A protein network refinement method based on module discovery and biological information

Pan, Li; Wang, Haoyue; Yang, Bo; Li, Wenbin

doi:10.1186/s12859-024-05772-z

BMC Bioinformatics

Table 6 Comparison of seven evaluation indices for 12 node ranking methods on YBIOGRID datasets

From: A protein network refinement method based on module discovery and biological information

Methods	PIN	SN	SP	PPV	NPV	FM	MCC	ACC
LAC	S-PIN	0.464	0.854	0.464	0.854	0.464	0.318	0.771
	D-PIN	0.475	0.857	0.475	0.857	0.475	0.332	0.776
	RD-PIN	0.490	0.862	0.490	0.862	0.490	0.352	0.782
	CM-PIN(RD)	0.515	0.868	0.515	0.868	0.515	0.383	0.793
DC	S-PIN	0.430	0.845	0.430	0.845	0.430	0.276	0.757
	D-PIN	0.455	0.852	0.455	0.852	0.455	0.307	0.767
	RD-PIN	0.497	0.863	0.497	0.863	0.497	0.361	0.785
	CM-PIN(RD)	0.520	0.870	0.520	0.870	0.520	0.389	0.795
DMNC	S-PIN	0.346	0.823	0.346	0.823	0.346	0.169	0.721
	D-PIN	0.405	0.839	0.405	0.839	0.405	0.244	0.746
	RD-PIN	0.450	0.851	0.450	0.851	0.450	0.301	0.765
	CM-PIN(RD)	0.475	0.857	0.475	0.857	0.475	0.332	0.776
NC	S-PIN	0.467	0.855	0.467	0.855	0.467	0.322	0.772
	D-PIN	0.473	0.857	0.473	0.857	0.473	0.330	0.775
	RD-PIN	0.490	0.862	0.490	0.862	0.490	0.352	0.782
	CM-PIN(RD)	0.513	0.868	0.513	0.868	0.513	0.381	0.792
TP	S-PIN	0.347	0.823	0.347	0.823	0.347	0.170	0.721
	D-PIN	0.354	0.825	0.354	0.825	0.354	0.178	0.724
	RD-PIN	0.448	0.850	0.448	0.850	0.448	0.298	0.764
	CM-PIN(RD)	0.466	0.855	0.466	0.855	0.466	0.321	0.772
LID	S-PIN	0.466	0.855	0.466	0.855	0.466	0.321	0.772
	D-PIN	0.472	0.857	0.472	0.857	0.472	0.329	0.775
	RD-PIN	0.500	0.864	0.500	0.864	0.500	0.365	0.787
	CM-PIN(RD)	0.516	0.869	0.516	0.869	0.516	0.385	0.793
BC	S-PIN	0.393	0.835	0.393	0.835	0.393	0.228	0.741
	D-PIN	0.372	0.830	0.372	0.830	0.372	0.202	0.732
	RD-PIN	0.409	0.839	0.409	0.839	0.409	0.248	0.748
	CM-PIN(RD)	0.426	0.844	0.426	0.844	0.426	0.270	0.755
CC	S-PIN	0.260	0.799	0.260	0.799	0.260	0.059	0.684
	D-PIN	0.286	0.806	0.286	0.806	0.286	0.092	0.695
	RD-PIN	0.410	0.840	0.410	0.840	0.410	0.250	0.748
	CM-PIN(RD)	0.418	0.842	0.418	0.842	0.418	0.260	0.751
PR	S-PIN	0.435	0.847	0.435	0.847	0.435	0.282	0.759
	D-PIN	0.440	0.848	0.440	0.848	0.440	0.289	0.761
	RD-PIN	0.459	0.853	0.459	0.853	0.459	0.312	0.769
	CM-PIN(RD)	0.495	0.863	0.495	0.863	0.495	0.358	0.785
LR	S-PIN	0.315	0.814	0.315	0.814	0.315	0.129	0.708
	D-PIN	0.324	0.816	0.324	0.816	0.324	0.140	0.711
	RD-PIN	0.384	0.833	0.384	0.833	0.384	0.217	0.737
	CM-PIN(RD)	0.403	0.838	0.403	0.838	0.403	0.241	0.745
PeC	S-PIN	0.425	0.844	0.425	0.844	0.425	0.268	0.754
	D-PIN	0.435	0.847	0.435	0.847	0.435	0.282	0.759
	RD-PIN	0.457	0.853	0.457	0.853	0.457	0.310	0.768
	CM-PIN(RD)	0.472	0.857	0.472	0.857	0.472	0.329	0.775
WDC	S-PIN	0.460	0.853	0.460	0.853	0.460	0.313	0.769
	D-PIN	0.455	0.852	0.455	0.852	0.455	0.308	0.767
	RD-PIN	0.490	0.862	0.490	0.862	0.490	0.352	0.782
	CM-PIN(RD)	0.508	0.866	0.508	0.866	0.508	0.374	0.790

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