title: Development and tuning of an original search engine for patent libraries in medicinal chemistry.
abstract: BACKGROUND
  The large increase in the size of patent collections has led to the need of efficient search strategies. But the development of advanced text-mining applications dedicated to patents of the biomedical field remains rare, in particular to address the needs of the pharmaceutical & biotech industry, which intensively uses patent libraries for competitive intelligence and drug development.
  
  
  METHODS
  We describe here the development of an advanced retrieval engine to search information in patent collections in the field of medicinal chemistry. We investigate and combine different strategies and evaluate their respective impact on the performance of the search engine applied to various search tasks, which covers the putatively most frequent search behaviours of intellectual property officers in medical chemistry: 1) a prior art search task; 2) a technical survey task; and 3) a variant of the technical survey task, sometimes called known-item search task, where a single patent is targeted.
  
  
  RESULTS
  The optimal tuning of our engine resulted in a top-precision of 6.76% for the prior art search task, 23.28% for the technical survey task and 46.02% for the variant of the technical survey task. We observed that co-citation boosting was an appropriate strategy to improve prior art search tasks, while IPC classification of queries was improving retrieval effectiveness for technical survey tasks. Surprisingly, the use of the full body of the patent was always detrimental for search effectiveness. It was also observed that normalizing biomedical entities using curated dictionaries had simply no impact on the search tasks we evaluate. The search engine was finally implemented as a web-application within Novartis Pharma. The application is briefly described in the report.
  
  
  CONCLUSIONS
  We have presented the development of a search engine dedicated to patent search, based on state of the art methods applied to patent corpora. We have shown that a proper tuning of the system to adapt to the various search tasks clearly increases the effectiveness of the system. We conclude that different search tasks demand different information retrieval engines' settings in order to yield optimal end-user retrieval.
authors.forename: Emilie
authors.initials: E
authors.lastname: Pasche
authors.forename: Julien
authors.initials: J
authors.lastname: Gobeill
authors.forename: Olivier
authors.initials: O
authors.lastname: Kreim
authors.forename: Fatma
authors.initials: F
authors.lastname: Oezdemir-Zaech
authors.forename: Therese
authors.initials: T
authors.lastname: Vachon
authors.forename: Christian
authors.initials: C
authors.lastname: Lovis
authors.forename: Patrick
authors.initials: P
authors.lastname: Ruch
mesh_terms: D000465:Algorithms; D002626:Chemistry, Pharmaceutical; D016247:Information Storage and Retrieval; D020407:Internet; D010330:Patents as Topic; D057386:Search Engine / Q000379:methods*; D054852:Small Molecule Libraries
chemical_list: D054852:Small Molecule Libraries