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

Table 3

Pathways of hypermethylated genes.

Path_id	Path_name	Diffgene; _count	𝑃 value	FDR
5200	Pathways in cancer	41	2.22𝐸−05	1.15𝐸−03
5120	Epithelial cell signaling in Helicobacter pylori infection	14	1.11𝐸−04	2.86𝐸−03
3050	Proteasome	10	5.40𝐸−04	7.31𝐸−03
4144	Endocytosis	26	5.83𝐸−04	7.53𝐸−03
4062	Chemokine signaling pathway	24	1.20𝐸−03	9.49𝐸−03
4666	Fc gamma R-mediated phagocytosis	15	1.48𝐸−03	9.98𝐸−03
4650	Natural killer cell mediated cytotoxicity	19	1.75𝐸−03	1.03𝐸−02
5211	Renal cell carcinoma	12	2.13𝐸−03	1.07𝐸−02
5210	Colorectal cancer	11	2.54𝐸−03	1.09𝐸−02
4670	Leukocyte transendothelial migration	16	3.92𝐸−03	1.40𝐸−02
4612	Antigen processing and presentation	12	4.43𝐸−03	1.49𝐸−02
4360	Axon guidance	17	4.74𝐸−03	1.54𝐸−02
4012	ErbB signaling pathway	13	4.91𝐸−03	1.57𝐸−02
310	Lysine degradation	9	5.37𝐸−03	1.63𝐸−02
4740	Olfactory transduction	38	6.37𝐸−03	1.80𝐸−02

This table shows parts of 46 pathways of genes with hypermethylation in 25 MDS patients. Path_id: gene ID number in KEGG database; Path_name: pathway of gene; diffgene_count: number of gene methylated in specific pathway; 𝑃 value: 𝑃<0.01 indicating methylation is significant; FDR: false discovery rate, 𝑃<0.05 as filter cutoff rate.