%0 Conference Proceedings %T BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %E Cohen, Kevin B. %E Demner-Fushman, Dina %E Ananiadou, Sophia %E Webber, Bonnie %E Tsujii, Jun’ichi %E Pestian, John %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F ws-2012-bionlp %U https://aclanthology.org/W12-2400 %0 Conference Proceedings %T Graph-based alignment of narratives for automated neurological assessment %A Prud’hommeaux, Emily %A Roark, Brian %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F prudhommeaux-roark-2012-graph %U https://aclanthology.org/W12-2401 %P 1-10 %0 Conference Proceedings %T Bootstrapping Biomedical Ontologies for Scientific Text using NELL %A Movshovitz-Attias, Dana %A Cohen, William W. %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F movshovitz-attias-cohen-2012-bootstrapping %U https://aclanthology.org/W12-2402 %P 11-19 %0 Conference Proceedings %T Semantic distance and terminology structuring methods for the detection of semantically close terms %A Dupuch, Marie %A Dupuch, Laëtitia %A Hamon, Thierry %A Grabar, Natalia %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F dupuch-etal-2012-semantic %U https://aclanthology.org/W12-2403 %P 20-28 %0 Conference Proceedings %T Temporal Classification of Medical Events %A Raghavan, Preethi %A Fosler-Lussier, Eric %A Lai, Albert %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F raghavan-etal-2012-temporal %U https://aclanthology.org/W12-2404 %P 29-37 %0 Conference Proceedings %T Analyzing Patient Records to Establish If and When a Patient Suffered from a Medical Condition %A Cogley, James %A Stokes, Nicola %A Carthy, Joe %A Dunnion, John %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F cogley-etal-2012-analyzing %U https://aclanthology.org/W12-2405 %P 38-46 %0 Conference Proceedings %T Alignment-HMM-based Extraction of Abbreviations from Biomedical Text %A Movshovitz-Attias, Dana %A Cohen, William W. %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F movshovitz-attias-cohen-2012-alignment %U https://aclanthology.org/W12-2406 %P 47-55 %0 Conference Proceedings %T Medical diagnosis lost in translation – Analysis of uncertainty and negation expressions in English and Swedish clinical texts %A Mowery, Danielle L. %A Velupillai, Sumithra %A Chapman, Wendy W. %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F mowery-etal-2012-medical %U https://aclanthology.org/W12-2407 %P 56-64 %0 Conference Proceedings %T A Hybrid Stepwise Approach for De-identifying Person Names in Clinical Documents %A Ferrández, Oscar %A South, Brett %A Shen, Shuying %A Meystre, Stéphane %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F ferrandez-etal-2012-hybrid %U https://aclanthology.org/W12-2408 %P 65-72 %0 Conference Proceedings %T Active Learning for Coreference Resolution %A Miller, Timothy %A Dligach, Dmitriy %A Savova, Guergana %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F miller-etal-2012-active %U https://aclanthology.org/W12-2409 %P 73-81 %0 Conference Proceedings %T PubMed-Scale Event Extraction for Post-Translational Modifications, Epigenetics and Protein Structural Relations %A Björne, Jari %A Van Landeghem, Sofie %A Pyysalo, Sampo %A Ohta, Tomoko %A Ginter, Filip %A Van de Peer, Yves %A Ananiadou, Sophia %A Salakoski, Tapio %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F bjorne-etal-2012-pubmed %U https://aclanthology.org/W12-2410 %P 82-90 %0 Conference Proceedings %T An improved corpus of disease mentions in PubMed citations %A Islamaj Doğan, Rezarta %A Lu, Zhiyong %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F islamaj-dogan-lu-2012-improved %U https://aclanthology.org/W12-2411 %P 91-99 %0 Conference Proceedings %T New Resources and Perspectives for Biomedical Event Extraction %A Pyysalo, Sampo %A Stenetorp, Pontus %A Ohta, Tomoko %A Kim, Jin-Dong %A Ananiadou, Sophia %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F pyysalo-etal-2012-new %U https://aclanthology.org/W12-2412 %P 100-108 %0 Conference Proceedings %T Combining Compositionality and Pagerank for the Identification of Semantic Relations between Biomedical Words %A Hamon, Thierry %A Engström, Christopher %A Manser, Mounira %A Badji, Zina %A Grabar, Natalia %A Silvestrov, Sergei %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F hamon-etal-2012-combining %U https://aclanthology.org/W12-2413 %P 109-117 %0 Conference Proceedings %T Domain Adaptation of Coreference Resolution for Radiology Reports %A Apostolova, Emilia %A Tomuro, Noriko %A Mongkolwat, Pattanasak %A Demner-Fushman, Dina %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F apostolova-etal-2012-domain %U https://aclanthology.org/W12-2414 %P 118-121 %0 Conference Proceedings %T What can NLP tell us about BioNLP? %A Thamrongrattanarit, Attapol %A Shafir, Michael %A Crivaro, Michael %A Borukhov, Bensiin %A Meteer, Marie %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F thamrongrattanarit-etal-2012-nlp %U