tcruzi targets shared with leishmania, absent in tbrucei

Posted by Fernan Aguero on 2010-04-13 13:21:09

WARNING: This list was made prior to the version 4 release of TDR Targets (Aug, 2010). Some queries included in this list may not work properly. Most likely reasons for this are changes in parameters, and/or data updates. If you experience any problem, please try re-running each search from the search page.

List description

T. cruzi targets that are also present in Leishmania, but that are absent in T. brucei.

The prioritization strategy includes some other general (basic) attributes, apart from the phylogenetic ones, as described below:

Query #1 (amastigote expression >= 2 spectra / 2 peptides): 20
Query #10 (tcruzi all genes): 1
Query #11 (tcruzi not in humans): 80
Query #12 (tcruzi in leish): 90
Query #13 (tcruzi not in tbrucei): 150
Query #14 (tcruzi reagent availability): 30
Query #15 (tcruzi assay available): 30
Query #2 (is enzyme): 20
Query #3 (3D structure): 10
Query #4 (3D model): 10
Query #5 (any evidence of essentiality): 50
Query #6 (> 3 paralogs): -30
Query #7 (druggability > .5): 60
Query #8 (bibrefs): 25
Query #9 (low molecular weight (< 100 kDa)): 25

Click on the links below to browse the contents of each query. You can also use the checkboxes to select queries you would like to import into your history.
Import ranked queries into your history to redo the scoring strategy
  • amastigote expression >= 2 spectra / 2 peptides (589 records), 3
    • Query: Uploaded list
  • is enzyme (5474 records), 3
    • Species: tcr
    • Description: LIKE *fructokinase*
    • Is enzyme: Y
  • 3D structure (74 records), 3
    • Structures: PDB
    • Species: tcr
  • 3D model (7103 records), 3
    • Species: tcr
    • Structures: Modbase
  • any evidence of essentiality (2313 records), 3
    • Species: tcr
    • Essential: Any
  • > 3 paralogs (5442 records), 3
    • Species: tcr
    • Paralogs Number: > 3
  • druggability > .5 (325 records), 3
    • Species: tcr
    • Druggability evidence index: > .5
  • bibrefs (461 records), 3
    • Species: tcr
    • Pubmed: any
  • low molecular weight (< 100 kDa) (22872 records), 3
    • Species: tcr
    • Molecular weight: < 100000
  • tcruzi all genes (25013 records), 3
    • Species: tcr
  • tcruzi not in humans (20831 records), 3
    • Phylogenetic distribution: NOT IN hsa
    • Species: tcr
  • tcruzi in leish (11567 records), 3
    • Species: tcr
    • Phylogenetic distribution: IN lma
  • tcruzi not in tbrucei (12620 records), 3
    • Phylogenetic distribution: NOT IN tbr
    • Species: tcr
  • tcruzi reagent availability (205 records), 3
    • Species: tcr
    • Recombinant soluble protein: Yes
  • tcruzi assay available (334 records), 3
    • Assay available: Yes
    • Species: tcr
  • Union of (1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15) (25013 records), 3
    • Score for genes in query #12 (tcruzi in leish): 90
    • Score for genes in query #15 (tcruzi assay available): 30
    • Score for genes in query #4 (3D model): 10
    • Score for genes in query #13 (tcruzi not in tbrucei): 150
    • Score for genes in query #14 (tcruzi reagent availability): 30
    • Score for genes in query #7 (druggability > .5): 60
    • Score for genes in query #11 (tcruzi not in humans): 80
    • Score for genes in query #1 (amastigote expression >= 2 spectra / 2 peptides): 20
    • Score for genes in query #5 (any evidence of essentiality): 50
    • Score for genes in query #9 (low molecular weight (< 100 kDa)): 25
    • Score for genes in query #10 (tcruzi all genes): 1
    • Score for genes in query #8 (bibrefs): 25
    • Score for genes in query #2 (is enzyme): 20
    • Score for genes in query #6 (> 3 paralogs): -30
    • Score for genes in query #3 (3D structure): 10