Questions about the source of T2T-CHM13 genetic map

[lsaeric]

I noticed that the T2T-CHM13 database does not list the genetic map for the T2T-CHM13 version. Is there any resource available to obtain the genetic map for the T2T-CHM13?

[arangrhie]

Hi @lsaeric , we have a cytoband annotation. Is this what you are looking for?

[lsaeric]

No, the genetic map I need is that can be used for calculating recombination rate.

Hi @lsaeric , we have a cytoband annotation. Is this what you are looking for?

[arangrhie]

Sorry, then I am not aware of it..! Do you have the genetic map for hg38? I could try lift that over to CHM13 if that'll be useful.

[lsaeric]

Sorry, then I am not aware of it..! Do you have the genetic map for hg38? I could try lift that over to CHM13 if that'll be useful.

Thank you, and you meant that there is not an available version of genetic map for T2T-CHM13 yet. Additionaly, the best approach to get the resource now is to liftover GRCh38 data to T2T-CHM13 coordinates?

[arangrhie]

Yes I am not aware of any genetic map for T2T-CHM13.

Additionaly, the best approach to get the resource now is to liftover GRCh38 data to T2T-CHM13 coordinates?

I believe so, although it may fall apart at some corner cases.

[arangrhie]

To those interested to follow up on this: https://pubmed.ncbi.nlm.nih.gov/40060455/