Posts tagged Ondex

Monday

May 24th

Posted by Andrew in Ondex

1 comment

Browsed other Ondex filter classes for solutions to the iterator problem:

Exception in thread "main" java.lang.NoSuchMethodError: net.sourceforget.ondex.core.ONDEXView.iterator()Ljava/util/Iterator;

Tried a number of methods but still getting the Iterator error no matter what.

Trying a Set/HashSet approach.

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Ondex Dataset

May 20th

Posted by Andrew in Ondex

No comments

ConceptClasses

  • Compound (Chemical Compound (used as drug))
  • Disease (Human Diseases)
  • EC
  • Protein
  • Publication
  • Target (Target of Compound concept)

RelationTypes

  • bi_to (binds to)
  • cat_c (catalysing class)
  • inv_in (involved in)
  • h_s_s
  • is_a
  • it_wi (interacts with)
  • pub_in (published in)
  • r (is related to)
  • sim

Data Sources

  • UC (Unclassified)
  • UC:UNIPROTKB (Collapsed CV Set)
  • UNIPROTKB

Evidence Types

  • ACC (Accession based mapping)
  • BLAST (BLAST based mapping)
  • IMPD (Imported from database)
  • IMPD_MANUALLY_CURATED
Dusteride

Ondex

May 19th

Posted by Andrew in Ondex

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Downloaded latest version of the Ondex Visualisation Suite (May 2010).
Discovered the compound Dutasteride within the dataset. After using the neighbourhood filter, the results showed that it is linked with Finasteride and Azelaic Acid (hair growth stimulant) are linked to treatment of benign prostatic hyperplasia (BPH) and off-label treatment of male pattern baldness (MPB).

Dusteride

Ondex Network Visualisation

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