Table 4

Ten functional motif candidates

Group:Motif ID

TF

Motif (ORI ≥ 61,

    Underline
; MARE)


E:12-7

MYOD, GATA-1

CAGCCAGCAGCA

G:14-4

CdxA

AGCTTTGAAGACAG

F:16-2

GATA-2, AP2

CGGTCTCTGGGCTCAG

(Partially same strand of 14-2)

A:10

AP4/AML(10ATCT..)

ATC

    TGCTGA
C

Only group ”A” is extracted at Step1.

F:14-2

AP2/ZID

CGGGCTCTGGGCTC

F:,B:12-2

AP2, AML-1a

AGCCCAGAGCCC

(Complementary strand of 14-2, 16-2)

D:10-10

Nkx-2.5

G

    TGCTGA
GTG

E:10-3

GATA-1

CCTGCTCCTG

(Complementary strand of 12-7)

B:16-4

AML-1a

ACAGAGGCCCAGAGGG

(Partially same strand of 12-2)

C:10-9

MZF1

GCTGGGGCAG


The top 10 functional motif candidates were optimized by ORI and are shown with their transcription factors and the IDs in the order of their score ranking. The IDs show both the number of nucleotides and the ranking order of extracted motifs, for example, the ID of the seventh extracted motif using N = 12 is ”12-7”. The motifs were grouped by sequence similarity with the same transcription factor. Two motifs, groups A and D, were identified as the MafB motif.

Morita et al. BMC Systems Biology 2011 5(Suppl 2):S7   doi:10.1186/1752-0509-5-S2-S7

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