Transformer-based models have greatly advanced the progress in the field of the natural language processing and while they achieve state-of-the-art results on a wide range of tasks, they are cumbersome in parameter size. Subsequently, even when pre-trained transformer models are used for fine-tuning on a given task, if the dataset is large, it may still not be feasible to fine-tune the model within a reasonable time. For this reason, we empirically test 8 subsampling methods for reducing the dataset size on text classification task and report the trade-off between metric score and training time. 7 out of 8 methods are simple methods, while the last one is CRAIG, a method for coreset construction for data-efficient model training. We obtain the best result with the CRAIG method, offering an average decrease of 0.03 points in f-score on test set while speeding up the training time on average by 63.93%, relative to the score and time obtained by using the full dataset. Lastly, we show the trade-off between speed and performance for all sampling methods on three different datasets.

Text classification tasks which aim at harvesting and/or organizing information from electronic health records are pivotal to support clinical and translational research. However these present specific challenges compared to other classification tasks, notably due to the particular nature of the medical lexicon and language used in clinical records. Recent advances in embedding methods have shown promising results for several clinical tasks, yet there is no exhaustive comparison of such approaches with other commonly used word representations and classification models. In this work, we analyse the impact of various word representations, text pre-processing and classification algorithms on the performance of four different text classification tasks. The results show that traditional approaches, when tailored to the specific language and structure of the text inherent to the classification task, can achieve or exceed the performance of more recent ones based on contextual embeddings such as BERT.

An interface for building, improving and customising a given Named Entity Recognition and Linking (NER+L) model for biomedical domain text, and the efficient collation of accurate research use case specific training data and subsequent model training. Screencast demo available here: https://www.youtube.com/watch?v=lM914DQjvSo