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 5 Comparison of seven evaluation indices for 12 node ranking methods on YDIP 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	0.474	0.836	0.474	0.836	0.474	0.309	0.749
	D-PIN	0.478	0.837	0.478	0.837	0.478	0.315	0.751
	RD-PIN	0.478	0.837	0.478	0.837	0.478	0.315	0.751
	CM-PIN(RD)	0.502	0.844	0.502	0.844	0.502	0.346	0.763
DC	S-PIN	0.442	0.826	0.442	0.826	0.442	0.267	0.734
	D-PIN	0.458	0.831	0.458	0.831	0.458	0.289	0.742
	RD-PIN	0.495	0.842	0.495	0.842	0.495	0.337	0.759
	CM-PIN(RD)	0.515	0.849	0.515	0.849	0.515	0.364	0.769
DMNC	S-PIN	0.433	0.823	0.433	0.823	0.433	0.256	0.730
	D-PIN	0.474	0.836	0.474	0.836	0.474	0.309	0.749
	RD-PIN	0.476	0.836	0.476	0.836	0.476	0.312	0.751
	CM-PIN(RD)	0.502	0.844	0.502	0.844	0.502	0.346	0.763
NC	S-PIN	0.468	0.834	0.468	0.834	0.468	0.302	0.747
	D-PIN	0.481	0.838	0.481	0.838	0.481	0.318	0.753
	RD-PIN	0.472	0.835	0.472	0.835	0.472	0.307	0.748
	CM-PIN(RD)	0.502	0.844	0.502	0.844	0.502	0.346	0.763
TP	S-PIN	0.416	0.818	0.416	0.818	0.416	0.233	0.722
	D-PIN	0.439	0.825	0.439	0.825	0.439	0.264	0.733
	RD-PIN	0.492	0.841	0.492	0.841	0.492	0.333	0.758
	CM-PIN(RD)	0.507	0.846	0.507	0.846	0.507	0.353	0.765
LID	S-PIN	0.467	0.834	0.467	0.834	0.467	0.301	0.746
	D-PIN	0.478	0.837	0.478	0.837	0.478	0.315	0.751
	RD-PIN	0.476	0.836	0.476	0.836	0.476	0.312	0.751
	CM-PIN(RD)	0.502	0.844	0.502	0.844	0.502	0.346	0.763
BC	S-PIN	0.389	0.809	0.389	0.809	0.389	0.197	0.709
	D-PIN	0.386	0.808	0.386	0.808	0.386	0.194	0.708
	RD-PIN	0.452	0.829	0.452	0.829	0.452	0.281	0.739
	CM-PIN(RD)	0.495	0.842	0.495	0.842	0.495	0.337	0.759
CC	S-PIN	0.386	0.808	0.386	0.808	0.386	0.194	0.708
	D-PIN	0.389	0.809	0.389	0.809	0.389	0.197	0.709
	RD-PIN	0.478	0.837	0.478	0.837	0.478	0.315	0.751
	CM-PIN(RD)	0.479	0.837	0.479	0.837	0.479	0.316	0.752
PR	S-PIN	0.427	0.821	0.427	0.821	0.427	0.249	0.727
	D-PIN	0.436	0.824	0.436	0.824	0.436	0.260	0.732
	RD-PIN	0.460	0.831	0.460	0.831	0.460	0.292	0.743
	CM-PIN(RD)	0.503	0.845	0.503	0.845	0.503	0.347	0.763
LR	S-PIN	0.361	0.800	0.361	0.800	0.361	0.161	0.696
	D-PIN	0.372	0.804	0.372	0.804	0.372	0.175	0.701
	RD-PIN	0.429	0.822	0.429	0.822	0.429	0.251	0.728
	CM-PIN(RD)	0.458	0.831	0.458	0.831	0.458	0.289	0.742
PeC	S-PIN	0.413	0.817	0.413	0.817	0.413	0.230	0.721
	D-PIN	0.415	0.817	0.415	0.817	0.415	0.232	0.721
	RD-PIN	0.445	0.827	0.445	0.827	0.445	0.272	0.736
	CM-PIN(RD)	0.487	0.840	0.487	0.840	0.487	0.326	0.756
WDC	S-PIN	0.473	0.835	0.473	0.835	0.473	0.309	0.749
	D-PIN	0.471	0.835	0.471	0.835	0.471	0.305	0.748
	RD-PIN	0.501	0.844	0.501	0.844	0.501	0.345	0.762
	CM-PIN(RD)	0.504	0.845	0.504	0.845	0.504	0.350	0.764

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