Biomedical Natural Language Processing Workshop (2009)

Volumes

up

pdf (full)
bib (full) Proceedings of the BioNLP 2009 Workshop

pdf bib
Proceedings of the BioNLP 2009 Workshop
K. Bretonnel Cohen | Dina Demner-Fushman | Sophia Ananiadou | John Pestian | Jun’ichi Tsujii | Bonnie Webber
pdf bib
Static Relations: a Piece in the Biomedical Information Extraction Puzzle
Sampo Pyysalo | Tomoko Ohta | Jin-Dong Kim | Jun’ichi Tsujii
pdf bib
Distinguishing Historical from Current Problems in Clinical Reports – Which Textual Features Help?
Danielle Mowery | Henk Harkema | John Dowling | Jonathan Lustgarten | Wendy Chapman
pdf bib
ONYX: A System for the Semantic Analysis of Clinical Text
Lee Christensen | Henk Harkema | Peter Haug | Jeannie Irwin | Wendy Chapman
pdf bib
Learning the Scope of Hedge Cues in Biomedical Texts
Roser Morante | Walter Daelemans
pdf bib
How Feasible and Robust is the Automatic Extraction of Gene Regulation Events? A Cross-Method Evaluation under Lab and Real-Life Conditions
Udo Hahn | Katrin Tomanek | Ekaterina Buyko | Jung-jae Kim | Dietrich Rebholz-Schuhmann
pdf bib
Extraction of Named Entities from Tables in Gene Mutation Literature
Wern Wong | David Martinez | Lawrence Cavedon
pdf bib
Selecting an Ontology for Biomedical Text Mining
He Tan | Patrick Lambrix
pdf bib
Investigation of Unsupervised Pattern Learning Techniques for Bootstrap Construction of a Medical Treatment Lexicon
Rong Xu | Alexander A. Morgan | Amar Das | Alan Garber
pdf bib
Disambiguation of Biomedical Abbreviations
Mark Stevenson | Yikun Guo | Abdulaziz Alamri | Robert Gaizauskas
pdf bib
TX Task: Automatic Detection of Focus Organisms in Biomedical Publications
Thomas Kappeler | Kaarel Kaljurand | Fabio Rinaldi
pdf bib
Exploring Graph Structure for Detection of Reliability Zones within Synonym Resources: Experiment with the Gene Ontology
Thierry Hamon | Natalia Grabar
pdf bib
Towards Automatic Generation of Gene Summary
Feng Jin | Minlie Huang | Zhiyong Lu | Xiaoyan Zhu
pdf bib
Incorporating GENETAG-style annotation to GENIA corpus
Tomoko Ohta | Jin-Dong Kim | Sampo Pyysalo | Yue Wang | Jun’ichi Tsujii
pdf bib
User-Driven Development of Text Mining Resources for Cancer Risk Assessment
Lin Sun | Anna Korhonen | Ilona Silins | Ulla Stenius
pdf bib
Transforming Controlled Natural Language Biomedical Queries into Answer Set Programs
Esra Erdem | Reyyan Yeniterzi
pdf bib
Incorporating Syntactic Dependency Information towards Improved Coding of Lengthy Medical Concepts in Clinical Reports
Vijayaraghavan Bashyam | Ricky K Taira
pdf bib
Identifying Interaction Sentences from Biological Literature Using Automatically Extracted Patterns
Haibin Liu | Christian Blouin | Vlado Kešelj
pdf bib
Using Hedges to Enhance a Disease Outbreak Report Text Mining System
Mike Conway | Son Doan | Nigel Collier
pdf bib
Exploring Two Biomedical Text Genres for Disease Recognition
Aurélie Névéol | Won Kim | W. John Wilbur | Zhiyong Lu
pdf bib
Towards Retrieving Relevant Information for Answering Clinical Comparison Questions
Annette Leonhard
pdf bib
Bridging the Gap between Domain-Oriented and Linguistically-Oriented Semantics
Sumire Uematsu | Jin-Dong Kim | Jun’ichi Tsujii
pdf bib
Evaluation of the Clinical Question Answering Presentation
Yong-Gang Cao | John Ely | Lamont Antieau | Hong Yu
pdf bib
Clustering Semantic Spaces of Suicide Notes and Newsgroups Articles.
Pawel Matykiewicz | Wlodzislaw Duch | John Pestian
pdf bib
TEXT2TABLE: Medical Text Summarization System Based on Named Entity Recognition and Modality Identification
Eiji Aramaki | Yasuhide Miura | Masatsugu Tonoike | Tomoko Ohkuma | Hiroshi Mashuichi | Kazuhiko Ohe
pdf bib
Semantic Annotation of Papers: Interface & Enrichment Tool (SAPIENT)
Maria Liakata | Claire Q | Larisa N. Soldatova
up

