[ensembl-dev] Reg: ensembl__homolog files

Premanand Achuthan premanand.achuthan at cimr.cam.ac.uk
Wed Mar 6 14:05:46 GMT 2013


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).

=> Had 16 columns
=> 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.


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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