PULSAR at MEDIQA-Sum 2023: Large Language Models Augmented by Synthetic Dialogue Convert Patient Dialogues to Medical Records

This paper describes PULSAR, our system submission at the ImageClef 2023 MediQA-Sum task on summarising patient-doctor dialogues into clinical records. The proposed framework relies on domain-specific pre-training, to produce a specialised language model which is trained on task-specific natural data augmented by synthetic data generated by a black-box LLM. We find limited evidence towards the efficacy of domain-specific pre-training and data augmentation, while scaling up the language model yields the best performance gains. Our approach was ranked second and third among 13 submissions on task B of the challenge. Our code is available at https://github.com/yuping-wu/PULSAR.

PULSAR: Pre-training with Extracted Healthcare Terms for Summarising Patients' Problems and Data Augmentation with Black-box Large Language Models

Medical progress notes play a crucial role in documenting a patient's hospital journey, including his or her condition, treatment plan, and any updates for healthcare providers. Automatic summarisation of a patient's problems in the form of a problem list can aid stakeholders in understanding a patient's condition, reducing workload and cognitive bias. BioNLP 2023 Shared Task 1A focuses on generating a list of diagnoses and problems from the provider's progress notes during hospitalisation. In this paper, we introduce our proposed approach to this task, which integrates two complementary components. One component employs large language models (LLMs) for data augmentation; the other is an abstractive summarisation LLM with a novel pre-training objective for generating the patients' problems summarised as a list. Our approach was ranked second among all submissions to the shared task. The performance of our model on the development and test datasets shows that our approach is more robust on unknown data, with an improvement of up to 3.1 points over the same size of the larger model.

Modelling Emotion Dynamics in Song Lyrics with State Space Models

Most previous work in music emotion recognition assumes a single or a few song-level labels for the whole song. While it is known that different emotions can vary in intensity within a song, annotated data for this setup is scarce and difficult to obtain. In this work, we propose a method to predict emotion dynamics in song lyrics without song-level supervision. We frame each song as a time series and employ a State Space Model (SSM), combining a sentence-level emotion predictor with an Expectation-Maximization (EM) procedure to generate the full emotion dynamics. Our experiments show that applying our method consistently improves the performance of sentence-level baselines without requiring any annotated songs, making it ideal for limited training data scenarios. Further analysis through case studies shows the benefits of our method while also indicating the limitations and pointing to future directions.

Generating Diverse Descriptions from Semantic Graphs

Text generation from semantic graphs is traditionally performed with deterministic methods, which generate a unique description given an input graph. However, the generation problem admits a range of acceptable textual outputs, exhibiting lexical, syntactic and semantic variation. To address this disconnect, we present two main contributions. First, we propose a stochastic graph-to-text model, incorporating a latent variable in an encoder-decoder model, and its use in an ensemble. Second, to assess the diversity of the generated sentences, we propose a new automatic evaluation metric which jointly evaluates output diversity and quality in a multi-reference setting. We evaluate the models on WebNLG datasets in English and Russian, and show an ensemble of stochastic models produces diverse sets of generated sentences, while retaining similar quality to state-of-the-art models.

BOSS: Bayesian Optimization over String Spaces

This article develops a Bayesian optimization (BO) method which acts directly over raw strings, proposing the first uses of string kernels and genetic algorithms within BO loops. Recent applications of BO over strings have been hindered by the need to map inputs into a smooth and unconstrained latent space. Learning this projection is computationally and data-intensive. Our approach instead builds a powerful Gaussian process surrogate model based on string kernels, naturally supporting variable length inputs, and performs efficient acquisition function maximization for spaces with syntactical constraints. Experiments demonstrate considerably improved optimization over existing approaches across a broad range of constraints, including the popular setting where syntax is governed by a context-free grammar.

A Unified Neural Architecture for Instrumental Audio Tasks

Within Music Information Retrieval (MIR), prominent tasks -- including pitch-tracking, source-separation, super-resolution, and synthesis -- typically call for specialised methods, despite their similarities. Conditional Generative Adversarial Networks (cGANs) have been shown to be highly versatile in learning general image-to-image translations, but have not yet been adapted across MIR. In this work, we present an end-to-end supervisable architecture to perform all aforementioned audio tasks, consisting of a WaveNet synthesiser conditioned on the output of a jointly-trained cGAN spectrogram translator. In doing so, we demonstrate the potential of such flexible techniques to unify MIR tasks, promote efficient transfer learning, and converge research to the improvement of powerful, general methods. Finally, to the best of our knowledge, we present the first application of GANs to guided instrument synthesis.

Graph-to-Sequence Learning using Gated Graph Neural Networks

Many NLP applications can be framed as a graph-to-sequence learning problem. Previous work proposing neural architectures on this setting obtained promising results compared to grammar-based approaches but still rely on linearisation heuristics and/or standard recurrent networks to achieve the best performance. In this work, we propose a new model that encodes the full structural information contained in the graph. Our architecture couples the recently proposed Gated Graph Neural Networks with an input transformation that allows nodes and edges to have their own hidden representations, while tackling the parameter explosion problem present in previous work. Experimental results show that our model outperforms strong baselines in generation from AMR graphs and syntax-based neural machine translation.

Exploring Prediction Uncertainty in Machine Translation Quality Estimation

Machine Translation Quality Estimation is a notoriously difficult task, which lessens its usefulness in real-world translation environments. Such scenarios can be improved if quality predictions are accompanied by a measure of uncertainty. However, models in this task are traditionally evaluated only in terms of point estimate metrics, which do not take prediction uncertainty into account. We investigate probabilistic methods for Quality Estimation that can provide well-calibrated uncertainty estimates and evaluate them in terms of their full posterior predictive distributions. We also show how this posterior information can be useful in an asymmetric risk scenario, which aims to capture typical situations in translation workflows.

Speed-Constrained Tuning for Statistical Machine Translation Using Bayesian Optimization

We address the problem of automatically finding the parameters of a statistical machine translation system that maximize BLEU scores while ensuring that decoding speed exceeds a minimum value. We propose the use of Bayesian Optimization to efficiently tune the speed-related decoding parameters by easily incorporating speed as a noisy constraint function. The obtained parameter values are guaranteed to satisfy the speed constraint with an associated confidence margin. Across three language pairs and two speed constraint values, we report overall optimization time reduction compared to grid and random search. We also show that Bayesian Optimization can decouple speed and BLEU measurements, resulting in a further reduction of overall optimization time as speed is measured over a small subset of sentences.

Learning Structural Kernels for Natural Language Processing

Structural kernels are a flexible learning paradigm that has been widely used in Natural Language Processing. However, the problem of model selection in kernel-based methods is usually overlooked. Previous approaches mostly rely on setting default values for kernel hyperparameters or using grid search, which is slow and coarse-grained. In contrast, Bayesian methods allow efficient model selection by maximizing the evidence on the training data through gradient-based methods. In this paper we show how to perform this in the context of structural kernels by using Gaussian Processes. Experimental results on tree kernels show that this procedure results in better prediction performance compared to hyperparameter optimization via grid search. The framework proposed in this paper can be adapted to other structures besides trees, e.g., strings and graphs, thereby extending the utility of kernel-based methods.