Table 10 Comparison between the number of annotations added and removed in Gene Ontology 2007 and Gene Ontology 2018 per level
From: Machine learning for discovering missing or wrong protein function annotations
| Â | Â | Number of Annotations Added per Level | Number of Annotations Removed per Level |
|---|---|---|---|
Cellcycle | Train | 4586/12181/13927/13852/11608/7784/5025/3959/2284/1408/838/382/103/11/0 | 1066/2803/3310/2310/2077/1333/834/343/166/76/23/3/0/0/0 |
| Â | Test | 3649/9613/11237/11200/9547/6463/4258/3243/1852/1116/710/379/117/12/3 | 919/2466/2858/1938/1744/1136/780/303/160/60/20/1/0/0/0 |
| Â | Valid | 2504/6312/7308/7210/5948/3964/2628/2027/1135/746/449/204/78/8/1 | 514/1483/1708/1201/1042/629/420/167/76/39/13/0/1/0/0 |
Church | Train | 4558/12124/13910/13866/11568/7772/4976/3995/2299/1422/863/390/105/12/0 | 1051/2785/3262/2267/2055/1333/837/330/160/73/22/2/0/0/0 |
| Â | Test | 3551/9545/11259/11159/9365/6332/4146/3202/1829/1104/693/364/112/13/3 | 890/2443/2817/1904/1714/1093/762/293/157/57/19/1/0/0/0 |
| Â | Valid | 2447/6328/7340/7201/5885/3901/2599/2070/1178/765/448/204/78/8/1 | 517/1476/1686/1179/1038/628/411/164/78/39/13/0/1/0/0 |
Derisi | Train | 4516/12053/13780/13684/11491/7708/4986/3933/2270/1401/840/381/103/11/0 | 1054/2781/3280/2284/2052/1327/831/332/164/77/23/3/0/0/0 |
| Â | Test | 3651/9645/11263/11235/9570/6484/4279/3252/1863/1122/718/382/117/12/3 | 918/2458/2862/1937/1734/1129/779/305/162/60/20/1/0/0/0 |
| Â | Valid | 2479/6289/7291/7183/5938/3959/2625/2029/1141/749/451/204/77/8/1 | 512/1478/1701/1190/1036/628/420/169/77/39/13/0/1/0/0 |
Expr | Train | 4603/12271/14055/14010/11713/7843/5050/4009/2333/1420/855/392/104/11/0 | 1077/2805/3317/2291/2076/1346/838/341/168/77/23/3/0/0/0 |
| Â | Test | 3644/9709/11459/11414/9640/6535/4299/3293/1895/1152/726/387/126/16/4 | 898/2472/2871/1943/1752/1135/784/313/164/59/19/1/0/0/0 |
| Â | Valid | 2475/6339/7314/7226/6010/4012/2644/2041/1155/770/477/218/84/8/1 | 525/1503/1704/1190/1048/629/430/164/77/39/15/0/1/0/0 |
Eisen | Train | 2760/7871/9258/9380/7858/5322/3452/2795/1626/1045/639/290/73/11/0 | 742/1977/2293/1593/1446/990/616/244/121/56/15/2/0/0/0 |
| Â | Test | 2190/6234/7476/7556/6389/4376/2887/2285/1317/789/483/256/84/11/3 | 628/1723/1936/1312/1181/795/571/213/120/39/10/0/0/0/0 |
| Â | Valid | 1463/3985/4718/4729/4016/2724/1786/1395/776/524/322/156/67/8/1 | 358/1034/1138/807/719/434/303/119/50/31/14/0/1/0/0 |
Gasch1 | Train | 4599/12213/13965/13878/11626/7805/5040/3978/2296/1415/841/382/103/11/0 | 1066/2813/3309/2303/2076/1329/830/337/164/76/23/3/0/0/0 |
| Â | Test | 3653/9650/11277/11246/9579/6487/4269/3258/1860/1121/712/380/117/12/3 | 916/2467/2849/1935/1746/1137/782/304/160/60/20/1/0/0/0 |
| Â | Valid | 2501/6308/7302/7206/5945/3961/2625/2027/1135/746/449/203/77/8/1 | 513/1476/1703/1196/1040/627/419/167/76/39/13/0/1/0/0 |
