Prioritizing the Trypanosoma cruzi genome using SNPs

Posted by Alejandro Ackermann on 2010-03-04 11:15:50

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

We use the TDR Targets database to classify coding sequences from the Trypanosoma cruzi genome according to their nucleotide diversity and properties of interest in a target.

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
  • Ortholog is essential in C. elegans (1281 records), 3
    • Species: tcr
    • Essential: mtu essential
  • Has orthologs in other trypanosomatids (7504 records), 3
    • Paralogs Number: = 2
    • Species: tcr
    • Phylogenetic distribution: IN tcr, IN lma, IN tbr
  • Does not have orthologs in human/mouse (20730 records), 3
    • Species: tcr
    • Phylogenetic distribution: NOT IN mmu, NOT IN hsa
  • Assayability - Assay Available (334 records), 3
    • Assay available: Yes
    • Species: tcr
  • Assayability - Recombinant soluble protein available (205 records), 3
    • Species: tcr
    • Recombinant soluble protein: Yes
  • Available publications in PubMed (460 records), 3
    • Species: tcr
    • Pubmed: any
  • Mol weight is under 100kDa (22872 records), 3
    • Molecular weight: < 100000
    • Species: tcr
  • At least one trans-membrane domain (6065 records), 3
    • Number of TM segments: > 0
    • Species: tcr
  • With more than 3 copies in the genome (paralogues) (6333 records), 3
    • Paralogs Number: > 2
    • Species: tcr
  • Has a GPI anchor (predicted) (2131 records), 3
    • GPI Anchor: Y
    • Species: tcr
  • Has a signal peptide (predicted) (4347 records), 3
    • Signal Peptide: Y
    • Species: tcr
  • Has an annotated EC number (730 records), 3
    • EC: any
    • Species: tcr
  • Non-druggable genes, ranked by an inverted nucleotide diversity score (4604 records), 3
    • Query: Uploaded list
    • Unmatched identifiers: (1050) ; (1052) ; (1054) ; (1054) ; (1054) ; (1054) ; (1054) ; (1055) ; (1057) ; (1060) ; (1061) ; (1061) ; (1061) ; (1061) ; (1064) ; (1064) ; (1064) ; (1064) ; (1065) ; (1065) ; (1066) ; (1067) ; (1067) ; (1067) ; (1067) ; (1068) ; (1068) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1069) ; (1070) ; (1070) ; (1071) ; (1071) ; (1072) ; (1072) ; (1072) ; (1073) ; (1073) ; (1075) ; (1076) ; (1076) ; (1076) ; (1077) ; (1077) ; (1077) ; (1078) ; (1079) ; (1080) ; (1081) ; (1081) ; (1081) ; (1081) ; (1081) ; (1081) ; (1081) ; (1081) ; (1081) ; (1081) ; (1081) ; (1081) ; (1081) ; (1082) ; (1082) ; (1086) ; (1087) ; (1088) ; (1088) ; (1089) ; (1089) ; (1089) ; (1089) ; (1089) ; (1089) ; (1089) ; (1089) ; (1089) ; (1089) ; (1090) ; (1091) ; (1091) ; (1092) ; (1093) ; (1094) ; (1094) ; (1095) ; (1096) ; (1097) ; (1098) ; (1098) ; (1098) ; (1098) ; (1099) ; (1099) ; (1099)
  • Union of (4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 24) (24951 records), 3
    • Score for genes in query #12 (Paralogos): -3
    • Score for genes in query #15 (EC ): 3
    • Score for genes in query #8 (Assayability - Soluble): 5
    • Score for genes in query #4 (Essential (-C. elegans)): 23
    • Score for genes in query #24 (PiNoDrug4 WARNING: we were unable to find some of the genes in your list!): weighted list
    • Score for genes in query #9 (Pubmed): 7
    • Score for genes in query #10 (PM 100kDa): 3
    • Score for genes in query #5 (Trypanosomatids): 7
    • Score for genes in query #7 (Assayability - Assay Available): 5
    • Score for genes in query #11 (TM): -3
    • Score for genes in query #6 (Not In Mammals): 11
    • Score for genes in query #13 (GPI): -3
    • Score for genes in query #14 (Signal Peptide): -3