Method,sim_sparse_MF_correlation,sim_sparse_MF_pvalue,sim_sparse_CC_correlation,sim_sparse_CC_pvalue,sim_sparse_BP_correlation,sim_sparse_BP_pvalue,sim_sparse_Ave_correlation,sim_sparse_Ave_pvalue,sim_200_MF_correlation,sim_200_MF_pvalue,sim_200_CC_correlation,sim_200_CC_pvalue,sim_200_BP_correlation,sim_200_BP_pvalue,sim_200_Ave_correlation,sim_200_Ave_pvalue,sim_500_MF_correlation,sim_500_MF_pvalue,sim_500_CC_correlation,sim_500_CC_pvalue,sim_500_BP_correlation,sim_500_BP_pvalue,sim_500_Ave_correlation,sim_500_Ave_pvalue,func_MF_accuracy,func_MF_F1,func_MF_precision,func_MF_recall,func_BP_accuracy,func_BP_F1,func_BP_precision,func_BP_recall,func_CC_accuracy,func_CC_F1,func_CC_precision,func_CC_recall,func_Ave_accuracy,func_Ave_F1,func_Ave_precision,func_Ave_recall,fam_nc_f1_ave,fam_nc_accuracy_ave,fam_nc_mcc_ave,fam_uc30_f1_ave,fam_uc30_accuracy_ave,fam_uc30_mcc_ave,fam_uc50_f1_ave,fam_uc50_accuracy_ave,fam_uc50_mcc_ave,fam_mm15_f1_ave,fam_mm15_accuracy_ave,fam_mm15_mcc_ave,aff_mse_ave,aff_mae_ave,aff_correlation_ave,aff_corr_ave
AAC,-0.0120530487301072,0.8508071436536463,0.0912116785938685,0.1546329908435944,0.2141018739428611,0.0007061795748057,0.0977535012688741,0.3353821046906821,,,,,,,,,,,,,,,,,0.38811625,0.40974125,0.48670125,0.44299625,0.1610855555555555,0.1871955555555555,0.3224533333333333,0.1976033333333333,0.23935375,0.2321862499999999,0.28292625,0.28193,0.2628518518518519,0.2763743518518518,0.3640269444444444,0.3075098611111111,0.6177614082729195,0.6013157894736842,0.4606947935048476,0.5459172168856171,0.5507894736842106,0.435043370218602,0.5577992609356077,0.5505263157894736,0.4353902864419046,0.5867883717548554,0.5675,0.4166540424379349,1.8478,10.5931,,0.4605
APAAC,0.1716732195001037,0.0069560423057116,0.240874262539882,0.0001405462274193,0.2735843497262189,1.2923220610249705e-05,0.2287106105887349,0.002369837251247,,,,,,,,,,,,,,,,,0.4710162499999999,0.58284625,0.6744487499999999,0.5989212500000001,0.2238755555555555,0.3446611111111111,0.4229877777777777,0.4093011111111111,0.23963375,0.3952687499999999,0.4524837499999999,0.4603225,0.3115085185185185,0.4409253703703704,0.5166400925925926,0.4895149537037038,0.4636105548979638,0.4722368421052632,0.3555982464503002,0.2315046916218918,0.2660526315789474,0.2398228957685004,0.3843445897441822,0.3888157894736842,0.2965145907648027,0.3778872642431113,0.3853947368421052,0.2878924170121025,1.7901,10.2267,,0.4772
LEARNED-VEC,0.4099830116701563,2.1689966436784665e-11,0.3051938408310146,1.120065867436256e-06,0.2987112063885428,1.7495423111940671e-06,0.3379626862965713,9.565432895322534e-07,,,,,,,,,,,,,,,,,0.58578125,0.6755412500000001,0.7205037500000001,0.68219125,0.3066433333333334,0.3916688888888888,0.4773933333333333,0.3869822222222221,0.3161575,0.40893125,0.4695275,0.42211375,0.4028606944444444,0.4920471296296296,0.5558081944444445,0.4970957407407407,0.6879461133596474,0.6753947368421053,0.5398386011440388,0.6814159713015187,0.6705263157894737,0.5322722813297631,0.6921269746305978,0.6817105263157894,0.5386674018587029,0.6563782045393618,0.6365789473684211,0.4872940347931381,1.1848,8.1308,,0.7034