pdf (full)
bib (full) Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task

pdf bib
Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task
Jun’ichi Tsujii
pdf bib
Overview of BioNLP’09 Shared Task on Event Extraction
Jin-Dong Kim | Tomoko Ohta | Sampo Pyysalo | Yoshinobu Kano | Jun’ichi Tsujii
pdf bib
Extracting Complex Biological Events with Rich Graph-Based Feature Sets
Jari Björne | Juho Heimonen | Filip Ginter | Antti Airola | Tapio Pahikkala | Tapio Salakoski
pdf bib
Event Extraction from Trimmed Dependency Graphs
Ekaterina Buyko | Erik Faessler | Joachim Wermter | Udo Hahn
pdf bib
UZurich in the BioNLP 2009 Shared Task
Kaarel Kaljurand | Gerold Schneider | Fabio Rinaldi
pdf bib
Biomedical Event Extraction without Training Data
Andreas Vlachos | Paula Buttery | Diarmuid Ó Séaghdha | Ted Briscoe
pdf bib
A Markov Logic Approach to Bio-Molecular Event Extraction
Sebastian Riedel | Hong-Woo Chun | Toshihisa Takagi | Jun’ichi Tsujii
pdf bib
High-precision biological event extraction with a concept recognizer
K. Bretonnel Cohen | Karin Verspoor | Helen Johnson | Chris Roeder | Philip Ogren | William Baumgartner | Elizabeth White | Lawrence Hunter
pdf bib
A memory-based learning approach to event extraction in biomedical texts
Roser Morante | Vincent Van Asch | Walter Daelemans
pdf bib
Extraction of biomedical events using case-based reasoning
Mariana Neves | José-María Carazo | Alberto Pascual-Montano
pdf bib
Biomedical Event Annotation with CRFs and Precision Grammars
Andrew MacKinlay | David Martinez | Timothy Baldwin
pdf bib
Molecular event extraction from Link Grammar parse trees
Jörg Hakenberg | Illés Solt | Domonkos Tikk | Luis Tari | Astrid Rheinländer | Nguyen Quang Long | Graciela Gonzalez | Ulf Leser
pdf bib
Tunable Domain-Independent Event Extraction in the MIRA Framework
Georgi Georgiev | Kuzman Ganchev | Vassil Momchev | Deyan Peychev | Preslav Nakov | Angus Roberts
pdf bib
BioEve: Bio-Molecular Event Extraction from Text Using Semantic Classification and Dependency Parsing
Syed Toufeeq Ahmed | Radhika Nair | Chintan Patel | Hasan Davulcu
pdf bib
From Protein-Protein Interaction to Molecular Event Extraction
Rune Sætre | Makoto Miwa | Kazuhiro Yoshida | Jun’ichi Tsujii
pdf bib
A Multi-Phase Approach to Biomedical Event Extraction
Hyoung-Gyu Lee | Han-Cheol Cho | Min-Jeong Kim | Joo-Young Lee | Gumwon Hong | Hae-Chang Rim
pdf bib
Supervised Classification for Extracting Biomedical Events
Arzucan Özgür | Dragomir Radev
pdf bib
Biomedical Event Detection using Rules, Conditional Random Fields and Parse Tree Distances
Farzaneh Sarafraz | James Eales | Reza Mohammadi | Jonathan Dickerson | David Robertson | Goran Nenadic
pdf bib
Syntactic Dependency Based Heuristics for Biological Event Extraction
Halil Kilicoglu | Sabine Bergler
pdf bib
Analyzing text in search of bio-molecular events: a high-precision machine learning framework
Sofie Van Landeghem | Yvan Saeys | Bernard De Baets | Yves Van de Peer
pdf bib
Exploring ways beyond the simple supervised learning approach for biological event extraction
György Móra | Richárd Farkas | György Szarvas | Zsolt Molnár