Tgon generic query set

Posted by Dany Shanmugam on 2011-03-25 19:50:47

List description

This Query set was constructed based on the generic queries that were run for identifying targets from various pathogens (see PLOS NTD paper) with few modifications. The top 100 from this list will be used for prioritizing targets for the structural genomics consortia.

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
  • Tgon any EC number (556 records), 3
    • EC: any
    • Species: tgo
  • Tgon all proteins (9213 records), 3
    • Species: tgo
  • Tgon dindex >=0.6 (214 records), 3
    • Species: tgo
    • Druggability evidence index: >= 0.6
  • Tgon no TM domain (5938 records), 3
    • Species: tgo
    • Number of TM segments: = 0
  • Tgon PDB structure (20 records), 3
    • Structures: PDB
    • Species: tgo
  • Tgon modbase (1499 records), 3
    • Species: tgo
    • Structures: Modbase
  • Tgon Mwt <100K (7201 records), 3
    • Molecular weight: < 100000
    • Species: tgo
  • Tgon any essentiality (1295 records), 3
    • Essential: Any
    • Species: tgo
  • Tgon assayable (213 records), 3
    • Species: tgo
    • Assay available: Yes
  • Tgon Pubmed (339 records), 3
    • Pubmed: any
    • Species: tgo
  • Tgon in all apicomplexa (12 species - 6 plasmodia, 4 cryptosporidia, 1 Neospora, 1 babesia) (888 records), 3
    • Species: tgo
    • Phylogenetic distribution: IN bbo, IN cmu, IN pkn, IN pvi, IN cne, IN pbe, IN pyo, IN cpv, IN cho, IN pfa, IN nca, IN pch
  • Tgon not in human (6934 records), 3
    • Species: tgo
    • Phylogenetic distribution: NOT IN hsa
  • Tgon in Coccidia (5 species - 4 cryptosporiadia, 1 Neospora) (920 records), 3
    • Phylogenetic distribution: IN cmu, IN cel, IN cne, IN cho, IN nca
    • Species: tgo
  • Weighted union of Tgon queries (9213 records), 3
    • Score for genes in query #31 (Tgon no TM domain): 20
    • Score for genes in query #27 (Tgon any EC number): 99
    • Score for genes in query #38 (Tgon Pubmed): 35
    • Score for genes in query #30 (Tgon dindex >=0.6): 35
    • Score for genes in query #40 (Tgon not in human): 25
    • Score for genes in query #39 (Tgon in all apicomplexa (12 species - 6 plasmodia, 4 cryptosporidia, 1 Neospora, 1 babesia)): 75
    • Score for genes in query #33 (Tgon modbase): 30
    • Score for genes in query #29 (Tgon all proteins): 1
    • Score for genes in query #41 (Tgon in Coccidia (5 species - 4 cryptosporiadia, 1 Neospora)): 25
    • Score for genes in query #35 (Tgon any essentiality): 50
    • Score for genes in query #32 (Tgon PDB structure): 50
    • Score for genes in query #37 (Tgon assayable): 35
    • Score for genes in query #34 (Tgon Mwt <100K): 20