Zymoseptoria tritici
Zymoseptoria tritici Release Notes
The Zymoseptoria tritici knowledge network contains:
Datasets used for integration
Gene-Protein [Ensembl]
Zymoseptoria_tritici.MG2.36.gff3
Zymoseptoria_tritici.MG2.pep.all.fa
Mapping File from
Ensembl BioMart
Protein Domain [Ensembl]
InterPro Protein Domains from
Ensembl BioMart
Sequence alignments to other Ascomycetes [Decypher, UniprotKB]
Protein@Z.tritici-Protein@Ascomycetes::UniProtKB-SP [Smith-Waterman]
Ascomycetes XML
Publications [PubMed]
Z.tritici publications XML
XML
filter publications that are unconnected, i.e. not linked via citation or text-mining
Gene-Phenotype [PHI-base]
PHI-base Pathogen Phenotypes from
Ensembl BioMart
Protein-Phenotype [PHI-base]
TAB
Sequence alignments to PHI-base Proteins [Decypher]
Protein@Z.tritici-Protein@PHI-base [Smith-Waterman]
Gene-Phenotype [Text-Mining]
Created Gene-Phenotype sentence based co-occurences in PubMed abstracts
apo.owl
omp.owl
fypo.owl
s
Yeast (
Saccharomyces cerevisiae
)
Gene-Protein [Ensembl]
Saccharomyces_cerevisiae.R64-1-1.36.gff3
Saccharomyces_cerevisiae.R64-1-1.pep.all.fa
Ensembl - SGD Mapping from
Ensembl BioMart
Ensembl - UniProtKB Mapping from
Ensembl BioMart
Protein Pathway [YeastCyc, UniProtKB]
YeastCyc Release 15
biopax-level2.owl
translation.tab
UniProtKB - BioCyc Mapping File
Gene-Phenotype [SGD]
phenotype_data.tab
Gene-Publication [SGD]
gene_literature.tab
Protein-Publication [UniProtKB]
Sc Proteome xml
Protein-Protein Interactions [BioGRID]
TAB
Version 3.4.146
Gene-GO [GOA]
Include all evidence types
GAF 2.0
Ondex GAF parser requires additional mapping file of feature type ->
Ondex Concept Class
Protein Domain [SGD]
domains.tab
Aspergillus nidulans
Gene-Protein [Ensembl, AspGD]
Aspergillus_nidulans.ASM1142v1.36.gff3
Aspergillus_nidulans.ASM1142v1.pep.all.fa
Mapping File from
Ensembl BioMart
Ensembl - AspGD Mapping from
Ensembl BioMart
AspGD - UniProtKB Mapping from
Ensembl BioMart
Protein-Protein Interactions [BioGRID, Ensembl]
TAB
Version 3.4.146
Protein ID Mapping File from
Ensembl BioMart
Gene-GO [GOA]
Include all evidence types
GAF 2.0
Ondex GAF parser requires additional mapping file of feature type ->
Ondex Concept Class
Gene-Phenotype [AspGD]
A_nidulans_phenotype_data.tab
Protein Domain [AspGD]
A_nidulans_FGSC_A4_iprscan.out
Protein ID Mapping
Protein-Publication [UniProtKB]
An Proteome xml
Neurospora crassa
Gene-Protein [Ensembl]
Neurospora_crassa.NC12.pep.all.fa
Neurospora_crassa.NC12.36.gff3
Mapping File from
Ensembl BioMart
Ensembl - UniProtKB Mapping
Protein Domain [Ensembl]
InterPro Protein Domains from
Ensembl BioMart
Protein-Publication [UniProtKB]
Nc Proteome xml
Fusarium graminearum
Gene-Protein [Ensembl]
Fusarium_graminearum.RR1.36.gff3
Fusarium_graminearum.RR1.pep.all.fa
Mapping File from
Ensembl BioMart
Old Gene Id
Protein Domain [Ensembl]
InterPro Protein Domains from
Ensembl BioMart
Sequence alignments to other Ascomycetes [Decypher, UniprotKB]
Protein@F.graminearum-Protein@Ascomycetes::UniProtKB-SP [Smith-Waterman]
Ascomycetes XML
Publications [PubMed]
F.graminearum publications XML
XML
filter publications that are unconnected, i.e. not linked via citation or text-mining
Gene-Phenotype [PHI-base]
PHI-base Pathogen Phenotypes from
Ensembl BioMart
Protein-Phenotype [PHI-base]
TAB
Sequence alignments to PHI-base Proteins [Decypher]
Protein@F.graminearum-Protein@PHI-base [Smith-Waterman]
Gene-Phenotype [Text-Mining]
Created Gene-Phenotype sentence based co-occurences in PubMed abstracts
apo.owl
omp.owl
fypo.owl
Homology [Ensembl]
Data was downloaded from
Ensembl BioMart
Homologs F. graminearum - A. nidulans
Homologs F. graminearum - Yeast
Homologs F. graminearum - N. crassa
Homologs F. graminearum - Z. tritici
Homologs Z. tritici - A. nidulans
Homologs Z. tritici - Yeast
Homologs Z. tritici - N. crassa
Homologs Z. tritici - F. graminearum
Ontologies
go-basic.obo
ec2go.txt