PPLRE RR Algorithm - Cooccurrence

This page describes the configuration of the Coocurrence Relation Recognition Algorithm for its application to the PPLRE Evaluation task. (For information on this algorithm's Performance please see PPLRE Evaluation - Cooccurrence).

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Overview

To apply PPLRE Naive Algorithm to the task the following approach was taken:

These configuration decisions are implemented via the configuration file.

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v2.3

• Release Date: 070318

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v2.1

• Release Date: 060511
• 57 of them.
• Passages involve two sentences.
• The pattern is: any two consecutive sentences; with one Organism; one or two Localizations; one, two or three proteins; one or two Spatial terms; and one or two Laboratory_Procedure terms.
• None of the documents tested overlap with any of the ones in v1.0 of the database.
• LocalizationID is started at 151. (See also DocumentReference attribute).
• ProteinID starts at 10000. (See also PredictedProteinName attribute)

• For Future
  • In the next version we should remove PMID and PMCID from DocumentReference and have them instead looked up in the concordance table
    • I had to match my documents to the latest version of the concordance (which I have also attached)
  • One of the challenges with populating the database (the way that we are now) is that LocalizationID is AutoNumbered. :-/
  • We should increase the corpora otherwise we will run out of predictions.
  • How about proposing that the next version be release in two weeks in order to give us time to take the time to automate the process. There is a lot of time spent on manual work.

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