The dependence of expression of NF-κB-dependent genes: statistics and evolutionary conservation of control sequences in the promoter and in the 3′ UTR

Table 3 Participation of NF-κB-family binding motifs among human TFBS

Group of genes	Number of TFBS found
Group of genes	NFκB	c-Rel	p50	p65
(A)
Early	31	27	18	17
Middle	32	34	16	20
Late	18	22	14	12
(B)					Avg. number of TFBS ^a)
Sum for dataset	81	83	48	49	6.07
Sum for 50 random sequences	28	49	15	26	2.36
Average sum for shuffled sequences	22.6	36.7	13	15.5	2.09

Numbers of separate TFBS found in the promoter regions of NF-κB-dependent genes (43 genes) and in randomly generated sequences (50 sequences). Part (A): counts of NF-κB family TFBS found in each group of genes in dataset. Part (B): Total counts of each type of TFBS in the dataset and number of motifs found in randomly generated sequences of length 1000 bp, and average sum of the motifs found in shuffled sequences (each sequence shuffled 10 times). Last column corresponds to the average number of NF-κB family TFBS found in one sequence. Motifs were found using NucleoSeq software which enables looking for distinct motifs; there is significant difference between number of TFBS found in real sequences and shuffled (p = 0.0286).
^a) Average number of TFBS per gene in dataset (Early, Middle or Late).

ISSN: 1471-2164