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Table 1 Ontology and pathway analysis of genes dysregulated at passage 14

From: Dysregulation of mitotic machinery genes precedes genome instability during spontaneous pre-malignant transformation of mouse ovarian surface epithelial cells

Terma

Genes

Enrichment

Adj p-value

Up-regulated (53/101 unique genes)

 Centralspindlin complex

Racgap1, Kif23

72.4

2.4e-03

 Chromosome passenger complex

Cdca8, Birc5

48.3

5.1e-03

 MCM complexb

Mcm2, Mcm3, Mcm6

31.1

1.5e-03

 Chromatin assembly

Mcm2, Cenpa, Hmga1, Hmga2, Chaf1b, H2afz

15.1

2.0e-04

 Chromosome condensation

Ncapd2, Nusap1, Top2a, Hmga2, Ccnb1

17.3

5.0e-04

 Sister chromatid segregation

Ccnb1, Cdca8, Knstrn, Ncapd2, Nusap1, Top2a

11.2

3.2e-04

 Kinetochore

Birc5, Ccnb1, Cenpa, Knstrn, Trp53bp1

9.9

1.5e-02

 Cytokinesis

Racgap1, Nusap1, Kif23, Birc5, Ckap2, Anln, Prc1

8.1

8.0e-04

 Steroid metabolic process

Lss, Hsd17b12, Fdft1, Msmo1, Ldlr, Mvd, Hmgcr

6.1

1.3e-03

 Nucleotide metabolic process

Dhfr, Gapdh, Gmpr, Hmgcr, Pkm, Pnkp, Rrm2, Taldo1, Tk1, Tpi1

5.8

5.2e-04

 Histone binding

Chaf1b, Hist1h4n, Mcm2, Ncapd2, Trp53bp1,Uhrf1

5.5

2.7e-02

 Spindle

Racgap1, Kif23, Cdca8, Birc5,Dlgap5, Ccnb1, Knstrn1, Nusap1, Prc1

5.3

1.5e-03

 Extracellular matrix

Itgb1, Gpc3, Fbln2, Fn1, Hsd17b12, Anxa2, Mmp2, Pkm, Rpsa

4.6

3.3e-03

 Mitotic nuclear division

Anln, Birc5, Ccna2, Ccnb1, Ccnb2, Cdc20, Cdca8, Hmga2, Kif23, Knstrn, Ncapd2, Nusap1, Racgap1, Triobp

4.3

5.0e-04

 Histone deacetylase binding

Cdc20, Hsp90ab1,Top2a

4.2

2.4e-02

 Centrosome

Ccnb1, Kif23, Tcp1, Cdc20, Krt18, Ccnb2, Cdca8, Birc5, Dlgap5, Ckap2, Mcm3, Tacc3

4.1

1.0e-03

 Negative regulation of Wnt signaling

Gpc3, Hmga2, Nxn

4.0

3.4e-02

Down-regulated (35/80)

 mRNA processingc

Ddx3x, Ttc14, Clk4, Rps24, Eif4a2, Sfpq, Matr3, Clk1, Rbms1, Srsf11, Zfml

17.1

5.0e-11

 Unfolded & misfolded protein binding

Hsp90b1, Hspa5, Dnaja2, Dnajc3

10.6

3.2e-02

 Histone acetyl transferase activity

Crebbp, Ogt

9.1

2.1e-02

 Cysteine-type peptidase activity

Ctsb, Ctsh, Otud7b, Senp6, Usp3

8.7

1.2e-02

 Response to ER stress

Dnajc3, Hsp90b1, Hspa5, Itpr1, Pdia3, Pdia4

8.3

7.5e-03

 Nuclear body

Neat1, Sfpq, Malat1, Atrx, Crebbp

7.6

3.5e-02

 Regulation of chromosome organization

Atrx, Ogt, Paxbp1, Pten, Senp6, Sfpq

5.5

1.3e-02

 Wnt signaling pathway

Ddx3x, Ndrg2, Pten

3.1

4.7e-02

 Apoptotic signaling in response to DNA damage

Cdip1, Nupr1

2.8

3.3e-02

 Tumor suppressiond

Crebbp, Ddx3x, Eef1a1, Pten, Hsp90b1, Arhgef12

Nupr1, Pdcd4, Ndrg2

2.9

1.3e-03

  1. aUpon exclusion of repeats, unknowns and transcribed sequences, the 245 statistically significant probes at passage 14 (see Fig. 2) were reduced to 101 up-regulated and 80 down-regulated unique DEGs. These gene sub-sets were subjected to gene ontology (GO) analysis with WebGestalt (http://www.webgestalt.org/) using the hypergeometric test
  2. bMCM stands for minichromosome maintenance
  3. cFunction taken from WikiPathways analysis done with WebGestalt
  4. dFunction derived from the TSGene database (https://bioinfo.uth.edu//TSGene1.0/). A chi-square test with Yates correction was done with GraphPad online (http://graphpad.com/quickcalcs/contingency2/)
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BMC Genomics

ISSN: 1471-2164

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