Table 2.
Analyze software models
| Analysis | Software or database | Version |
|---|---|---|
| Data QC | Cutadapt [22] | Version 1.9.1 |
| Mapping | Bismark [23] | Version 0.7.12 |
| Differeantial mCpG sites | MethylKit [24] | Version 3 0.7.12 |
| Detection and annotaion | Samtools [25] | Version1.6 |
| Annovar [26] | Version 21 Feb 2013 | |
| DMR | swDMR [27] | Version 1.0.7 |
| Annovar [26] | Version 21 Feb 2013 | |
| Enrichment analysis | GO Database [28, 29] | |
| KEGG Database [30, 31] | Version 03/21/2011 |
addresses
• GO DataBase: http://geneontology.org/
• KEGG DataBase: http://www.genome.jp/kegg/kegg1.html
• Bismark: http://www.bioinformatics.babraham.ac.uk/projects/bismark/
• MethylKit: https://github.com/al2na/methylKit