Summary of available data:

As you can imagine, some types of data are not available for all organisms in TDR Targets (genome-wide knockouts is a good example). The reasons for this may vary: sometimes this is because the experimental data is lacking for a particular organism, sometimes it's because we need to process and check the data before loading; and yet sometimes it's because gathering and/or production of data is slow, as is the case for the manual curation of target validation credentials. In the table below we have tried to summarize the current status of data availability for each organism in TDR Targets.

If your queries are returning zero genes, you are probably searching on an attribute for which we have no data. Please check the table below for more details.

You may check for column descriptions below the summary table

Species Total Proteins Annotation Models & Structures Essentiality Targets Drugs
PFAM
Gene Ontologies
EC numbers
Pathways
Assays
PDB
Modbase
Known essential
Orthology inference
Known Targets
Orthology inference
Network inference
Total Known drugs
Curated
Orthology inference
Network inference
Babesia bovis
Brugia malayi
Candida albicans
Chlamydia trachomatis
Cryptosporidium hominis
Cryptosporidium parvum
Echinococcus granulosus
Echinococcus multilocularis
Entamoeba histolytica
Giardia lamblia
Leishmania braziliensis
Leishmania donovani
Leishmania infantum
Leishmania major
Leishmania mexicana
Loa Loa (eye worm)
Mycobacterium leprae
Mycobacterium tuberculosis
Mycobacterium ulcerans
Neospora caninum
Onchocerca volvulus
Plasmodium berghei
Plasmodium falciparum
Plasmodium knowlesi
Plasmodium vivax
Plasmodium yoelii
Schistosoma japonicum
Schistosoma mansoni
Theileria parva
Toxoplasma gondii
Treponema pallidum
Trichomonas vaginalis
Trypanosoma brucei
Trypanosoma brucei gambiense
Trypanosoma congolense
Trypanosoma cruzi
Wolbachia endosymbiont of Brugia malayi

Data summary details

Annotation

  • Orthology Groups: Number of proteins on TDR Targets database mapped to an ortholog group for that species.
  • PFAM: Number of proteins on TDR Targets database with at least one PFAM domain assigned.
  • Gene Ontologies: Number of proteins on TDR Targets database with at least one Gene Ontology assigned.
  • EC Numbers: Number of proteins on TDR Targets database with at least one EC number assigned.
  • Pathways: Number of proteins on TDR Targets database for which at least one Pathway has been mapped.
  • Assays: Number of proteins on TDR Targets database with at least one described assay.

Structures & Models

  • PDB: Number of proteins with PDB accessions mapped to a species
  • Modbase: Number of homology modeled proteins

Essentiality

  • Known essential: Number of proteins which have been described as essential (for at least one life-cycle stage).
  • Orthology Inference: Number of proteins sharing an orthology group with a known essential gene in a related species (This inference was not done for species having genome-wide essentiality analysis)

Targets

  • Known Targets: Number of proteins with evidence of chemical modulation through a small molecule
  • Orthology Inference: Number of proteins sharing an orthology group with a known druggable protein.
  • Network Inference: Number of proteins in Druggability Groups 2 or higher.

Drugs

  • Total Known Drugs: Number of known drugs capable of chemically modulating a known druggable target.
  • Orthology Inference: Number of drugs capable of chemically modulating a protein that shares an orthology group with a target of this species
  • Curated: Number of drugs that have been manually curated for this species.
  • Network Inference: Number of drugs that have been shown active in whole-cell assays and for which Network Derived Predictions have suggested at least one target.