KEY RESOURCES TABLE
| Resource Type | Specific Reagent or Resource | Source or Reference | Identifiers | Additional Information |
|---|---|---|---|---|
| Add additional rows as needed for each resource type | Include species and sex when applicable. | Include name of manufacturer, company, repository, individual, or research lab. Include PMID or DOI for references; use “this paper” if new. | Include catalog numbers, stock numbers, database IDs or accession numbers, and/or RRIDs. RRIDs are highly encouraged; search for RRIDs at https://scicrunch.ora/resources. | Include any additional information or notes if necessary. |
| Deposited Data; Public Database | GSE80417 | NCBI GEO DataSets | RRID:SCR_005012; https://www.ncbi.nlm.nih.gov/gds | |
| Deposited Data; Public Database | GSE84727 | NCBI GEO DataSets | RRID:SCR_005012; https://www.ncbi.nlm.nih.gov/gds | |
| Deposited Data; Public Database | GSE116379 | NCBI GEO DataSets | RRID:SCR_005012; https://www.ncbi.nlm.nih.gov/gds | |
| Software; Algorithm | R version 3.5.0 | R Project for Statistical Computing | RRID:SCR_001905 | |
| Software; Algorithm | New Methylation Age Calculator | PMID:24138928 | https://dnamage.genetics.ucla.edu/new | Includes Horvath1, Horvath2, Hannum, PhenoAge, GrimAge, smoking pack-years, GDF-15, ADM, B2M, PAI-1, TIMP-1, Cystatin C, Leptin, and cell composition estimates |
| Software; Algorithm | Horvath1 epigenetic clock | PMID:24138928 | N/A | |
| Software; Algorithm | Horvath2 epigenetic clock | PMID:30048243 | N/A | |
| Software; Algorithm | Vidal-Bralo epigenetic clock | PMID:27471517 | N/A | |
| Software; Algorithm | Lin epigenetic clock | PMID:26110659 | N/A | |
| Software; Algorithm | Hannum epigenetic clock | PMID:23177740 | N/A | |
| Software; Algorithm | Weidner epigenetic clock | PMID:24490752 | N/A | |
| Software; Algorithm | Garagnani epigenetic clock | PMID:23061750 | N/A | |
| Software; Algorithm | Bocklandt epigenetic clock | PMID:21731603 | N/A | EDARADD |
| Software; Algorithm | GrimAge epigenetic clock | PMID:30669119 | N/A | Includes smoking pack-years, GDF-15, ADM, B2M, PAI-1, TIMP-1, Cystatin C, Leptin |
| Software; Algorithm | Levine PhenoAge epigenetic clock | PMID:29676998 | N/A | |
| Software; Algorithm | Zhang epigenetic clock | PMID:28303888 | N/A | continuous risk score |
| Software; Algorithm | MiAge epigenetic clock | PMID:29160179 | http://www.columbia.edu/~sw2206/softwares.htm | |
| Software; Algorithm | Yang epigenetic clock | PMID:27716309 | N/A | |
| Software; Algorithm | DNAmTL epigenetic clock | PMID:31422385 | N/A | |
| Software; Algorithm | McCartney smoking, alcohol, and BMI predictors | PMID: 30257690 | N/A | |
| Software; Algorithm | WGCNA R package v1.68 | CRAN; Peter Langfelder; PMID: 19114008 | RRID:SCR_003302 | |
| Software; Algorithm | ggcorrplot R package v0.1.2 | CRAN; Alboukadel Kassambara | N/A | |
| Software; Algorithm | factoextra R package v1.0.5 | CRAN; Alboukadel Kassambara | RRID:SCR_016692 |