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BaseNPs that contain gene names

Ian Lewin
2007 Proceedings of the Workshop on BioNLP 2007 Biological, Translational, and Clinical Language Processing - BioNLP '07   unpublished
In this paper, we examine the integration of general purpose linguistic processors together with domain specific named entity recognition in order to carry out the task of baseNP detection.  ...  The names of named entities very often occur as constituents of larger noun phrases which denote different types of entity.  ...  Methodology A reasonable and simple baseline system for extracting baseNPs that contain a gene name is to use an off-the-shelf baseNP extractor and simply filter the results for those that contain a gene  ... 
doi:10.3115/1572392.1572421 fatcat:2kjfl4qcfzem5mcm6l63icdhfi

Beyond the clause: extraction of phosphorylation information from medline abstracts

M. Narayanaswamy, K. E. Ravikumar, K. Vijay-Shanker
2005 Bioinformatics  
Motivation: Phosphorylation is an important biochemical reaction that plays a critical role in signal transduction pathways and cell-cycle processes.  ...  The effectiveness and accuracy of the system as a whole as well as that of the methods for extraction beyond a clause/sentence is evaluated using an independently annotated dataset, the Phospho.ELM database  ...  Ramanan, Carl Schmidt and Manabu Torii for various discussions and many valuable suggestions.  ... 
doi:10.1093/bioinformatics/bti1011 pmid:15961474 fatcat:y7prclr4bjhvtbdqe7e4l5xbpm

Literature mining and database annotation of protein phosphorylation using a rule-based system

Z. Z. Hu, M. Narayanaswamy, K. E. Ravikumar, K. Vijay-Shanker, C. H. Wu
2005 Bioinformatics  
RLIMS-P achieved a precision and recall of 91.4 and 96.4% for paper retrieval, and of 97.9 and 88.0% for extraction of substrates and sites.  ...  Coupling the high recall for paper retrieval and high precision for information extraction, RLIMS-P facilitates literature mining and database annotation of protein phosphorylation.  ...  M.N. and K.E.R. acknowledge the Council of Scientific and Industrial Research, India for JRF and SRF grants, respectively.  ... 
doi:10.1093/bioinformatics/bti390 pmid:15814565 fatcat:jii6quw3qjhb3bgwy7sumzo5la

A hybrid method for relation extraction from biomedical literature

2006 International Journal of Medical Informatics  
It is well known that appositive, coordinative propositions and such grammatical structures are extremely common in biomedical texts, particularly in full texts.  ...  Then long sentences are splitted into sub-ones, from which relations are extracted by a greedy pattern matching algorithm, along with automatically generated patterns.  ...  Acknowledgement The work was supported by Chinese Natural Science Foundation under grant No.60272019 and 60321002, the Canadian NSERC grant OGP0046506, CRC Chair fund, and the Killam Fellowship.  ... 
doi:10.1016/j.ijmedinf.2005.06.010 pmid:16095962 fatcat:bvroj6g6unfn5exyq3gwju6ldy

COMPENDIUM: a text summarisation tool for generating summaries of multiple purposes, domains, and genres

2012 Natural Language Engineering  
The evaluation performed in different domains and textual genres, comprising traditional texts, as well as texts extracted from the Web 2.0, shows that compendium is very competitive and appropriate to  ...  The main contributions of compendium with respect to the state-of-the-art summarisation systems are that (i) it specifically deals with the problem of redundancy, by means of textual entailment; (ii) it  ...  Acknowledgments This research has been supported by the project "Desarrollo de Técnicas Inteligentes e Interactivas de Minería de Textos" (PROMETEO/2009/119) and the project reference ACOMP/2011/001 from  ... 
doi:10.1017/s1351324912000198 fatcat:5nwndomjvzfe3kirymhwdwb2xy

Automatic acquisition of grammatical types for nouns

Núria Bel, Sergio Espeja, Montserrat Marimon
2007 Human Language Technologies 2007: The Conference of the North American Chapter of the Association for Computational Linguistics; Companion Volume, Short Papers on XX - NAACL '07   unpublished
Ai and D. Litman. 2006. Comparing Real-Real, Simulated-Simulated, and Simulated-Real Spoken Dialogue Corpora. In Proc. AAAI Workshop on Statistical and Empirical Approaches for SDS.  ...  that simulates realistic user behaviors in a statistical way.  ...  Acknowledgments This work was supported by the German Research Foundation under grant "Semantic Information Retrieval from Texts in the Example Domain Electronic Career Guidance", GU 798/1-2.  ... 
doi:10.3115/1614108.1614110 fatcat:dhlagg567jcgnd7qxszkja3trq

Ontologie-basierte Monosemierung - Bestimmung von Referenzen im SemanticWeb

Joachim Kleb
specific.  ...  Lycan betonte die Bindung des rigiden Bezeichners an dem Blickwinkel des Betrachters, "Kripke argues that when one uses the name 'Nixon' to refer a person in this world and then starts describing hypothetical  ... 
doi:10.5445/ir/1000031300 fatcat:p3orz3msy5ferlep6wbhej4kgq