Biomedical Natural Language Processing Workshop (2011)
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Proceedings of BioNLP 2011 Workshop
Proceedings of BioNLP 2011 Workshop
Kevin Bretonnel Cohen | Dina Demner-Fushman | Sophia Ananiadou | John Pestian | Jun’ichi Tsujii | Bonnie Webber
Kevin Bretonnel Cohen | Dina Demner-Fushman | Sophia Ananiadou | John Pestian | Jun’ichi Tsujii | Bonnie Webber
Not all links are equal: Exploiting Dependency Types for the Extraction of Protein-Protein Interactions from Text
Philippe Thomas | Stefan Pietschmann | Illés Solt | Domonkos Tikk | Ulf Leser
Philippe Thomas | Stefan Pietschmann | Illés Solt | Domonkos Tikk | Ulf Leser
Learning Phenotype Mapping for Integrating Large Genetic Data
Chun-Nan Hsu | Cheng-Ju Kuo | Congxing Cai | Sarah Pendergrass | Marylyn Ritchie | Jose Luis Ambite
Chun-Nan Hsu | Cheng-Ju Kuo | Congxing Cai | Sarah Pendergrass | Marylyn Ritchie | Jose Luis Ambite
EVEX: A PubMed-Scale Resource for Homology-Based Generalization of Text Mining Predictions
Sofie Van Landeghem | Filip Ginter | Yves Van de Peer | Tapio Salakoski
Sofie Van Landeghem | Filip Ginter | Yves Van de Peer | Tapio Salakoski
Fast and simple semantic class assignment for biomedical text
K. Bretonnel Cohen | Thomas Christiansen | William Baumgartner Jr. | Karin Verspoor | Lawrence Hunter
K. Bretonnel Cohen | Thomas Christiansen | William Baumgartner Jr. | Karin Verspoor | Lawrence Hunter
The Role of Information Extraction in the Design of a Document Triage Application for Biocuration
Sandeep Pokkunuri | Cartic Ramakrishnan | Ellen Riloff | Eduard Hovy | Gully Burns
Sandeep Pokkunuri | Cartic Ramakrishnan | Ellen Riloff | Eduard Hovy | Gully Burns
Medical Entity Recognition: A Comparaison of Semantic and Statistical Methods
Asma Ben Abacha | Pierre Zweigenbaum
Asma Ben Abacha | Pierre Zweigenbaum
Automatic Acquisition of Huge Training Data for Bio-Medical Named Entity Recognition
Yu Usami | Han-Cheol Cho | Naoaki Okazaki | Jun’ichi Tsujii
Yu Usami | Han-Cheol Cho | Naoaki Okazaki | Jun’ichi Tsujii
Building frame-based corpus on the basis of ontological domain knowledge
He Tan | Rajaram Kaliyaperumal | Nirupama Benis
He Tan | Rajaram Kaliyaperumal | Nirupama Benis
Building a Coreference-Annotated Corpus from the Domain of Biochemistry
Riza Theresa Batista-Navarro | Sophia Ananiadou
Riza Theresa Batista-Navarro | Sophia Ananiadou
Towards Morphologically Annotated Corpus of Hospital Discharge Reports in Polish
Malgorzata Marciniak | Agnieszka Mykowiecka
Malgorzata Marciniak | Agnieszka Mykowiecka
Automatic extraction of data deposition statements: where do the research results go?
