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yiluyucheng / dnaMethyAge

Predict epigenetic age from DNA methylation data
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Request for all publications on available clocks #16

Open liuliuliu2009 opened 1 month ago

liuliuliu2009 commented 1 month ago

Hi,

Thank you for your hard work!

I get 24 available age clocks using the availableClock() function, but README.md only mentions 16. Could you kindly provide me with all the published information about these clocks? I would be very grateful

yiluyucheng commented 1 month ago

Other than the clocks listed in README.md. CBL_specific, CBL_common and Cortex_common are all from https://link.springer.com/article/10.1007/s11357-023-00871-w; LuA2023p1 is from https://doi.org/10.1038/s43587-023-00499-7; All PC clocks are from https://doi.org/10.1038/s43587-022-00248-2.

liuliuliu2009 commented 1 month ago

Thanks for your reply! I have another question. I noticed there's an parameter, 'inputation' . When should I set inputation = FALSE? Also, when inputation = TRUE, it uses the golden_ref dataset. Could you let me know where this golden_ref dataset comes from?

yiluyucheng commented 1 month ago

It is recommended to apply the imputation when a large number of probes missing in any one of the samples. The ‘golden_ref’ was defined as mean methylation beta values across CpGs from a large cohort, please refer to GSE55763 for more information.

liuliuliu2009 commented 1 month ago

Thank you again for your reply！