617,0.0334562967918618,0.3081152026374549,0.0863172211631897,0.0006866785551513,0.131706367451932,7.887475622858088e-46,7.483266677192571e-21,0.0014920117291723,0.0004973372430574,2.3657666044607863e-79,2.7765463702827703e-27,0.0001444234657429,4.814115524765194e-05
ProtHGT-TAPE-BP-sim,0.4424859852307816,0.3767270633862561,0.2706400046729882,0.3632843510966753,0.2143909167941879,-0.0071818570350743,0.1447744236104239,0.1173278277898458,0.2117889857352714,-0.0018704341207202,0.0746192793045373,0.0948459436396961,2.134408374049528e-12,3.0576812552093345e-05,6.2630970437801054e-09,1.0194359261181831e-05,1.2912840671594308e-189,1.0829837680869216e-84,0.3384619390274673,0.1128206463424891,0.0,7.553382437897129e-136,0.5363729565044189,0.1787909855014729
ProtHGT-TAPE-CC-sim,0.2212604798497097,0.4630823969388991,0.1270186335403726,0.2704538367763271,0.085973478542632,0.1015261525058111,0.0479394582610972,0.0784796964365135,0.1162193876485697,0.0557492273127652,0.0472710508457386,0.0730798886023578,0.0007466654287222,0.0538726534837088,2.976628727273831e-13,0.0182064396375762,1.981044607509484e-31,1.3018414706922815e-10,6.331641278776996e-42,4.339471568974272e-11,0.0,1.4666915843160296e-55,5.904927474930695e-76,4.888971947720099e-56
ProtHGT-ProtT5-MF-sim,-0.0832921966964116,0.0739715532316429,0.0806411729200334,0.0237735098184215,0.028233518352841,0.0509639393305118,0.0725070354735275,0.0505681643856268,0.0190007028033543,0.0175142952144854,0.0615461153444059,0.0326870377874152,0.2092155749679086,0.2220934423524836,0.2713623773816051,0.2342237982339991,0.0001315086794027,2.2950062144651603e-22,1.0690947216718789e-11,4.38362300312305e-05,1.9885667942660566e-10,5.809733514866594e-93,6.533219975751238e-09,2.244025551725948e-09
ProtHGT-ProtT5-CC-sim,-0.1611683471066122,0.4360532056720397,0.2133199633949259,0.1627349406534511,0.0483196915996448,0.052080276149592,-0.0059642086679254,0.0314785863604371,0.028616800255214,0.0618820703296473,0.0550623536726336,0.0485204080858317,0.0146241248213838,0.0011054118617711,9.139771576546976e-12,0.0052431788974315,5.895216744065964e-11,0.424213195718257,3.758912026765176e-12,0.141404398593656,9.409658491972688e-22,9.30168819867313e-75,1.4364215564713362e-93,3.1365528306575642e-22
ProtHGT-ProtT5-BP-sim,0.4428227394002378,0.3422052738196235,0.3019071633014661,0.3623117255071091,0.1664744430958502,0.02445474411873,0.1203713554443648,0.1037668475529817,0.192658828730332,-0.0026714534349827,0.0996770164875359,0.0965547972609617,2.0449554563548134e-12,2.9653468953302774e-06,1.6007642027145069e-07,1.0418084535190616e-06,4.540350859830304e-114,6.22173661274808e-59,0.0011148671571486,0.0003716223857162,0.0,2.580401976701932e-241,0.3761626584621718,0.1253875528207239
ProtHGT-ESM2-BP-sim,0.3847551287560082,0.3351541804456603,0.219428921902685,0.3131127437014511,0.1301583536501021,0.0200412462911787,0.0698632597882439,0.0733542865765082,0.1473732693228525,0.0082744328947388,0.0419182893687102,0.0658553305287672,1.701138467467754e-09,0.0007852072573699,2.962547893906677e-07,0.0002618350710992,4.272817257694715e-70,7.102477664065676e-21,0.00787956261439,0.0026265208714633,0.0,4.639641168342781e-44,0.0064572489544018,0.0021524163181339
ProtHGT-ESM2-CC-sim,0.0813226344768319,0.3969562130997108,0.2426040226639927,0.2402942900801784,0.0470307960894307,0.1601992506561486,0.1060445981180016,0.1044248816211936,0.0429355692740338,0.1042126175585608,0.0670102492040006,0.0713861453455317,0.2202242874487431,0.000196844403589,7.79650991893396e-10,0.0734737108773277,1.8712185124405203e-10,4.5616763403531055e-46,2.2240916829917088e-101,6.237395041468401e-11,1.0416106246024928e-46,7.017346116826454e-110,2.923089565241652e-259,3.472035415341642e-47
ProtHGT-ESM2-MF-sim,0.0868915691545172,0.2241503194417992,0.1096828209271987,0.1402415698411717,0.1172293506892731,-0.0488488478445351,0.0639934841989273,0.0441246623478884,0.0802552419869001,-0.0026646079090276,0.0546650908307462,0.0440852416362062,0.1901309231001939,0.0963099565130155,0.0007476837906348,0.0957295211346147,4.054596222820034e-57,9.235887483558274e-18,9.179065125671576e-11,3.0596886830867746e-11,7.00116753370153e-159,1.0424809999179631e-73,0.3804494369525739,0.1268164789841913
ProtHGT-TAPE-sim,0.162571322934258,0.3788436899423446,0.1408730699585272,0.2274293609450433,0.1275519972633517,0.0532139726972253,0.0805145733501943,0.0870935144369238,0.0951652183848205,0.0275043259658933,0.0459752173293225,0.0562149205600121,0.0137743131590415,0.0323422958435411,5.069516408871396e-09,0.0153722046906997,2.2839880541708807e-67,3.243752781991338e-27,1.2714847676303249e-12,4.238282558767761e-13,8.763484360762092e-224,1.1923654894510878e-52,9.5652004262136e-20,3.1884001420712e-20
ProtHGT-ProtT5-sim,-0.0934327940603359,0.4167146406496182,0.2127358398722716,0.1786725621538513,0.053133156625212,0.0656871861781072,0.0523244307275043,0.0570482578436079,0.0428466022625695,0.0511287699496268,0.0786334438219018,0.057536272011366,0.1587636030873938,0.0011416046342326,8.854282395819451e-11,0.053301735936723,6.048628196921009e-13,2.2897060229736265e-12,1.8804127047153322e-18,9.648569076928106e-13,1.0334402001368028e-46,1.1107962777542873e-150,1.9643107021904622e-64,3.444800667122676e-47
ProtHGT-ESM2-sim,0.16378143954912916,0.38159119240957806,0.21042855195778737,0.2519337279721649,0.12113896355194584,0.06865639492264644,0.09517753505562324,0.09499096451007183,0.0901291725605845,0.06448500618634291,0.07343385649042149,0.07601601174578297,0.013076438537061833,0.00129545911264789,3.844079424476974e-09,0.00479063383126305,6.76333177414913e-61,2.0783151724625092e-37,8.034805491770392e-20,2.6782684972567974e-20,5.2055994770096916e-200,1.2837985227281428e-131,3.467509401898833e-100,1.155836467299611e-100