The technical landscape of clinical machine learning is shifting in ways that destabilize pervasive assumptions about the nature and causes of algorithmic bias. On one hand, the dominant paradigm in clinical machine learning is narrow in the sense that models are trained on biomedical datasets for particular clinical tasks such as diagnosis and treatment recommendation. On the other hand, the emerging paradigm is generalist in the sense that general-purpose language models such as Google's BERT and PaLM are increasingly being adapted for clinical use cases via prompting or fine-tuning on biomedical datasets. Many of these next-generation models provide substantial performance gains over prior clinical models, but at the same time introduce novel kinds of algorithmic bias and complicate the explanatory relationship between algorithmic biases and biases in training data. This paper articulates how and in what respects biases in generalist models differ from biases in prior clinical models, and draws out practical recommendations for algorithmic bias mitigation.
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US wind power generation has grown significantly over the last decades, in line with the number and average size of operating turbines. However, wind power density has declined, both measured in terms of wind power output per rotor swept area as well as per spacing area. To study this effect, we present a decomposition of US wind power generation data for the period 2001--2021 and examine how changes in input power density and system efficiency affected output power density. Here, input power density refers to the amount of wind available to turbines, system efficiency refers to the share of power in the wind flowing through rotor swept areas which is converted to electricity and output power density refers to the amount of wind power generated per rotor swept area. We show that, while power input available to turbines has increased in the period 2001--2021, system efficiency has decreased. In total, this has caused a decline in output power density in the last 10 years, explaining higher land-use requirements. The decrease in system efficiency is linked to the decrease in specific power, i.e. the ratio between the nameplate capacity of a turbine and its rotor swept area. Furthermore, we show that the wind available to turbines has increased substantially due to increases in the average hub height of turbines since 2001. However, site quality has slightly decreased in this period.
After just a few hundred training updates, a standard probabilistic model for language generation has likely not yet learnt many semantic or syntactic rules of natural language, making it difficult to estimate the probability distribution over next tokens. Yet around this point, these models have identified a simple, loss-minimising behaviour: to output the unigram distribution of the target training corpus. The use of such a heuristic raises the question: Can we initialise our models with this behaviour and save precious compute resources and model capacity? Here we show that we can effectively endow standard neural language generation models with a separate module that reflects unigram frequency statistics as prior knowledge, simply by initialising the bias term in a model's final linear layer with the log-unigram distribution. We use neural machine translation as a test bed for this simple technique and observe that it: (i) improves learning efficiency; (ii) achieves better overall performance; and perhaps most importantly (iii) appears to disentangle strong frequency effects by encouraging the model to specialise in non-frequency-related aspects of language.
Treatment effect estimation is of high-importance for both researchers and practitioners across many scientific and industrial domains. The abundance of observational data makes them increasingly used by researchers for the estimation of causal effects. However, these data suffer from biases, from several weaknesses, leading to inaccurate causal effect estimations, if not handled properly. Therefore, several machine learning techniques have been proposed, most of them focusing on leveraging the predictive power of neural network models to attain more precise estimation of causal effects. In this work, we propose a new methodology, named Nearest Neighboring Information for Causal Inference (NNCI), for integrating valuable nearest neighboring information on neural network-based models for estimating treatment effects. The proposed NNCI methodology is applied to some of the most well established neural network-based models for treatment effect estimation with the use of observational data. Numerical experiments and analysis provide empirical and statistical evidence that the integration of NNCI with state-of-the-art neural network models leads to considerably improved treatment effect estimations on a variety of well-known challenging benchmarks.
The absence of transparency and explainability hinders the clinical adoption of Machine learning (ML) algorithms. Although various methods of explainable artificial intelligence (XAI) have been suggested, there is a lack of literature that delves into their practicality and assesses them based on criteria that could foster trust in clinical environments. To address this gap this study evaluates two popular XAI methods used for explaining predictive models in the healthcare context in terms of whether they (i) generate domain-appropriate representation, i.e. coherent with respect to the application task, (ii) impact clinical workflow and (iii) are consistent. To that end, explanations generated at the cohort and patient levels were analysed. The paper reports the first benchmarking of the XAI methods applied to risk prediction models obtained by evaluating the concordance between generated explanations and the trigger of a future clinical deterioration episode recorded by the data collection system. We carried out an analysis using two Electronic Medical Records (EMR) datasets sourced from Australian major hospitals. The findings underscore the limitations of state-of-the-art XAI methods in the clinical context and their potential benefits. We discuss these limitations and contribute to the theoretical development of trustworthy XAI solutions where clinical decision support guides the choice of intervention by suggesting the pattern or drivers for clinical deterioration in the future.
