Subscribe to the gold package and get unlimited access to Shamra Academy
Register a new userA Multi-Task Learning Framework for Extracting Drugs and Their Interactions from Drug Labels
67
0
0.0
(
0
)
Added by
Tung Tran
Publication date
2019
fields
Informatics Engineering
and research's language is
English
Ask ChatGPT about the research
No Arabic abstract
Preventable adverse drug reactions as a result of medical errors present a growing concern in modern medicine. As drug-drug interactions (DDIs) may cause adverse reactions, being able to extracting DDIs from drug labels into machine-readable form is an important effort in effectively deploying drug safety information. The DDI track of TAC 2018 introduces two large hand-annotated test sets for the task of extracting DDIs from structured product labels with linkage to standard terminologies. Herein, we describe our approach to tackling tasks one and two of the DDI track, which corresponds to named entity recognition (NER) and sentence-level relation extraction respectively. Namely, our approach resembles a multi-task learning framework designed to jointly model various sub-tasks including NER and interaction type and outcome prediction. On NER, our system ranked second (among eight teams) at 33.00% and 38.25% F1 on Test Sets 1 and 2 respectively. On relation extraction, our system ranked second (among four teams) at 21.59% and 23.55% on Test Sets 1 and 2 respectively.
rate research
Read More
Preventable adverse events as a result of medical errors present a growing concern in the healthcare system. As drug-drug interactions (DDIs) may lead to preventable adverse events, being able to extract DDIs from drug labels into a machine-processable form is an important step toward effective dissemination of drug safety information. In this study, we tackle the problem of jointly extracting drugs and their interactions, including interaction outcome, from drug labels. Our deep learning approach entails composing various intermediate representations including sequence and graph based context, where the latter is derived using graph convolutions (GC) with a novel attention-based gating mechanism (holistically called GCA). These representations are then composed in meaningful ways to handle all subtasks jointly. To overcome scarcity in training data, we additionally propose transfer learning by pre-training on related DDI data. Our model is trained and evaluated on the 2018 TAC DDI corpus. Our GCA model in conjunction with transfer learning performs at 39.20% F1 and 26.09% F1 on entity recognition (ER) and relation extraction (RE) respectively on the first official test set and at 45.30% F1 and 27.87% F1 on ER and RE respectively on the second official test set corresponding to an improvement over our prior best results by up to 6 absolute F1 points. After controlling for available training data, our model exhibits state-of-the-art performance by improving over the next comparable best outcome by roughly three F1 points in ER and 1.5 F1 points in RE evaluation across two official test sets.
Approaches to Grounded Language Learning typically focus on a single task-based final performance measure that may not depend on desirable properties of the learned hidden representations, such as their ability to predict salient attributes or to generalise to unseen situations. To remedy this, we present GROLLA, an evaluation framework for Grounded Language Learning with Attributes with three sub-tasks: 1) Goal-oriented evaluation; 2) Object attribute prediction evaluation; and 3) Zero-shot evaluation. We also propose a new dataset CompGuessWhat?! as an instance of this framework for evaluating the quality of learned neural representations, in particular concerning attribute grounding. To this end, we extend the original GuessWhat?! dataset by including a semantic layer on top of the perceptual one. Specifically, we enrich the VisualGenome scene graphs associated with the GuessWhat?! images with abstract and situated attributes. By using diagnostic classifiers, we show that current models learn representations that are not expressive enough to encode object attributes (average F1 of 44.27). In addition, they do not learn strategies nor representations that are robust enough to perform well when novel scenes or objects are involved in gameplay (zero-shot best accuracy 50.06%).
Math word problem (MWP) is a challenging and critical task in natural language processing. Many recent studies formalize MWP as a generation task and have adopted sequence-to-sequence models to transform problem descriptions to mathematical expressions. However, mathematical expressions are prone to minor mistakes while the generation objective does not explicitly handle such mistakes. To address this limitation, we devise a new ranking task for MWP and propose Generate & Rank, a multi-task framework based on a generative pre-trained language model. By joint training with generation and ranking, the model learns from its own mistakes and is able to distinguish between correct and incorrect expressions. Meanwhile, we perform tree-based disturbance specially designed for MWP and an online update to boost the ranker. We demonstrate the effectiveness of our proposed method on the benchmark and the results show that our method consistently outperforms baselines in all datasets. Particularly, in the classical Math23k, our method is 7% (78.4% $rightarrow$ 85.4%) higher than the state-of-the-art.
Attention-based sequence-to-sequence modeling provides a powerful and elegant solution for applications that need to map one sequence to a different sequence. Its success heavily relies on the availability of large amounts of training data. This presents a challenge for speech applications where labelled speech data is very expensive to obtain, such as automatic speech recognition (ASR) and speech translation (ST). In this study, we propose a general multi-task learning framework to leverage text data for ASR and ST tasks. Two auxiliary tasks, a denoising autoencoder task and machine translation task, are proposed to be co-trained with ASR and ST tasks respectively. We demonstrate that representing text input as phoneme sequences can reduce the difference between speech and text inputs, and enhance the knowledge transfer from text corpora to the speech to text tasks. Our experiments show that the proposed method achieves a relative 10~15% word error rate reduction on the English Librispeech task compared with our baseline, and improves the speech translation quality on the MuST-C tasks by 3.6~9.2 BLEU.
This paper describes novel models tailored for a new application, that of extracting the symptoms mentioned in clinical conversations along with their status. Lack of any publicly available corpus in this privacy-sensitive domain led us to develop our own corpus, consisting of about 3K conversations annotated by professional medical scribes. We propose two novel deep learning approaches to infer the symptom names and their status: (1) a new hierarchical span-attribute tagging (SAT) model, trained using curriculum learning, and (2) a variant of sequence-to-sequence model which decodes the symptoms and their status from a few speaker turns within a sliding window over the conversation. This task stems from a realistic application of assisting medical providers in capturing symptoms mentioned by patients from their clinical conversations. To reflect this application, we define multiple metrics. From inter-rater agreement, we find that the task is inherently difficult. We conduct comprehensive evaluations on several contrasting conditions and observe that the performance of the models range from an F-score of 0.5 to 0.8 depending on the condition. Our analysis not only reveals the inherent challenges of the task, but also provides useful directions to improve the models.
Log in to be able to interact and post comments
comments
Fetching comments
Sign in to be able to follow your search criteria
