Karyotype and DNA-Methylation Responses in Myelodysplastic Syndromes following Treatment with Traditional Chinese Formula Containing Arsenic

Table 2

Functions of genes with hypermethylation.

Go_id	Go_name	Diffgene; _count	𝑃 value	FDR
GO:0050896	Response to stimulus	51	3.16𝐸−22	2.73𝐸−19
GO:0006355	Regulation of transcription, DNA-dependent	141	7.10𝐸−17	3.07𝐸−14
GO:0007275	Multicellular organismal development	105	2.50𝐸−16	7.23𝐸−14
GO:0045893	Positive regulation of transcription,; DNA-dependent	59	7.24𝐸−11	1.57𝐸−08
GO:0007165	Signal transduction	115	1.58𝐸−10	2.73𝐸−08
GO:0000278	Mitotic cell cycle	37	5.86𝐸−08	7.84𝐸−06
GO:0006811	Ion transport	60	7.95𝐸−08	9.83𝐸−06
GO:0006915	Apoptosis	61	2.62𝐸−07	2.54𝐸−05
GO:0007264	Small GTPase mediated signal transduction	38	2.69𝐸−07	2.59𝐸−05
GO:0006810	Transport	59	4.52𝐸−07	3.58𝐸−05
GO:0006357	Regulation of transcription from RNA polymerase II promoter	31	4.58𝐸−07	3.61𝐸−05
GO:0016568	Chromatin modification	26	5.63𝐸−07	4.06𝐸−05
GO:0007049	Cell cycle	42	6.84𝐸−07	4.55𝐸−05
GO:0000122	Negative regulation of transcription from RNA polymerase II promoter	44	1.50𝐸−06	9.12𝐸−05
GO:0006281	DNA repair	33	2.47𝐸−06	1.36𝐸−04

This table shows parts of 156 category functions of genes with hypermethylation in 25 MDS patients. go_id: gene ID number in Gene Ontology database; go_name: category of function of gene; diffgene_count: number of gene methylated; 𝑃 value: 𝑃<0.01 indicating methylation is significant; FDR: false discovery rate, 𝑃<0.05 as filter cutoff rate.