Accurate multiple sequence alignment of transmembrane proteins with PSI-Coffee

BMC Bioinformatics

Table 4 Statistical significance test of the performance in different databases

SP	default	UniRef50-TM	UniRef90-TM	UniRef100-TM	UniProt-TM	UniRef50	UniRef90	UniRef100	UniProt	NR
default	NA	0.447	0.141	0.039	0.042	0.195	0.039	0.035	0.034	0.035
UniRef50-TM	0.447	NA	0.833	0.675	0.483	0.410	0.141	0.446	0.160	0.446
UniRef90-TM	0.141	0.833	NA	0.161	0.395	0.799	0.074	0.172	0.205	0.495
UniRef100-TM	0.039	0.675	0.161	NA	0.713	0.834	0.674	0.202	0.786	0.293
UniProt-TM	0.042	0.483	0.395	0.713	NA	0.933	0.752	0.735	0.892	0.779
UniRef50	0.195	0.410	0.799	0.834	0.933	NA	0.447	0.461	0.553	0.483
UniRef90	0.039	0.141	0.074	0.674	0.752	0.447	NA	1.000	0.598	0.430
UniRef100	0.035	0.446	0.172	0.202	0.735	0.461	1.000	NA	0.798	0.203
UniProt	0.034	0.160	0.205	0.786	0.892	0.553	0.598	0.798	NA	0.528
NR	0.035	0.446	0.495	0.293	0.779	0.483	0.430	0.203	0.528	NA
TC	default	UniRef50-TM	UniRef90-TM	UniRef100-TM	UniProt-TM	UniRef50	UniRef90	UniRef100	UniProt	NR
default	NA	0.035	0.021	0.092	0.148	0.042	0.050	0.050	0.039	0.034
UniRef50-TM	0.035	NA	0.834	0.281	0.207	1.000	0.799	0.396	1.000	0.396
UniRef90-TM	0.021	0.834	NA	0.855	0.584	0.865	0.281	0.672	0.462	0.892
UniRef100-TM	0.092	0.281	0.855	NA	0.174	0.798	0.554	0.916	0.423	0.832
UniProt-TM	0.148	0.207	0.584	0.174	NA	0.611	0.397	0.396	0.178	0.402
UniRef50	0.042	1.000	0.865	0.798	0.611	NA	0.674	0.832	0.670	1.000
UniRef90	0.050	0.799	0.281	0.554	0.397	0.674	NA	0.581	1.000	0.588
UniRef100	0.050	0.396	0.672	0.916	0.396	0.832	0.581	NA	0.528	1.000
UniProt	0.039	1.000	0.462	0.423	0.178	0.670	1.000	0.528	NA	0.528
NR	0.034	0.396	0.892	0.832	0.402	1.000	0.588	1.000	0.528	NA

Wilcoxon Signed-Rank Test (R: wilcoxon.test, paired = TRUE)
NULL hypothesis: x and y have identical performance
0.05 significance level: p-value smaller than 0.05 marked in bold, reject null hypothesis

ISSN: 1471-2105