Table 2

Top 10 results from the MBN analysis (model in Figure 1c).

Gene

Bayesian Score

P-value

Shh Correlation

Ptch1 Correlation

Citations

Gas1 (Growth arrest specific 1)

-226.34

< .001

-0.016

-0.57

[5]

Gli1 (GLI-Kruppel family member)

-226.69

< .001

0.61

0.74

[29]

Ptch2 (Patched homolog 2)

-229.17

< .001

0.54

0.69

[30]

Gtpbp4 (GTP binding protein 4)

-229.44

< .001

-0.28

0.35

Mig12 (Mid1 interacting protein 1)

-229.61

< .001

0.20

0.61

Msx1 (Homeo box, msh-like 1)

-229.87

< .001

0.03

-0.56

[31]

Crabp2 (Cellular retinoic acid binding protein II)

-229.97

< .001

-0.05

-0.46

Has2 (Hyaluronan synthase 2)

-231.03

< .001

-0.08

0.46

Foxd1 (Forkhead box D1)

-231.61

< .001

0.29

0.43

[32]

Ak1 (Adenylate kinase 1)

-232.22

< .001

0.16

-0.01

The columns specify the gene name and a short description; the Bayesian score as described in Methods; the resulting p-value for the Bayesian score calculated using a bootstrap method as described in Methods; a linear correlation to the Shh transcript; a linear correlation to the Ptch1 transcript; and a literature citation, if available, that specifies that the gene is indeed a true downstream target of the Shh pathway.

Shah et al. BMC Bioinformatics 2009 10:433   doi:10.1186/1471-2105-10-433