Liftover chain D. melanogaster to human

[Daniel Kużnicki]

Hello,

my names is Daniel Kuznicki and I work in PAS in Poland about the non-coding RNA evolution in different organisms. So I have a question. If it is possible to produce liftover chain between Drosophila melanogaster and Human? I know that between vertebrates and invertebrates it is hard but when I check genomic data for D. melanogaster in UCSC genome browser and I load the track "Other mRNAs" from "mRNA and EST" category I find that there are some predictions to human using translated blat method. So maybe according to these predictions it is possible to built this liftover chain?

Best,

Daniel Kuznicki

[Hiram Clawson]

Good Evening Daniel:

We do not typically run such comparisons since they reveal very little in
common between two such distant genomes. The liftOver files can be
found here:

https://hgdownload-test.gi.ucsc.edu/goldenPath/hg38/liftOver/hg38ToDm6.over.chain.gz
https://hgdownload-test.gi.ucsc.edu/goldenPath/dm6/liftOver/dm6ToHg38.over.chain.gz

The coverage of dm6 on hg38 is: % 0.321
# 9997882 bases of 3110768607 (0.321%) in intersection

and the coverage of hg38 on dm6 is: % 2.777
# 3959351 bases of 142573024 (2.777%) in intersection

--Hiram

On 9/7/22 3:56 AM, Daniel Kużnicki wrote:
> Hello, my names is Daniel Kuznicki and I work in PAS in Poland about the non-coding RNA evolution in different organisms. So I have a question. If it is possible to produce liftover chain between Drosophila melanogaster and Human? I know that between vertebrates and invertebrates it is hard but when I check genomic data for D. melanogaster in UCSC genome browser and I load the track "Other mRNAs" from "mRNA and EST" category I find that there are some predictions to human using translated blat method. So maybe according to these predictions it is possible to built this liftover chain? Best, Daniel Kuznicki
>