Table 3 Contents and websites of common DNA methylation databases

EWAS Data Hub

Reference sequence database

81 tissues/cell types (that contain 25 brain parts and 25 blood cell types), six ancestry categories, and 67 diseases (including 39 cancers)

https://bigd.big.ac.cn/ewas/datahub/

[125, 126]

iMETHYL

Reference sequence database

whole-DNA methylation (~ 24 million autosomal CpG sites), whole-genome (~ 9 million single-nucleotide variants), and whole-transcriptome (> 14,000 genes) data for CD4+ T-lymphocytes, monocytes, and neutrophils collected from approximately 100 subjects

http://imethyl.iwatemegabank.org/index.html/

[127]

MethBank

Reference sequence database

34 consensus reference methylomes, 336 single-base resolution methylomes and/or tissues of five plants, and 18 single-base resolution methylomes from two animals

http://bigd.big.ac.cn/methbank/

[128, 129]

MethCNA

Cancer-related database

10,000 tumor samples representing 37 cancer types

http://cgma.scu.edu.cn/MethCNA/

[130, 131]

MENT

Cancer-related database

It contains DNA methylation, gene expression, correlation of DNA methylation and gene expression in paired samples, and clinicopathological conditions gathered from the GEO and TCGA

http://mgrc.kribb.re.kr:8080/MENT/

[132]

Pubmeth

Cancer-related database

It collects and collates cancer-related methylation data from the literature and manually proofreads and reviews it to provide a high-quality database of cancer-related methylation genes

http://www.pubmeth.org/

[133]

SurvivalMeth

Cancer-related database

It has been developed to investigate the function of DNA methylation-related original effect on the prognosis of cancer, which documented many kinds of DMFEs, including 309,465 CpG island-related elements, 104,748 transcription-related elements, 77,634 repeat elements, and 1,689,653 cell-type-specific super-enhancers and 1,304,902 CTCF-binding regions for analysis

http://biobigdata.hrbmu.edu.cn/survivalmeth/

[134]