Aurélie Névéol | W. John Wilbur | Zhiyong Lu
Aurélie Névéol | W. John Wilbur | Zhiyong Lu
From Pathways to Biomolecular Events: Opportunities and Challenges
Tomoko Ohta | Sampo Pyysalo | Jun’ichi Tsujii
Tomoko Ohta | Sampo Pyysalo | Jun’ichi Tsujii
Towards Exhaustive Event Extraction for Protein Modifications
Sampo Pyysalo | Tomoko Ohta | Makoto Miwa | Jun’ichi Tsujii
Sampo Pyysalo | Tomoko Ohta | Makoto Miwa | Jun’ichi Tsujii
A Study on Dependency Tree Kernels for Automatic Extraction of Protein-Protein Interaction
Faisal Md. Chowdhury | Alberto Lavelli | Alessandro Moschitti
Faisal Md. Chowdhury | Alberto Lavelli | Alessandro Moschitti
Hypothesis and Evidence Extraction from Full-Text Scientific Journal Articles
Elizabeth White | K. Bretonnel Cohen | Larry Hunter
Elizabeth White | K. Bretonnel Cohen | Larry Hunter
SimSem: Fast Approximate String Matching in Relation to Semantic Category Disambiguation
Pontus Stenetorp | Sampo Pyysalo | Jun’ichi Tsujii
Pontus Stenetorp | Sampo Pyysalo | Jun’ichi Tsujii
Building Timelines from Narrative Clinical Records: Initial Results Based-on Deep Natural Language Understanding
Hyuckchul Jung | James Allen | Nate Blaylock | William de Beaumont | Lucian Galescu | Mary Swift
Hyuckchul Jung | James Allen | Nate Blaylock | William de Beaumont | Lucian Galescu | Mary Swift
Text Mining Techniques for Leveraging Positively Labeled Data
Lana Yeganova | Donald C. Comeau | Won Kim | W. John Wilbur
Lana Yeganova | Donald C. Comeau | Won Kim | W. John Wilbur
Parsing Natural Language Queries for Life Science Knowledge
Tadayoshi Hara | Yuka Tateisi | Jin-Dong Kim | Yusuke Miyao
Tadayoshi Hara | Yuka Tateisi | Jin-Dong Kim | Yusuke Miyao
Unlocking Medical Ontologies for Non-Ontology Experts
Shao Fen Liang | Donia Scott | Robert Stevens | Alan Rector
Shao Fen Liang | Donia Scott | Robert Stevens | Alan Rector
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Proceedings of BioNLP Shared Task 2011 Workshop
Overview of BioNLP Shared Task 2011
Jin-Dong Kim | Sampo Pyysalo | Tomoko Ohta | Robert Bossy | Ngan Nguyen | Jun’ichi Tsujii
Jin-Dong Kim | Sampo Pyysalo | Tomoko Ohta | Robert Bossy | Ngan Nguyen | Jun’ichi Tsujii
Overview of Genia Event Task in BioNLP Shared Task 2011
Jin-Dong Kim | Yue Wang | Toshihisa Takagi | Akinori Yonezawa
Jin-Dong Kim | Yue Wang | Toshihisa Takagi | Akinori Yonezawa
Overview of the Epigenetics and Post-translational Modifications (EPI) task of BioNLP Shared Task 2011
Tomoko Ohta | Sampo Pyysalo | Jun’ichi Tsujii
Tomoko Ohta | Sampo Pyysalo | Jun’ichi Tsujii
Overview of the Infectious Diseases (ID) task of BioNLP Shared Task 2011
Sampo Pyysalo | Tomoko Ohta | Rafal Rak | Dan Sullivan | Chunhong Mao | Chunxia Wang | Bruno Sobral | Jun’ichi Tsujii | Sophia Ananiadou
Sampo Pyysalo | Tomoko Ohta | Rafal Rak | Dan Sullivan | Chunhong Mao | Chunxia Wang | Bruno Sobral | Jun’ichi Tsujii | Sophia Ananiadou
Biomedical Event Extraction from Abstracts and Full Papers using Search-based Structured Prediction
Andreas Vlachos | Mark Craven
Andreas Vlachos | Mark Craven
Event Extraction as Dependency Parsing for BioNLP 2011
David McClosky | Mihai Surdeanu | Christopher Manning
David McClosky | Mihai Surdeanu | Christopher Manning
Robust Biomedical Event Extraction with Dual Decomposition and Minimal Domain Adaptation
Sebastian Riedel | Andrew McCallum
Sebastian Riedel | Andrew McCallum
Model Combination for Event Extraction in BioNLP 2011
Sebastian Riedel | David McClosky | Mihai Surdeanu | Andrew McCallum | Christopher D. Manning
Sebastian Riedel | David McClosky | Mihai Surdeanu | Andrew McCallum | Christopher D. Manning
BioNLP Shared Task 2011 - Bacteria Biotope
Robert Bossy | Julien Jourde | Philippe Bessières | Maarten van de Guchte | Claire Nédellec
