Genomes with existing T2T assemblies?

Question

[predeus]

Dear Biostars community,

I was wondering if there's a repository or a tracker of some kind that shows the existing T2T genome assemblies?

Thank you in advance!

-- Alex

Answer 1

[cmdcolin]

this is perhaps one angle which is to search NCBI Genomes for "Complete" genome assemblies. The levels of completeness are contig->scaffold->chromosome->complete, so complete might be a proxy for T2T type quality.

All "complete" genomes (current 249,293)

https://www.ncbi.nlm.nih.gov/datasets/genome/?taxon=1&assembly_level=3:3

All complete genomes marked "reference" (6,360)

https://www.ncbi.nlm.nih.gov/datasets/genome/?taxon=1&reference_only=true&assembly_level=3:3

All "complete" eukaryotic genomes (current 711)

https://www.ncbi.nlm.nih.gov/datasets/genome/?taxon=2759&assembly_level=3:3

All "complete" eukaryotic genomes marked reference (current 239). human CHM13-T2T is not currently marked as the reference, so it is not in this final list, but it's in the previous one

https://www.ncbi.nlm.nih.gov/datasets/genome/?taxon=2759&reference_only=true&assembly_level=3:3

Answer 2

[GenoMax]

A PubMed search produces useful results: https://pubmed.ncbi.nlm.nih.gov/?term=telomere-to-telomere+assembly Some entries may be redundant.