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Table 3 Validation of 20 robust USF1 target genes

From: A general integrative genomic feature transcription factor binding site prediction method applied to analysis of USF1 binding in cardiovascular disease

No.

Gene

Correctly Predicted

1

Apolipoprotein A-II (APOA2)

Yes

2

ATP-binding cassette, sub-family A (ABC1)

Yes

3

Acetye-coenzyme A carboxylase alpha (ACACA)

No

4

Apolipoprotein (APOE)

Yes

5

Breast cancer 2 (BRCA2) early onset

Yes

6

CCNB1

Yes

7

Cytochrome p450, familyl9 (CYP19)

Yes

8

Cytochrome p450, familyl, subfamily A, polypeptidel (CYP1A1)

Yes

9

EFP

Yes

10

Fragile x mental retardation 1 (FMR1)

Yes

11

Follicle stimulating hormone receptor (FSHR)

Yes

12

Glucokinase (hexokinase 4) (GCK)

Yes

13

Ghrelin/obestatin prepropeptide (GHRL)

No

14

Homeobox B4 (HOXB4)

Yes

15

Homeobox B7 (HOXB7)

Yes

16

h-telomerase reverse transcriptase (hTERT)

Yes

17

Platelet factor 4 (PF4)

No

18

Polymeric immunoglobulin receptor (PIGR)

No

19

Protein tyrosine phosphatase, non-receptor type 6 (PTPN6)

Yes

20

Serpin peptidase inhibitor, clade 5, memberl (SERPINE1)

Yes

  1. We used 20 robust USF1 target genes obtained from the TRED database [28] and reported the literature [29] to evaluate the prediction method. Our optimal prediction model was able to identify 16 out of these 20 genes as USF1 targets.