Biomedical Natural Language Processing Workshop (2016)


up

pdf (full)
bib (full)
Proceedings of the 15th Workshop on Biomedical Natural Language Processing

pdf bib
Proceedings of the 15th Workshop on Biomedical Natural Language Processing
Kevin Bretonnel Cohen | Dina Demner-Fushman | Sophia Ananiadou | Jun-ichi Tsujii

pdf bib
A Machine Learning Approach to Clinical Terms Normalization
José Castaño | María Laura Gambarte | Hee Joon Park | Maria del Pilar Avila Williams | David Pérez | Fernando Campos | Daniel Luna | Sonia Benítez | Hernán Berinsky | Sofía Zanetti

pdf bib
Improved Semantic Representation for Domain-Specific Entities
Mohammad Taher Pilehvar | Nigel Collier

pdf bib
Identification, characterization, and grounding of gradable terms in clinical text
Chaitanya Shivade | Marie-Catherine de Marneffe | Eric Fosler-Lussier | Albert M. Lai

pdf bib
Graph-based Semi-supervised Gene Mention Tagging
Golnar Sheikhshab | Elizabeth Starks | Aly Karsan | Anoop Sarkar | Inanc Birol

pdf bib
Feature Derivation for Exploitation of Distant Annotation via Pattern Induction against Dependency Parses
Dayne Freitag | John Niekrasz

pdf bib
Inferring Implicit Causal Relationships in Biomedical Literature
Halil Kilicoglu

pdf bib
SnapToGrid: From Statistical to Interpretable Models for Biomedical Information Extraction
Marco A. Valenzuela-Escárcega | Gus Hahn-Powell | Dane Bell | Mihai Surdeanu

pdf bib
Character based String Kernels for Bio-Entity Relation Detection
Ritambhara Singh | Yanjun Qi

pdf bib
Disambiguation of entities in MEDLINE abstracts by combining MeSH terms with knowledge
Amy Siu | Patrick Ernst | Gerhard Weikum

pdf bib
Using Distributed Representations to Disambiguate Biomedical and Clinical Concepts
Stéphan Tulkens | Simon Suster | Walter Daelemans

pdf bib
Unsupervised Document Classification with Informed Topic Models
Timothy Miller | Dmitriy Dligach | Guergana Savova

pdf bib
Vocabulary Development To Support Information Extraction of Substance Abuse from Psychiatry Notes
Sumithra Velupillai | Danielle L. Mowery | Mike Conway | John Hurdle | Brent Kious

pdf bib
Syntactic analyses and named entity recognition for PubMed and PubMed Central — up-to-the-minute
Kai Hakala | Suwisa Kaewphan | Tapio Salakoski | Filip Ginter

pdf bib
Improving Temporal Relation Extraction with Training Instance Augmentation
Chen Lin | Timothy Miller | Dmitriy Dligach | Steven Bethard | Guergana Savova

pdf bib
Using Centroids of Word Embeddings and Word Mover’s Distance for Biomedical Document Retrieval in Question Answering
Georgios-Ioannis Brokos | Prodromos Malakasiotis | Ion Androutsopoulos

pdf bib
Measuring the State of the Art of Automated Pathway Curation Using Graph Algorithms - A Case Study of the mTOR Pathway
Michael Spranger | Sucheendra Palaniappan | Samik Gosh

pdf bib
Construction of a Personal Experience Tweet Corpus for Health Surveillance
Keyuan Jiang | Ricardo Calix | Matrika Gupta

pdf bib
Modelling the Combination of Generic and Target Domain Embeddings in a Convolutional Neural Network for Sentence Classification
Nut Limsopatham | Nigel Collier

pdf bib
PubTermVariants: biomedical term variants and their use for PubMed search
Lana Yeganova | Won Kim | Sun Kim | Rezarta Islamaj Doğan | Wanli Liu | Donald C Comeau | Zhiyong Lu | W John Wilbur

pdf bib
This before That: Causal Precedence in the Biomedical Domain
Gus Hahn-Powell | Dane Bell | Marco A. Valenzuela-Escárcega | Mihai Surdeanu

pdf bib
Syntactic methods for negation detection in radiology reports in Spanish
Viviana Cotik | Vanesa Stricker | Jorge Vivaldi | Horacio Rodriguez

