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Table 2 Top 20 gene ontology (GO) terms of differentially expressed genes between CotG-p40 treated cells and control cells

From: Transcriptional responses of human intestinal epithelial HT-29 cells to spore-displayed p40 derived from Lacticaseibacillus rhamnosus GG

GO ID

GO Description

Corrected p valuea

Cluster frequencyb

Total frequencyc

48,513

organ development

9.04E-03

27/107 (10.0%)

1792/17785 (10.0%)

48,731

system development

9.04E-03

32/107 (29.9%)

2422/17785 (13.6%)

42,471

ear morphogenesis

1.97E-02

5/107 (4.6%)

66/17785 (0.3%)

34,754

cellular hormone metabolic process

1.97E-02

5/107 (4.6%)

66/17785 (0.3%)

9913

epidermal cell differentiation

1.97E-02

5/107 (4.6%)

66/17785 (0.3%)

48,856

anatomical structure development

1.97E-02

32/107 (29.9%)

2656/17785 (14.9%)

8285

negative regulation of cell proliferation

2.26E-02

10/107 (9.3%)

379/17785 (2.1%)

90,068

positive regulation of cell cycle process

2.26E-02

4/107 (3.7%)

43/17785 (0.2%)

42,573

retinoic acid metabolic process

2.26E-02

3/107 (2.8%)

17/17785 (0.0%)

9888

tissue development

2.26E-02

14/107 (13.0%)

750/17785 (4.2%)

30,728

ovulation

2.26E-02

3/107 (2.8%)

18/17785 (0.1%)

48,598

embryonic morphogenesis

2.26E-02

9/107 (8.4%)

336/17785 (1.8%)

60,429

epithelium development

2.26E-02

9/107 (8.4%)

337/17785 (1.8%)

48,562

embryonic organ morphogenesis

2.26E-02

6/107 (5.6%)

140/17785 (0.7%)

7166

cell surface receptor linked signaling pathway

2.26E-02

19/107 (17.7%)

1280/17785 (7.1%)

42,904

9-cis-retinoic acid biosynthetic process

2.26E-02

2/107 (1.8%)

4/17785 (0.0%)

42,905

9-cis-retinoic acid metabolic process

2.26E-02

2/107 (1.8%)

4/17785 (0.0%)

35,238

vitamin A biosynthetic process

2.26E-02

2/107 (1.8%)

4/17785 (0.0%)

7275

multicellular organismal development

2.26E-02

33/107 (30.8%)

2971/17785 (16.7%)

6692

prostanoid metabolic process

2.41E-02

3/107 (2.8%)

21/17785 (0.1%)

  1. aCorrected p-value: After correction, the p value in the hypergeometric test
  2. bCluster frequency: the numerator represents the number of each GO term genes and the denominator represents the total number of genes with GO annotation
  3. cTotal frequency: the numerator represents the number of reference genes annotated in the listed GO term and the denominator represents the number of reference genes with GO annotation