KSP: an integrated method for predicting catalyzing kinases of phosphorylation sites in proteins

Ma, Hongli; Li, Guojun; Su, Zhengchang

doi:10.1186/s12864-020-06895-2

BMC Genomics

Table 1 Evaluation of KSP on CK2A1 and Src when different number of top-ranked predictions were considered

From: KSP: an integrated method for predicting catalyzing kinases of phosphorylation sites in proteins

kinase: CK2A1	top 10	top 9	top 8	top 7	top 6	top 5	top 4	top 3	top 2	top 1
TP	458	453	451	447	436	426	415	389	351	274
FP	46	42	42	38	32	30	24	23	17	8
TN	319	323	323	327	333	335	341	342	348	357
FN	7	12	14	18	29	39	50	76	114	191
TPR	0.984946	0.974194	0.969892	0.961290	0.937634	0.916129	0.892473	0.836559	0.754839	0.589247
FPR	0.126027	0.115068	0.115068	0.104110	0.087671	0.082192	0.065753	0.063014	0.046575	0.021918
TNR	0.873973	0.884932	0.884932	0.895890	0.912329	0.917808	0.934247	0.936986	0.953425	0.978082
FNR	0.015054	0.025806	0.030108	0.038710	0.062366	0.083871	0.107527	0.163441	0.245161	0.410753
ACCURACY	0.936145	0.934940	0.932530	0.932530	0.926506	0.916867	0.910843	0.880723	0.842169	0.760241
PRECISION	0.908730	0.915152	0.914807	0.921649	0.931624	0.934211	0.945330	0.944175	0.953804	0.971631
RECALL	0.984946	0.974194	0.969892	0.961290	0.937634	0.916129	0.892473	0.836559	0.754839	0.589247
F1	0.945304	0.943750	0.941545	0.941053	0.934620	0.925081	0.918142	0.887115	0.842737	0.733601
kinase: Src	top 10	top 9	top 8	top 7	top 6	top 5	top 4	top 3	top 2	top 1
TP	395	394	392	389	384	372	360	328	300	214
FP	38	37	35	35	32	20	18	16	12	8
TN	331	332	334	334	337	349	351	353	357	361
FN	13	14	16	19	24	36	48	80	108	194
TPR	0.968137	0.965686	0.960784	0.953431	0.941176	0.911765	0.882353	0.803922	0.735294	0.524510
FPR	0.102981	0.100271	0.094851	0.094851	0.086721	0.054201	0.048780	0.043360	0.032520	0.021680
TNR	0.897019	0.899729	0.905149	0.905149	0.913279	0.945799	0.951220	0.956640	0.967480	0.978320
FNR	0.031863	0.034314	0.039216	0.046569	0.058824	0.088235	0.117647	0.196078	0.264706	0.475490
ACCURACY	0.934363	0.934363	0.934363	0.930502	0.927928	0.927928	0.915058	0.876448	0.845560	0.740026
PRECISION	0.912240	0.914153	0.918033	0.917453	0.923077	0.948980	0.952381	0.953488	0.961538	0.963964
RECALL	0.968137	0.965686	0.960784	0.953431	0.941176	0.911765	0.882353	0.803922	0.735294	0.524510
F1	0.939358	0.939213	0.938922	0.935096	0.932039	0.930000	0.916031	0.872340	0.833333	0.679365

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ISSN: 1471-2164

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