PROTVEC,0.1854412229985308,0.0035106737585576,0.2058335849333736,0.0011949062421632,0.2952566916292122,2.329746579400883e-06,0.2288438331870389,0.0015693032491,,,,,,,,,,,,,,,,,0.518905,0.63666625,0.6805562500000001,0.6691612499999999,0.2383044444444444,0.3624333333333334,0.4098166666666666,0.4214522222222222,0.24278625,0.3807712499999999,0.45263375,0.4207625,0.3333318981481481,0.4599569444444444,0.5143355555555557,0.5037919907407408,0.4383250974597773,0.4301315789473684,0.3518216277207454,0.4564942917145714,0.4485526315789473,0.3565075407802734,0.5457159315696433,0.5311842105263158,0.4063875289779686,0.5371595786184493,0.5368421052631579,0.4098333184750992,1.1341,8.0889,,0.7191
K-SEP,0.2222351644321201,0.0004449359524399,0.2943533697632057,2.8912597759133027e-06,0.2924105791926405,2.941553534464349e-06,0.2696663711293221,0.0001502562552501,,,,,,,,,,,,,,,,,0.706765,0.809005,0.8479987499999999,0.812435,0.3590044444444444,0.5168633333333335,0.5931811111111112,0.5496555555555555,0.34451,0.50233375,0.58188375,0.5384875,0.4700931481481481,0.6094006944444444,0.6743545370370371,0.6335260185185184,0.7495946659035692,0.7276519086547557,0.6547655185643255,0.7689678584237578,0.7695326593524487,0.6933301684191925,0.8079158211837034,0.8000630016725709,0.7067678661992495,0.7253848182058372,0.7100396165558136,0.6069883698266556,0.9705,7.2073,,0.7613
MUT2VEC,0.5462247913812742,2.6648168646769584e-20,0.3948878923766817,8.90249286171986e-10,0.5799222876570942,1.1825607450331126e-17,0.50701165713835,2.9674976600808085e-10,,,,,,,,,,,,,,,,,0.4887424999999999,0.57311875,0.62644375,0.5738475,0.3273411111111111,0.4270922222222222,0.49311,0.4205466666666667,0.3604425,0.4616437499999999,0.52882,0.45614625,0.3921753703703703,0.4872849074074074,0.5494579166666667,0.4835134722222222,0.575454304460752,0.5541501260900159,0.3694454543032406,0.578566193288655,0.5583052925257885,0.3655443859388608,0.581323959377601,0.561792911384753,0.3661922640776546,0.5894010388314413,0.5723598467078583,0.3616886974083642,,,,
GENE2VEC,0.1756222504801268,0.0057448955732791,0.359607993537279,6.832652069339137e-09,0.407953665862896,2.5324890595081728e-11,0.3143946366267673,0.0019149674770853,,,,,,,,,,,,,,,,,0.44396625,0.5311275,0.59321875,0.5266037499999999,0.31159,0.4385477777777777,0.4920955555555555,0.4214033333333334,0.3740225,0.5016275,0.54986,0.50092625,0.37652625,0.4904342592592592,0.5450581018518519,0.4829777777777777,0.4978494178195819,0.466796166273391,0.2700964760864989,0.5043869809342058,0.473582143681474,0.2709061468642129,0.4887258869062435,0.4568590255236107,0.2628852190174927,0.4540334130400259,0.413541717654761,0.2166720643675488,,,,
TCGA-EMBEDDING,0.0375448135213401,0.55782521975525,0.5033396964743626,6.003047049037164e-17,0.4822408636127631,8.634372908060867e-16,0.3410417912028219,0.185941739918417,,,,,,,,,,,,,,,,,0.30259375,0.3438549999999999,0.4061375,0.35728875,0.2365633333333333,0.3205144444444444,0.4167311111111111,0.3172555555555555,0.3415625,0.41188625,0.49552125,0.43964,0.2935731944444444,0.3587518981481481,0.439463287037037,0.3713947685185185,0.4830655515706691,0.4658592596401358,0.2476054626504394,0.4748890805972346,0.4590349814487426,0.2443515886298891,0.484794345973856,0.4667720923517802,0.2493411262693161,0.4529629142030799,0.4341656784929621,0.1984749211018922,,,,
