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BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing
Kevin B. Cohen | Dina Demner-Fushman | Sophia Ananiadou | Bonnie Webber | Jun’ichi Tsujii | John Pestian

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Graph-based alignment of narratives for automated neurological assessment
Emily Prud’hommeaux | Brian Roark

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Bootstrapping Biomedical Ontologies for Scientific Text using NELL
Dana Movshovitz-Attias | William W. Cohen

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Semantic distance and terminology structuring methods for the detection of semantically close terms
Marie Dupuch | Laëtitia Dupuch | Thierry Hamon | Natalia Grabar

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Temporal Classification of Medical Events
Preethi Raghavan | Eric Fosler-Lussier | Albert Lai

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Analyzing Patient Records to Establish If and When a Patient Suffered from a Medical Condition
James Cogley | Nicola Stokes | Joe Carthy | John Dunnion

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Alignment-HMM-based Extraction of Abbreviations from Biomedical Text
Dana Movshovitz-Attias | William W. Cohen

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Medical diagnosis lost in translation – Analysis of uncertainty and negation expressions in English and Swedish clinical texts
Danielle L Mowery | Sumithra Velupillai | Wendy W Chapman

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A Hybrid Stepwise Approach for De-identifying Person Names in Clinical Documents
Oscar Ferrández | Brett South | Shuying Shen | Stéphane Meystre

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Active Learning for Coreference Resolution
Timothy Miller | Dmitriy Dligach | Guergana Savova

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PubMed-Scale Event Extraction for Post-Translational Modifications, Epigenetics and Protein Structural Relations
Jari Björne | Sofie Van Landeghem | Sampo Pyysalo | Tomoko Ohta | Filip Ginter | Yves Van de Peer | Sophia Ananiadou | Tapio Salakoski

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An improved corpus of disease mentions in PubMed citations
Rezarta Islamaj Doğan | Zhiyong Lu

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New Resources and Perspectives for Biomedical Event Extraction
Sampo Pyysalo | Pontus Stenetorp | Tomoko Ohta | Jin-Dong Kim | Sophia Ananiadou

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Combining Compositionality and Pagerank for the Identification of Semantic Relations between Biomedical Words
Thierry Hamon | Christopher Engström | Mounira Manser | Zina Badji | Natalia Grabar | Sergei Silvestrov

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Domain Adaptation of Coreference Resolution for Radiology Reports
Emilia Apostolova | Noriko Tomuro | Pattanasak Mongkolwat | Dina Demner-Fushman

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What can NLP tell us about BioNLP?
Attapol Thamrongrattanarit | Michael Shafir | Michael Crivaro | Bensiin Borukhov | Marie Meteer

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A Prototype Tool Set to Support Machine-Assisted Annotation
Brett South | Shuying Shen | Jianwei Leng | Tyler Forbush | Scott DuVall | Wendy Chapman

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MedLingMap: A growing resource mapping the Bio-Medical NLP field
Marie Meteer | Bensiin Borukhov | Mike Crivaro | Michael Shafir | Attapol Thamrongrattanarit

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Exploring Label Dependency in Active Learning for Phenotype Mapping
Shefali Sharma | Leslie Lange | Jose Luis Ambite | Yigal Arens | Chun-Nan Hsu

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Evaluating Joint Modeling of Yeast Biology Literature and Protein-Protein Interaction Networks
Ramnath Balasubramanyan | Kathryn Rivard | William W. Cohen | Jelena Jakovljevic | John L. Woolford

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RankPref: Ranking Sentences Describing Relations between Biomedical Entities with an Application
Catalina Oana Tudor | K Vijay-Shanker

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Finding small molecule and protein pairs in scientific literature using a bootstrapping method
Ying Yan | Jee-Hyub Kim | Samuel Croset | Dietrich Rebholz-Schuhmann

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Grading the Quality of Medical Evidence
Binod Gyawali | Thamar Solorio | Yassine Benajiba

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Classifying Gene Sentences in Biomedical Literature by Combining High-Precision Gene Identifiers
Sun Kim | Won Kim | Don Comeau | W. John Wilbur

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Effect of small sample size on text categorization with support vector machines
Pawel Matykiewicz | John Pestian

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PubAnnotation - a persistent and sharable corpus and annotation repository
Jin-Dong Kim | Yue Wang

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Using Natural Language Processing to Extract Drug-Drug Interaction Information from Package Inserts
Richard Boyce | Gregory Gardner | Henk Harkema

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Automatic Approaches for Gene-Drug Interaction Extraction from Biomedical Text: Corpus and Comparative Evaluation
Nate Sutton | Laura Wojtulewicz | Neel Mehta | Graciela Gonzalez

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A Preliminary Work on Symptom Name Recognition from Free-Text Clinical Records of Traditional Chinese Medicine using Conditional Random Fields and Reasonable Features
Yaqiang Wang | Yiguang Liu | Zhonghua Yu | Li Chen | Yongguang Jiang

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Scaling up WSD with Automatically Generated Examples
Weiwei Cheng | Judita Preiss | Mark Stevenson

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Boosting the protein name recognition performance by bootstrapping on selected text
Yue Wang | Jin-Dong Kim