Clinical Natural Language Processing Workshop at COLING 2016

Osaka, Japan. December 2016.

Workshop Program

Sunday, December 11, 2016

09:00–09:30Introductory Remarks
09:30–10:30Invited Talk: VetCompass: Clinical Natural Language Processing for Animal Health (slides)
Tim Baldwin (University of Melbourne)
10:30–10:45Coffee Break
10:45–11:30Short Talks
10:45–11:00The impact of simple feature engineering in multilingual medical NER
Rebecka Weegar, Arantza Casillas, Arantza Diaz de Ilarraza, Maite Oronoz, Alicia Pérez and Koldo Gojenola
11:00–11:15Bidirectional LSTM-CRF for Clinical Concept Extraction
Raghavendra Chalapathy, Ehsan Zare Borzeshi and Massimo Piccardi
11:15–11:30MedNLPDoc: Japanese Shared Task for Clinical NLP
Eiji Aramaki, Yoshinobu Kano, Tomoko Ohkuma and Mizuki Morita
11:30–12:15Best Student Paper Award Session
(sponsored by Philips North America)
11:30–11:45Feature-Augmented Neural Networks for Patient Note De-identification
Ji Young Lee, Franck Dernoncourt, Ozlem Uzuner and Peter Szolovits
11:45–12:05Semi-supervised Clustering of Medical Text
Pracheta Sahoo, Asif Ekbal, Sriparna Saha, Diego Molla and Kaushik Nandan
14:00–15:00Long Talks
14:00–14:20Deep Learning Architecture for Patient Data De-identification in Clinical Records
Shweta Yadav, Asif Ekbal, Sriparna Saha and Pushpak Bhattacharyya
14:20–14:40Neural Clinical Paraphrase Generation with Attention
Sadid A. Hasan, Bo Liu, Joey Liu, Ashequl Qadir, Kathy Lee, Vivek Datla, Aaditya Prakash and Oladimeji Farri
14:40–15:00Assessing the Corpus Size vs. Similarity Trade-off for Word Embeddings in Clinical NLP
Kirk Roberts
15:00–15:45Poster Session
15:00–15:45Inference of ICD Codes from Japanese Medical Records by Searching Disease Names
Masahito Sakishita and Yoshinobu Kano
15:00–15:45A fine-grained corpus annotation schema of German nephrology records
Roland Roller, Hans Uszkoreit, Feiyu Xu, Laura Seiffe, Michael Mikhailov, Oliver Staeck, Klemens Budde, Fabian Halleck and Danilo Schmidt
15:00–15:45Detecting Japanese Patients with Alzheimer’s Disease based on Word Category Frequencies
Daisaku Shibata, Shoko Wakamiya, Ayae Kinoshita and Eiji Aramaki
15:00–15:45Prediction of Key Patient Outcome from Sentence and Word of Medical Text Records
Takanori Yamashita, Yoshifumi Wakata, Hidehisa Soejima, Naoki Nakashima and Sachio Hirokawa
15:00–15:45Unsupervised Abbreviation Detection in Clinical Narratives
Markus Kreuzthaler, Michel Oleynik, Alexander Avian and Stefan Schulz
15:00–15:45Automated Anonymization as Spelling Variant Detection
Steven Kester Yuwono, Hwee Tou Ng and Kee Yuan Ngiam
15:45–16:00Coffee Break
16:00–17:00Panel on Facilitating Access to Clinical Data for the NLP Community
(Sponsored by Philips North America)

Invited Talk

Tim Baldwin (University of Melbourne)
VetCompass: Clinical Natural Language Processing for Animal Health (slides)


Clinical natural language processing has the potential to enhance health care services for clinicians and patients alike, but has been infamously hampered by a myriad data issues. I will discuss the data issues associated with clinical NLP, and then go on to outline a large-scale dataset of clinical text from the veterinary domain. I will then present some preliminary analyses of a range of clinical text sources, and compare them with social media sources to gauge their relative complexity.

Speaker Bio

Tim Baldwin is a Professor in the Department of Computing and Information Systems, The University of Melbourne, and an Australian Research Council Future Fellow. He has previously held visiting positions at Cambridge University, University of Washington, University of Tokyo, Saarland University, NTT Communication Science Laboratories, and National Institute of Informatics. His research interests include text mining of social media, computational lexical semantics, information extraction, and web mining, with a particular interest in the interface between computational and theoretical linguistics. Tim completed a BSc(CS/Maths) and BA(Linguistics/Japanese) at The University of Melbourne in 1995, and an MEng(CS) and PhD(CS) at the Tokyo Institute of Technology in 1998 and 2001, respectively. Prior to joining The University of Melbourne in 2004, he was a Senior Research Engineer at the Center for the Study of Language and Information, Stanford University (2001-2004).