@honghh2018 You can use the mouse or human motif table and replace the gene_name column with the homologous gene for rat.

Open Lidw2020 opened this issue 2 years ago • 0 comments

          @honghh2018 You can use the mouse or human motif table and replace the gene_name column with the homologous gene for rat.

You can get them for example with Ensembl biomart: http://www.ensembl.org/biomart/martview/52da5ebcda00ffbf86e66e48d107b54a?VIRTUALSCHEMANAME=default&ATTRIBUTES=mmusculus_gene_ensembl.default.homologs.external_gene_name|mmusculus_gene_ensembl.default.homologs.rnorvegicus_homolog_associated_gene_name&FILTERS=mmusculus_gene_ensembl.default.filters.with_rnorvegicus_homolog.only&VISIBLEPANEL=resultspanel

Originally posted by @ghuls in https://github.com/aertslab/create_cisTarget_databases/issues/3#issuecomment-891670744

Thank you very much for sharing,I successfully run the scripts on Arabidopsis for *.feather file，but, I do not know how to build the motif2TF(JASPAR_Ath.tbl) database,could you please share the method with me, thank you !

Feb 21 '23 08:02 Lidw2020