2 research outputs found
Biomedical Event Trigger Identification Using Bidirectional Recurrent Neural Network Based Models
Biomedical events describe complex interactions between various biomedical
entities. Event trigger is a word or a phrase which typically signifies the
occurrence of an event. Event trigger identification is an important first step
in all event extraction methods. However many of the current approaches either
rely on complex hand-crafted features or consider features only within a
window. In this paper we propose a method that takes the advantage of recurrent
neural network (RNN) to extract higher level features present across the
sentence. Thus hidden state representation of RNN along with word and entity
type embedding as features avoid relying on the complex hand-crafted features
generated using various NLP toolkits. Our experiments have shown to achieve
state-of-art F1-score on Multi Level Event Extraction (MLEE) corpus. We have
also performed category-wise analysis of the result and discussed the
importance of various features in trigger identification task.Comment: The work has been accepted in BioNLP at ACL-201
A recurrent neural network architecture for biomedical event trigger classification
A “biomedical event” is a broad term used to describe the roles and interactions between entities (such as proteins, genes and cells) in a biological system. The task of biomedical event extraction aims at identifying and extracting these events from unstructured texts. An important component in the early stage of the task is biomedical trigger classification which involves identifying and classifying words/phrases that indicate an event. In this thesis, we present our work on biomedical trigger classification developed using the multi-level event extraction dataset. We restrict the scope of our classification to 19 biomedical event types grouped under four broad categories - Anatomical, Molecular, General and Planned. While most of the existing approaches are based on traditional machine learning algorithms which require extensive feature engineering, our model relies on neural networks to implicitly learn important features directly from the text. We use natural language processing techniques to transform the text into vectorized inputs that can be used in a neural network architecture. As per our knowledge, this is the first time neural attention strategies are being explored in the area of biomedical trigger classification. Our best results were obtained from an ensemble of 50 models which produced a micro F-score of 79.82%, an improvement of 1.3% over the previous best score