Version: Next

Data files to integrate

All data required to build an InterMine is included in biotestmine/data/malaria-data.tar.gz. Copy this file to your local directory and extract from the archive.

cp biotestmine/data/malaria-data.tar.gz DATA_DIR
cd DATA_DIR
tar -zxvf malaria-data.tar.gz

Edit the project.xml file so that all occurrences of ''DATA_DIR'' point to the your local data directory location.

Data sources#

malaria-genome#

The malaria genome as gff3 and fasta, originally downloaded from PlasmoDB

uniprot#

UniProt XML with protein information and sequences from SwissProt and Trembl. Downloaded from uniprot.org and filtered on taxon id 36329.

gene_ontology#

The Gene Ontology structure. Downloaded from http://www.geneontology.org/

go_annotation#

GO term assignments for P. falciparum. Downloaded from http://www.geneontology.org/

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