Robert Bossy | Julien Jourde | Philippe Bessières | Maarten van de Guchte | Claire Nédellec
BioNLP Shared Task 2011 – Bacteria Gene Interactions and Renaming
Julien Jourde | Alain-Pierre Manine | Philippe Veber | Karën Fort | Robert Bossy | Erick Alphonse | Philippe Bessières
Julien Jourde | Alain-Pierre Manine | Philippe Veber | Karën Fort | Robert Bossy | Erick Alphonse | Philippe Bessières
Overview of the Entity Relations (REL) supporting task of BioNLP Shared Task 2011
Sampo Pyysalo | Tomoko Ohta | Jun’ichi Tsujii
Sampo Pyysalo | Tomoko Ohta | Jun’ichi Tsujii
The Taming of Reconcile as a Biomedical Coreference Resolver
Youngjun Kim | Ellen Riloff | Nathan Gilbert
Youngjun Kim | Ellen Riloff | Nathan Gilbert
Extracting Bacteria Biotopes with Semi-supervised Named Entity Recognition and Coreference Resolution
Nhung T. H. Nguyen | Yoshimasa Tsuruoka
Nhung T. H. Nguyen | Yoshimasa Tsuruoka
BioNLP 2011 Task Bacteria Biotope – The Alvis system
Zorana Ratkovic | Wiktoria Golik | Pierre Warnier | Philippe Veber | Claire Nédellec
Zorana Ratkovic | Wiktoria Golik | Pierre Warnier | Philippe Veber | Claire Nédellec
BioNLP Shared Task 2011: Supporting Resources
Pontus Stenetorp | Goran Topić | Sampo Pyysalo | Tomoko Ohta | Jin-Dong Kim | Jun’ichi Tsujii
Pontus Stenetorp | Goran Topić | Sampo Pyysalo | Tomoko Ohta | Jin-Dong Kim | Jun’ichi Tsujii
Complex Biological Event Extraction from Full Text using Signatures of Linguistic and Semantic Features
Liam R. McGrath | Kelly Domico | Courtney D. Corley | Bobbie-Jo Webb-Robertson
Liam R. McGrath | Kelly Domico | Courtney D. Corley | Bobbie-Jo Webb-Robertson
Using Kybots for Extracting Events in Biomedical Texts
Arantza Casillas | Arantza Díaz de Ilarraza | Koldo Gojenola | Maite Oronoz | German Rigau
Arantza Casillas | Arantza Díaz de Ilarraza | Koldo Gojenola | Maite Oronoz | German Rigau
Extracting Biological Events from Text Using Simple Syntactic Patterns
Quoc-Chinh Bui | Peter M.A. Sloot
Quoc-Chinh Bui | Peter M.A. Sloot
Detecting Entity Relations as a Supporting Task for Bio-Molecular Event Extraction
Sofie Van Landeghem | Thomas Abeel | Bernard De Baets | Yves Van de Peer
Sofie Van Landeghem | Thomas Abeel | Bernard De Baets | Yves Van de Peer
An Incremental Model for the Coreference Resolution Task of BioNLP 2011
Don Tuggener | Manfred Klenner | Gerold Schneider | Simon Clematide | Fabio Rinaldi
Don Tuggener | Manfred Klenner | Gerold Schneider | Simon Clematide | Fabio Rinaldi
Double Layered Learning for Biological Event Extraction from Text
Ehsan Emadzadeh | Azadeh Nikfarjam | Graciela Gonzalez
Ehsan Emadzadeh | Azadeh Nikfarjam | Graciela Gonzalez
MSR-NLP Entry in BioNLP Shared Task 2011
Chris Quirk | Pallavi Choudhury | Michael Gamon | Lucy Vanderwende
Chris Quirk | Pallavi Choudhury | Michael Gamon | Lucy Vanderwende
From Graphs to Events: A Subgraph Matching Approach for Information Extraction from Biomedical Text
Haibin Liu | Ravikumar Komandur | Karin Verspoor
Haibin Liu | Ravikumar Komandur | Karin Verspoor
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Proceedings of the Second Workshop on Biomedical Natural Language Processing
Proceedings of the Second Workshop on Biomedical Natural Language Processing
Guergana Savova | Kevin Bretonnel Cohen | Galia Angelova
Guergana Savova | Kevin Bretonnel Cohen | Galia Angelova
Exploiting Structured Data, Negation Detection and SNOMED CT Terms in a Random Indexing Approach to Clinical Coding
Aron Henriksson | Martin Hassel
Aron Henriksson | Martin Hassel
Building a Named Entity Recognizer in Three Days: Application to Disease Name Recognition in Bulgarian Epicrises
Georgi Georgiev | Valentin Zhikov | Borislav Popov | Preslav Nakov
Georgi Georgiev | Valentin Zhikov | Borislav Popov | Preslav Nakov