https://aclanthology.org/W12-2415 %P 122-129 %0 Conference Proceedings %T A Prototype Tool Set to Support Machine-Assisted Annotation %A South, Brett %A Shen, Shuying %A Leng, Jianwei %A Forbush, Tyler %A DuVall, Scott %A Chapman, Wendy %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F south-etal-2012-prototype %U https://aclanthology.org/W12-2416 %P 130-139 %0 Conference Proceedings %T MedLingMap: A growing resource mapping the Bio-Medical NLP field %A Meteer, Marie %A Borukhov, Bensiin %A Crivaro, Mike %A Shafir, Michael %A Thamrongrattanarit, Attapol %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F meteer-etal-2012-medlingmap %U https://aclanthology.org/W12-2417 %P 140-145 %0 Conference Proceedings %T Exploring Label Dependency in Active Learning for Phenotype Mapping %A Sharma, Shefali %A Lange, Leslie %A Ambite, Jose Luis %A Arens, Yigal %A Hsu, Chun-Nan %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F sharma-etal-2012-exploring %U https://aclanthology.org/W12-2418 %P 146-154 %0 Conference Proceedings %T Evaluating Joint Modeling of Yeast Biology Literature and Protein-Protein Interaction Networks %A Balasubramanyan, Ramnath %A Rivard, Kathryn %A Cohen, William W. %A Jakovljevic, Jelena %A Woolford, John L. %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F balasubramanyan-etal-2012-evaluating %U https://aclanthology.org/W12-2419 %P 155-162 %0 Conference Proceedings %T RankPref: Ranking Sentences Describing Relations between Biomedical Entities with an Application %A Tudor, Catalina Oana %A Vijay-Shanker, K. %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F tudor-vijay-shanker-2012-rankpref %U https://aclanthology.org/W12-2420 %P 163-171 %0 Conference Proceedings %T Finding small molecule and protein pairs in scientific literature using a bootstrapping method %A Yan, Ying %A Kim, Jee-Hyub %A Croset, Samuel %A Rebholz-Schuhmann, Dietrich %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F yan-etal-2012-finding %U https://aclanthology.org/W12-2421 %P 172-175 %0 Conference Proceedings %T Grading the Quality of Medical Evidence %A Gyawali, Binod %A Solorio, Thamar %A Benajiba, Yassine %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F gyawali-etal-2012-grading %U https://aclanthology.org/W12-2422 %P 176-184 %0 Conference Proceedings %T Classifying Gene Sentences in Biomedical Literature by Combining High-Precision Gene Identifiers %A Kim, Sun %A Kim, Won %A Comeau, Don %A Wilbur, W. John %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F kim-etal-2012-classifying %U https://aclanthology.org/W12-2423 %P 185-192 %0 Conference Proceedings %T Effect of small sample size on text categorization with support vector machines %A Matykiewicz, Pawel %A Pestian, John %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F matykiewicz-pestian-2012-effect %U https://aclanthology.org/W12-2424 %P 193-201 %0 Conference Proceedings %T PubAnnotation - a persistent and sharable corpus and annotation repository %A Kim, Jin-Dong %A Wang, Yue %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F kim-wang-2012-pubannotation %U https://aclanthology.org/W12-2425 %P 202-205 %0 Conference Proceedings %T Using Natural Language Processing to Extract Drug-Drug Interaction Information from Package Inserts %A Boyce, Richard %A Gardner, Gregory %A Harkema, Henk %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F boyce-etal-2012-using %U https://aclanthology.org/W12-2426 %P 206-213 %0 Conference Proceedings %T Automatic Approaches for Gene-Drug Interaction Extraction from Biomedical Text: Corpus and Comparative Evaluation %A Sutton, Nate %A Wojtulewicz, Laura %A Mehta, Neel %A Gonzalez, Graciela %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F sutton-etal-2012-automatic %U https://aclanthology.org/W12-2427 %P 214-222 %0 Conference Proceedings %T A Preliminary Work on Symptom Name Recognition from Free-Text Clinical Records of Traditional Chinese Medicine using Conditional Random Fields and Reasonable Features %A Wang, Yaqiang %A Liu, Yiguang %A Yu, Zhonghua %A Chen, Li %A Jiang, Yongguang %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F wang-etal-2012-preliminary %U https://aclanthology.org/W12-2428 %P 223-230 %0 Conference Proceedings %T Scaling up WSD with Automatically Generated Examples %A Cheng, Weiwei %A Preiss, Judita %A Stevenson, Mark %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F cheng-etal-2012-scaling %U https://aclanthology.org/W12-2429 %P 231-239 %0 Conference Proceedings %T Boosting the protein name recognition performance by bootstrapping on selected text %A Wang, Yue %A Kim, Jin-Dong %Y Cohen, Kevin B. %Y Demner-Fushman, Dina %Y Ananiadou, Sophia %Y Webber, Bonnie %Y Tsujii, Jun’ichi %Y Pestian, John %S BioNLP: Proceedings of the 2012 Workshop on Biomedical Natural Language Processing %D 2012 %8 June %I Association for Computational Linguistics %C Montréal, Canada %F wang-kim-2012-boosting %U https://aclanthology.org/W12-2430 %P 240-243