Gene expression and adaptive noncoding changes during human evolution

BMC Genomics

Table 1 Functions of overall differentially expressed genes

Set	Collection	# genes	r_rb	SE(r_rb)
chr17q11	C1:All	66	0.88	0.021
chr12q13	C1:All	152	0.84	0.026
NIKOLSKY BREAST CANCER 17Q11 Q21 AMPLICON	C2:CGP	80	0.84	0.033
chr17q21	C1:All	164	0.69	0.033
chr4q21	C1:All	61	0.62	0.066
chr1p13	C1:All	79	0.59	0.06
GNF2 DNM1	C4:CGN	63	0.41	0.046
RICKMAN HEAD AND NECK CANCER A	C2:CGP	77	0.34	0.06
LEIN NEURON MARKERS	C2:CGP	50	0.34	0.052
CAHOY NEURONAL	C6:All	84	0.33	0.053
GCM MAP1B	C4:CGN	53	0.33	0.076
ANASTASSIOU CANCER MESENCHYMAL TRANSITION SIGNATURE	C2:CGP	53	0.33	0.069
SABATES COLORECTAL ADENOMA UP	C2:CGP	86	0.33	0.049
GNF2 CCNA2	C4:CGN	52	0.32	0.065
KRAS.KIDNEY UP.V1 UP	C6:All	113	0.32	0.047
VOLTAGE GATED CATION CHANNEL ACTIVITY	C5:MF	57	0.31	0.061
NAKAYAMA SOFT TISSUE TUMORS PCA2 UP	C2:CGP	71	0.31	0.053
GCM MAPK10	C4:CGN	71	0.31	0.059
CERVERA SDHB TARGETS 1 UP	C2:CGP	95	0.3	0.052
VOLTAGE GATED CHANNEL ACTIVITY	C5:MF	63	0.3	0.058

The 20 (of 5247) MSigDB gene sets most enriched with genes scoring high for overall differential expression between humans and chimpanzees are listed. Collection is the MSigDB collection containing the set (one of 16). genes is the number of genes whose expression we measured in the set (at least 50). r _rb is the rank-biserial correlation between scores for differential expression and membership in the set; sets are ordered by decreasing r _rb. SE(r _rb) is the standard error of r _rb via bootstrapping with 10,000 replicates

ISSN: 1471-2164