[ensembl-dev] Reg: ensembl__homolog files
Premanand Achuthan
premanand.achuthan at cimr.cam.ac.uk
Wed Mar 6 14:05:46 GMT 2013
HI
Have noticed that there is no human gene identifiers in the
'hsapiens_gene_ensembl__homolog_mmus__dm' file in e70. It used to be
there in earlier versions (eg: e67).
ftp://ftp.ensembl.org/pub/release-67/mysql/ensembl_mart_67/hsapiens_gene_ensembl__homolog_mmus__dm.txt.gz
=> Had 16 columns
ftp://ftp.ensembl.org/pub/release-70/mysql/ensembl_mart_70/hsapiens_gene_ensembl__homolog_mmus__dm.txt.gz
=> Has 13 columns
Looking for gene PTPN22 in e67
*grep 'ENSG00000134242' hsapiens_gene_ensembl__homolog_mmus__dm.txt.e67*
0.18300 3 297698 Eutheria 103716170 103663718
ortholog_one2one *ENSG00000134242* \N 0.49670 71 \N
*ENSMUSG00000027843* ENSMUSP00000029433 ENSP00000352833 71
*grep 'ENSG00000134242' hsapiens_gene_ensembl__homolog_mmus__dm.txt.e70*
Returns nothing, but grep on it's mouse ortholog 'ENSMUSG00000027843'
gives result.
*grep 'ENSMUSG00000027843' hsapiens_gene_ensembl__homolog_mmus__dm.e70*
0.18290 3 477787 Eutheria 103859795 103912247
ortholog_one2one 0.49100 71 *ENSMUSG00000027843*
ENSMUSP00000029433 ENSP00000352833 71
Wondering why the human gene identifier column is not available anymore.
Could you please point me to the changelogs in Ensembl where I can get
more info about this change.
Thanks
Prem
==
premanand.achuthan at cimr.cam.ac.uk
JDRF/WT Diabetes and Inflammation Laboratory (DIL)
Cambridge Institute for Medical Research (CIMR)
Wellcome Trust/MRC Building
Addenbrooke's Hospital Hills Road Cambridge CB2 0XY
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