PFAM,0.3489483982233921,1.877722902620754e-08,0.510730419386372,1.114133339243178e-17,0.422215963284985,4.247926093523296e-12,0.4272982602982497,6.260492321147465e-09,,,,,,,,,,,,,,,,,0.8147637500000001,0.8644112500000001,0.92922,0.83656875,0.4793744444444445,0.5572422222222222,0.672381111111111,0.5176055555555555,0.5036775,0.5806425000000001,0.7127049999999999,0.5397375,0.5992718981481482,0.6674319907407407,0.7714353703703702,0.6313039351851852,0.9193406939522438,0.9232894736842104,0.8749754614575995,0.9155083551998814,0.9200000000000002,0.8696361675710277,0.9166017118674624,0.9203947368421052,0.8700755532343185,0.8432342068269033,0.8493421052631579,0.7609647401406086,2.2579,11.6927,,0.1917
CPC-PROT,0.0604542610865414,0.3541297210052825,-0.0869798610000177,0.2340072675203556,0.1090657842339456,0.1042913765903023,0.0275133947734897,0.2308094550386468,,,,,,,,,,,,,,,,,0.5183375,0.6544525,0.7048687499999999,0.68185625,0.2688377777777777,0.3954833333333333,0.5084466666666666,0.4086744444444444,0.3213724999999999,0.4351899999999999,0.52067875,0.4555087499999999,0.3695159259259259,0.4950419444444445,0.5779980555555555,0.5153464814814814,0.723382899375849,0.711709047794262,0.5852201435559543,0.7110285315917106,0.695965038771089,0.5716069487381733,0.7432655106701884,0.7351095852259469,0.6058183370484882,0.7158586060430672,0.7101641143486348,0.5676037182263647,0.7299,6.2609,,0.8309
ESM1B,0.384697625027269,8.87075880764962e-10,0.3731936223537567,1.2308236239109248e-07,0.4151856052080267,1.0531459683186124e-10,0.3910256175296842,4.135825095622976e-08,,,,,,,,,,,,,,,,,0.7656875,0.83236,0.8653275000000001,0.83762875,0.41517,0.5332788888888889,0.6412488888888891,0.5463433333333333,0.46820375,0.6097875,0.70125,0.6317175,0.5496870833333333,0.6584754629629629,0.7359421296296298,0.6718965277777778,0.9335904560155104,0.9321465739534592,0.8950637140175945,0.9358924940769984,0.9338644466728928,0.896531663187788,0.8978427978853363,0.8864179536980098,0.8422693418276586,0.9151395091435048,0.91490269420308,0.8635864318873885,0.4828,5.0019,,0.8915
BERT-BFD,0.2918631086847955,4.893623100352673e-06,0.4157201514424359,2.702080353630567e-09,0.3234845992693526,7.937879082606092e-07,0.3436892864655279,1.8967043629889704e-06,,,,,,,,,,,,,,,,,0.76667,0.8481775,0.8726925,0.84173,0.48673,0.6115766666666667,0.6995811111111112,0.5894144444444444,0.5061749999999999,0.6220950000000001,0.69409875,0.622355,0.586525,0.6939497222222223,0.7554574537037038,0.6844998148148148,0.8790131873112703,0.8748208835171365,0.8075753295719517,0.8762391869158945,0.8721357452650146,0.8046443223637667,0.8805090193130967,0.8767208042800971,0.810056897874597,0.8561367582116395,0.849096131915109,0.7727926320045808,0.5736,5.2118,,0.874
BERT-PFAM,0.4964861293154893,3.732414283758915e-16,0.2217707389039976,0.0021629150128432,0.2068266617033433,0.001903663251382,0.3083611766409434,0.0013555260880752,,,,,,,,,,,,,,,,,0.78227875,0.8466099999999999,0.85939,0.85330625,0.4047655555555555,0.5351411111111112,0.6124677777777777,0.5464655555555555,0.4517675,0.58111,0.6603137499999999,0.5822562499999999,0.5462706018518518,0.654287037037037,0.7107238425925925,0.6606760185185184,0.8328719172441452,0.8226492790329122,0.7505485577400142,0.8392708328507116,0.832655437443119,0.7557519915574324,0.8222798951615159,0.810387674416152,0.7296817704153415,0.78683052868764,0.7716181827823089,0.679972843575971,,,,
SEQVEC,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,0.5331,5.2423,,0.8801