Table 3. Enrichment of transcription factor targets in A375 clusters.

Cluster	TRANSFAC Annotation	Number of RNAs in cluster with annotation	ln Bayes factor	probability of obtaining ≥ this Bayes factor by chance
9	V$CDC5_01: cell division control protein 5	65	5.37	0.01
9	V$E2F1_Q6: E2F-1	61	6.51	0.01
79	V$SOX5_01: Sox-5	32	7.62	0
79	V$SOX9_B1: SOX (SRY-related HMG box)	35	6.46	0.01
101	V$KROX_Q6	61	10.56	0
101	V$MAZ_Q6	71	5.84	0
101	V$MAZR_01: MAZ related factor	50	4.27	0.02
113	V$CMYB_01: c-Myb	9	6	0.04
246	V$YY1_02: Yin and Yang 1	13	5.31	0.05
266	V$FOXO4_01: fork head box O4	24	5.11	0.02
282	V$WHN_B: winged-helix factor nude	10	6.49	0.03
283	V$OCT1_02: octamer factor 1	13	7.29	0.01
358	V$NRF1_Q6	5	6.27	0.04

The first column is the cluster identifier. The second column is the enriched TRANSFAC Pro v8.2 transcription factor motif in the promoter of the genes in the cluster. The third column is the numbers of RNAs with the transcription factor target annotation in the cluster. The fourth and fifth columns are from the GATHER web tool – indicating the Bayes factor and the permutation p-value for the Bayes factor (indicating how often ≥ this Bayes Factor may be expected due to chance), respectively.