Gasch2 | Train | 4626/12297/14105/14154/11855/8003/5171/4075/2348/1448/870/401/110/14/0 | 1088/2852/3357/2339/2103/1344/836/339/164/74/25/2/0/0/0 |
| Â | Test | 3632/9635/11344/11267/9501/6495/4277/3258/1847/1110/700/369/119/13/4 | 914/2503/2919/1976/1781/1153/790/308/160/56/20/1/0/0/0 |
| Â | Valid | 2475/6251/7269/7131/5928/3984/2663/2042/1147/765/459/204/79/8/1 | 525/1509/1721/1217/1054/637/420/160/72/38/17/0/1/0/0 |
Hom | Train | 4647/12828/14387/14138/11919/8025/5190/4050/2302/1412/837/378/104/11/0 | 1059/2867/3305/2298/2072/1327/823/333/164/76/23/3/0/0/0 |
| Â | Test | 3732/10161/11654/11506/9831/6683/4412/3330/1848/1119/709/379/117/12/3 | 918/2521/2848/1925/1743/1131/782/305/159/60/20/1/0/0/0 |
| Â | Valid | 2538/6660/7547/7352/6095/4075/2705/2068/1133/745/449/203/77/8/1 | 511/1518/1705/1190/1037/626/418/167/76/39/13/0/1/0/0 |
Pheno | Train | 1899/4896/5656/5751/4816/3216/2034/1609/930/598/383/183/51/6/0 | 430/1140/1349/969/844/551/345/121/58/26/8/2/0/0/0 |
| Â | Test | 1730/4487/5273/5248/4449/3030/2023/1593/921/536/334/181/55/5/1 | 443/1124/1354/934/802/526/401/152/78/34/14/1/0/0/0 |
| Â | Valid | 1033/2747/3193/3203/2693/1806/1198/937/549/344/223/111/50/7/1 | 236/650/786/546/474/267/202/84/35/18/7/0/1/0/0 |
Spo | Train | 4503/11999/13716/13620/11436/7667/4959/3914/2261/1391/833/380/103/11/0 | 1042/2754/3256/2266/2038/1317/823/331/163/76/23/3/0/0/0 |
| Â | Test | 3636/9581/11192/11149/9504/6440/4249/3228/1849/1115/710/379/117/12/3 | 908/2436/2829/1918/1721/1126/773/302/160/60/20/1/0/0/0 |
| Â | Valid | 2469/6244/7250/7158/5917/3944/2612/2018/1135/746/449/203/77/8/1 | 511/1469/1691/1187/1033/623/417/167/76/39/13/0/1/0/0 |
Seq | Train | 4731/13009/14603/14357/12098/8146/5254/4106/2328/1425/841/383/104/11/0 | 1079/2922/3360/2343/2123/1352/833/339/165/75/23/3/0/0/0 |
| Â | Test | 3788/10282/11809/11644/9939/6748/4447/3376/1878/1129/713/380/117/12/3 | 932/2561/2895/1959/1778/1148/790/306/160/60/20/1/0/0/0 |
| Â | Valid | 2564/6698/7588/7398/6127/4100/2720/2074/1135/745/449/204/78/8/1 | 518/1536/1723/1207/1054/640/426/169/77/40/13/0/1/0/0 |
Struc | Train | 4664/12533/14259/14102/11846/7955/5136/4040/2324/1421/838/382/104/11/0 | 1077/2857/3354/2339/2119/1350/831/339/165/75/23/3/0/0/0 |
| Â | Test | 3686/9858/11465/11390/9628/6519/4292/3285/1850/1113/704/380/121/12/3 | 930/2511/2883/1958/1773/1132/790/305/156/57/19/1/0/0/0 |
| Â | Valid | 2529/6456/7412/7275/6006/4010/2663/2046/1135/745/449/204/78/8/1 | 517/1501/1717/1201/1052/637/425/169/76/40/13/0/1/0/0 |
Mean | Train | 4224/11356/12968/12899/10819/7270/4689/3705/2133/1317/789/360/97/10/0 | 985/2613/3062/2133/1923/1241/773/310/151/69/21/2/0/0/0 |
| Â | Test | 3378/9033/10559/10501/8911/6049/3986/3050/1734/1043/659/351/109/11/3 | 851/2307/2660/1803/1622/1053/732/284/149/55/18/0/0/0/0 |
| Â | Valid | 2289/5884/6794/6689/5542/3703/2455/1897/1062/699/422/193/75/7/1 | 479/1386/1581/1109/968/583/392/155/70/36/13/0/1/0/0 |