Brain structural MRI has been widely used to assess the future progression of cognitive impairment (CI). Previous learning-based studies usually suffer from the issue of small-sized labeled training data, while there exist a huge amount of structural MRIs in large-scale public databases. Intuitively, brain anatomical structures derived from these public MRIs (even without task-specific label information) can be used to boost CI progression trajectory prediction. However, previous studies seldom take advantage of such brain anatomy prior. To this end, this paper proposes a brain anatomy prior modeling (BAPM) framework to forecast the clinical progression of cognitive impairment with small-sized target MRIs by exploring anatomical brain structures. Specifically, the BAPM consists of a pretext model and a downstream model, with a shared brain anatomy-guided encoder to model brain anatomy prior explicitly. Besides the encoder, the pretext model also contains two decoders for two auxiliary tasks (i.e., MRI reconstruction and brain tissue segmentation), while the downstream model relies on a predictor for classification. The brain anatomy-guided encoder is pre-trained with the pretext model on 9,344 auxiliary MRIs without diagnostic labels for anatomy prior modeling. With this encoder frozen, the downstream model is then fine-tuned on limited target MRIs for prediction. We validate the BAPM on two CI-related studies with T1-weighted MRIs from 448 subjects. Experimental results suggest the effectiveness of BAPM in (1) four CI progression prediction tasks, (2) MR image reconstruction, and (3) brain tissue segmentation, compared with several state-of-the-art methods.
Understanding causality helps to structure interventions to achieve specific goals and enables predictions under interventions. With the growing importance of learning causal relationships, causal discovery tasks have transitioned from using traditional methods to infer potential causal structures from observational data to the field of pattern recognition involved in deep learning. The rapid accumulation of massive data promotes the emergence of causal search methods with brilliant scalability. Existing summaries of causal discovery methods mainly focus on traditional methods based on constraints, scores and FCMs, there is a lack of perfect sorting and elaboration for deep learning-based methods, also lacking some considers and exploration of causal discovery methods from the perspective of variable paradigms. Therefore, we divide the possible causal discovery tasks into three types according to the variable paradigm and give the definitions of the three tasks respectively, define and instantiate the relevant datasets for each task and the final causal model constructed at the same time, then reviews the main existing causal discovery methods for different tasks. Finally, we propose some roadmaps from different perspectives for the current research gaps in the field of causal discovery and point out future research directions.
In practically every industry today, artificial intelligence is one of the most effective ways for machines to assist humans. Since its inception, a large number of researchers throughout the globe have been pioneering the application of artificial intelligence in medicine. Although artificial intelligence may seem to be a 21st-century concept, Alan Turing pioneered the first foundation concept in the 1940s. Artificial intelligence in medicine has a huge variety of applications that researchers are continually exploring. The tremendous increase in computer and human resources has hastened progress in the 21st century, and it will continue to do so for many years to come. This review of the literature will highlight the emerging field of artificial intelligence in medicine and its current level of development.
Transformer-based pretrained language models (T-PTLMs) have achieved great success in almost every NLP task. The evolution of these models started with GPT and BERT. These models are built on the top of transformers, self-supervised learning and transfer learning. Transformed-based PTLMs learn universal language representations from large volumes of text data using self-supervised learning and transfer this knowledge to downstream tasks. These models provide good background knowledge to downstream tasks which avoids training of downstream models from scratch. In this comprehensive survey paper, we initially give a brief overview of self-supervised learning. Next, we explain various core concepts like pretraining, pretraining methods, pretraining tasks, embeddings and downstream adaptation methods. Next, we present a new taxonomy of T-PTLMs and then give brief overview of various benchmarks including both intrinsic and extrinsic. We present a summary of various useful libraries to work with T-PTLMs. Finally, we highlight some of the future research directions which will further improve these models. We strongly believe that this comprehensive survey paper will serve as a good reference to learn the core concepts as well as to stay updated with the recent happenings in T-PTLMs.
Machine reading comprehension (MRC) aims to teach machines to read and comprehend human languages, which is a long-standing goal of natural language processing (NLP). With the burst of deep neural networks and the evolution of contextualized language models (CLMs), the research of MRC has experienced two significant breakthroughs. MRC and CLM, as a phenomenon, have a great impact on the NLP community. In this survey, we provide a comprehensive and comparative review on MRC covering overall research topics about 1) the origin and development of MRC and CLM, with a particular focus on the role of CLMs; 2) the impact of MRC and CLM to the NLP community; 3) the definition, datasets, and evaluation of MRC; 4) general MRC architecture and technical methods in the view of two-stage Encoder-Decoder solving architecture from the insights of the cognitive process of humans; 5) previous highlights, emerging topics, and our empirical analysis, among which we especially focus on what works in different periods of MRC researches. We propose a full-view categorization and new taxonomies on these topics. The primary views we have arrived at are that 1) MRC boosts the progress from language processing to understanding; 2) the rapid improvement of MRC systems greatly benefits from the development of CLMs; 3) the theme of MRC is gradually moving from shallow text matching to cognitive reasoning.
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