Psicquic channels

From DISI
Jump to navigation Jump to search
The printable version is no longer supported and may have rendering errors. Please update your browser bookmarks and please use the default browser print function instead.

Target-Target Channels (tt)

  • 1. Sea prediction (T-T) (swissprot to swissprot)
  • 2. blast similarity (Evalue)
  • 3. co-expression data from Matt (100 to 0 percentile rank)
  • 4. shared ligand, 1uM or better
  • 5. PPI (biogrid, experimental)

Target-Compound Channels (ct)

  • 1. Experimental binder, is bioactive and binds 1uM or better per chembl20 (chebi name to swissprot name)
  • 2. is a drug and binds target 10uM or better
  • 3. Is biogenic and binding 1uM or better
  • 4. is and endogenous metabolite for this target
  • 5. SEA prediction (TC, P-value) (chebi to swissprot)

= Compound-Compound Channels (cc)

  • 1. EBI compound (chebi) to ZINC (zincid)
  • 2. nearest metabolite, drug, biogenic, purchasable
  • NB not supported at our client, but we can still prepare for it


how to restart the server

  • become root on zeta
  • create screen and su to psicquic
  • cd psicquic-solr-ws-1.3.14 (or latest)
  • bash startPsicquicServerAndSolr.sh /home/psicquic/solr11 ( to start server)
  • optional: to rebuild data: bash indexMitab.sh /home/psicquic/channel2a.txt /home/psicquic/solr/