pdf bib
How to Train good Word Embeddings for Biomedical NLP
Billy Chiu | Gamal Crichton | Anna Korhonen | Sampo Pyysalo

pdf bib
An Information Foraging Approach to Determining the Number of Relevant Features
Brian Connolly | Benjamin Glass | John Pestian

pdf bib
Assessing the Feasibility of an Automated Suggestion System for Communicating Critical Findings from Chest Radiology Reports to Referring Physicians
Brian E. Chapman | Danielle L. Mowery | Evan Narasimhan | Neel Patel | Wendy Chapman | Marta Heilbrun

pdf bib
Building a dictionary of lexical variants for phenotype descriptors
Simon Kocbek | Tudor Groza

pdf bib
Applying deep learning on electronic health records in Swedish to predict healthcare-associated infections
Olof Jacobson | Hercules Dalianis

pdf bib
Identifying First Episodes of Psychosis in Psychiatric Patient Records using Machine Learning
Genevieve Gorrell | Sherifat Oduola | Angus Roberts | Tom Craig | Craig Morgan | Rob Stewart

pdf bib
Relation extraction from clinical texts using domain invariant convolutional neural network
Sunil Sahu | Ashish Anand | Krishnadev Oruganty | Mahanandeeshwar Gattu


up

pdf (full)
bib (full)
Proceedings of the 4th BioNLP Shared Task Workshop

pdf bib
Proceedings of the 4th BioNLP Shared Task Workshop
Claire Nėdellec | Robert Bossy | Jin-Dong Kim

pdf bib
Overview of the Regulatory Network of Plant Seed Development (SeeDev) Task at the BioNLP Shared Task 2016.
Estelle Chaix | Bertrand Dubreucq | Abdelhak Fatihi | Dialekti Valsamou | Robert Bossy | Mouhamadou Ba | Louise Deléger | Pierre Zweigenbaum | Philippe Bessières | Loic Lepiniec | Claire Nédellec

pdf bib
Overview of the Bacteria Biotope Task at BioNLP Shared Task 2016
Louise Deléger | Robert Bossy | Estelle Chaix | Mouhamadou Ba | Arnaud Ferré | Philippe Bessières | Claire Nédellec

pdf bib
Refactoring the Genia Event Extraction Shared Task Toward a General Framework for IE-Driven KB Development
Jin-Dong Kim | Yue Wang | Nicola Colic | Seung Han Beak | Yong Hwan Kim | Min Song

pdf bib
LitWay, Discriminative Extraction for Different Bio-Events
Chen Li | Zhiqiang Rao | Xiangrong Zhang

pdf bib
VERSE: Event and Relation Extraction in the BioNLP 2016 Shared Task
Jake Lever | Steven JM Jones

pdf bib
A dictionary- and rule-based system for identification of bacteria and habitats in text
Helen V Cook | Evangelos Pafilis | Lars Juhl Jensen

pdf bib
Ontology-Based Categorization of Bacteria and Habitat Entities using Information Retrieval Techniques
Mert Tiftikci | Hakan Şahin | Berfu Büyüköz | Alper Yayıkçı | Arzucan Özgür

pdf bib
Identification of Mentions and Relations between Bacteria and Biotope from PubMed Abstracts
Cyril Grouin

pdf bib
Deep Learning with Minimal Training Data: TurkuNLP Entry in the BioNLP Shared Task 2016
Farrokh Mehryary | Jari Björne | Sampo Pyysalo | Tapio Salakoski | Filip Ginter

pdf bib
SeeDev Binary Event Extraction using SVMs and a Rich Feature Set
Nagesh C. Panyam | Gitansh Khirbat | Karin Verspoor | Trevor Cohn | Kotagiri Ramamohanarao

pdf bib
Extraction of Regulatory Events using Kernel-based Classifiers and Distant Supervision
Andre Lamurias | Miguel J. Rodrigues | Luka A. Clarke | Francisco M. Couto

pdf bib
DUTIR in BioNLP-ST 2016: Utilizing Convolutional Network and Distributed Representation to Extract Complicate Relations
Honglei Li | Jianhai Zhang | Jian Wang | Hongfei Lin | Zhihao Yang

pdf bib
Extracting Biomedical Event Using Feature Selection and Word Representation
Xinyu He | Lishuang Li | Jieqiong Zheng | Meiyue Qin