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Table 2 Gene ontology (GO) analysis of differentially expressed genes listed in the Additional file 2

From: Transcriptomic analysis of dystrophin RNAi knockdown reveals a central role for dystrophin in muscle differentiation and contractile apparatus organization

Category

Term

Genes

FE

p val.

Adj. p val.

Cellular Component

GO:0044449 contractile fiber part

OBSCN, DMN, DMD, MYBPC2, TCAP, MYH13, MYH1, LDB3, ACTN3, MYBPC3, MYH7, PYGM, MYH4, TPM3,

13.83

1.74E-11

6.77E-09

Cellular Component

GO:0030017 sarcomere

OBSCN, DMN, DMD, MYBPC2, TCAP, MYH13, MYH1, LDB3, ACTN3, MYBPC3, MYH7, PYGM, MYH4, TPM3,

14.25

1.16E-11

9.06E-09

Cellular Component

GO:0030016 myofibril

OBSCN, DMN, DMD, MYBPC2, TCAP, MYH13, MYH1, LDB3, ACTN3, MYBPC3, MYH7, PYGM, MYH4, TPM3,

12.89

4.47E-11

1.16E-08

Cellular Component

GO:0043292 contractile fiber

OBSCN, DMN, DMD, MYBPC2, TCAP, MYH13, MYH1, LDB3, ACTN3, MYBPC3, MYH7, PYGM, MYH4, TPM3,

12.38

7.61E-11

1.48E-08

Cellular Component

GO:0005863 striated muscle thick filament

MYH7, OBSCN, MYH4, MYBPC2, MYH13, MYH1, MYBPC3,

36.18

1.55E-08

2.01E-06

Cellular Component

GO:0032982 myosin filament

MYH7, OBSCN, MYH4, MYBPC2, MYH13, MYH1, MYBPC3,

36.18

1.55E-08

2.01E-06

Cellular Component

GO:0005859 muscle myosin complex

MYH7, OBSCN, MYH4, MYBPC2, MYH13, MYH1, MYBPC3,

33.60

2.67E-08

2.98E-06

Cellular Component

GO:0016460 myosin II complex

MYH7, OBSCN, MYH4, MYBPC2, MYH13, MYH1, MYBPC3,

29.40

6.95E-08

6.78E-06

Molecular Function

GO:0008092 cytoskeletal protein binding

OBSCN, DMD, MYBPC2, MYH13, MYH1, ACTN3, EPB4.1L4B, MYBPC3, DCX, MTAP7, MYH7, MYH4, MYOZ1, TMOD4, PACSIN1, PSTPIP2, TPM3, SCIN, CFL2, SPNB1,

3.79

1.37E-06

3.63E-03

Cellular Component

GO:0030018 Z disc

DMN, OBSCN, PYGM, DMD, TCAP, LDB3,

13.44

7.16E-05

5.57E-03

Cellular Component

GO:0031674 I band

DMN, OBSCN, PYGM, DMD, TCAP, LDB3,

11.52

1.54E-04

1.08E-02

Cellular Component

GO:0005856 cytoskeleton

DMN, OBSCN, TTL, MYBPC2, MYH13, MYH1, ABI2, ACTN3, EPB4.1L4B, MTAP7, KRT18, TMOD4, PSTPIP2, CFL2, TPM3, DYNLRB2, GAN, DMD, LDB3, MYBPC3, DCX, MYH7, SGCG, KY, MYH4, MYOZ1, SCIN, SPNB1,

2.16

2.14E-04

1.27E-02

Cellular Component

GO:0016459 myosin complex

MYH7, OBSCN, MYH4, MYBPC2, MYH13, MYH1, MYBPC3,

8.11

2.09E-04

1.35E-02

Biological Process

GO:0003012 muscle system process

MYH7, MYH4, MYBPC2, CASQ1, KCNMA1, MYH13, MYH1, TPM3, ACTN3, MYBPC3,

7.63

5.92E-06

1.51E-02

Biological Process

GO:0006936 muscle contraction

MYH7, MYH4, MYBPC2, CASQ1, KCNMA1, MYH13, MYH1, TPM3, ACTN3, MYBPC3,

7.63

5.92E-06

1.51E-02

Molecular Function

GO:0031420 alkali metal ion binding

KCNC1, KCNA7, SCN3B, SCN1B, TTL, SLC9A7, ATP1B2, IMPA2, KCNMA1, KCNK3, SLC24A5, GMPR,

4.82

3.95E-05

5.10E-02

Molecular Function

GO:0030955 potassium ion binding

KCNC1, KCNA7, TTL, SLC9A7, ATP1B2, KCNMA1, KCNK3, SLC24A5, GMPR,

6.08

1.13E-04

7.22E-02

Molecular Function

GO:0003779 actin binding

DMD, MYBPC2, MYH13, MYH1, ACTN3, MYBPC3, MYH7, MYH4, TMOD4, PSTPIP2, TPM3, SCIN, CFL2, SPNB1,

3.77

8.93E-05

7.59E-02

  1. DAVID tool was used for this analysis. Only terms with Benjamini-Hochberg adjusted p values < 0.1 and Fold Enrichment (FE) greater than 2 are displayed. Table sorted by ascending adjusted p values.