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Register a new userAutomatic Text Summarization of COVID-19 Medical Research Articles using BERT and GPT-2
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Added by
Virapat Kieuvongngam
Publication date
2020
fields
Informatics Engineering
and research's language is
English
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With the COVID-19 pandemic, there is a growing urgency for medical community to keep up with the accelerating growth in the new coronavirus-related literature. As a result, the COVID-19 Open Research Dataset Challenge has released a corpus of scholarly articles and is calling for machine learning approaches to help bridging the gap between the researchers and the rapidly growing publications. Here, we take advantage of the recent advances in pre-trained NLP models, BERT and OpenAI GPT-2, to solve this challenge by performing text summarization on this dataset. We evaluate the results using ROUGE scores and visual inspection. Our model provides abstractive and comprehensive information based on keywords extracted from the original articles. Our work can help the the medical community, by providing succinct summaries of articles for which the abstract are not already available.
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Language models (LMs) pre-trained on massive amounts of text, in particular bidirectional encoder representations from Transformers (BERT), generative pre-training (GPT), and GPT-2, have become a key technology for many natural language processing tasks. In this paper, we present results using fine-tuned GPT, GPT-2, and their combination for automatic speech recognition (ASR). Unlike unidirectional LM GPT and GPT-2, BERT is bidirectional whose direct product of the output probabilities is no longer a valid language prior probability. A conversion method is proposed to compute the correct language prior probability based on bidirectional LM outputs in a mathematically exact way. Experimental results on the widely used AMI and Switchboard ASR tasks showed that the combination of the fine-tuned GPT and GPT-2 outperformed the combination of three neural LMs with different architectures trained from scratch on the in-domain text by up to a 12% relative word error rate reduction (WERR). Furthermore, the proposed conversion for language prior probabilities enables BERT to receive an extra 3% relative WERR, and the combination of BERT, GPT and GPT-2 results in further improvements.
Automatic summarization techniques aim to shorten and generalize information given in the text while preserving its core message and the most relevant ideas. This task can be approached and treated with a variety of methods, however, not many attempts have been made to produce solutions specifically for the Russian language despite existing localizations of the state-of-the-art models. In this paper, we aim to showcase ruGPT3 ability to summarize texts, fine-tuning it on the corpora of Russian news with their corresponding human-generated summaries. Additionally, we employ hyperparameter tuning so that the models output becomes less random and more tied to the original text. We evaluate the resulting texts with a set of metrics, showing that our solution can surpass the state-of-the-art models performance without additional changes in architecture or loss function. Despite being able to produce sensible summaries, our model still suffers from a number of flaws, namely, it is prone to altering Named Entities present in the original text (such as surnames, places, dates), deviating from facts stated in the given document, and repeating the information in the summary.
Under the pandemic of COVID-19, people experiencing COVID19-related symptoms or exposed to risk factors have a pressing need to consult doctors. Due to hospital closure, a lot of consulting services have been moved online. Because of the shortage of medical professionals, many people cannot receive online consultations timely. To address this problem, we aim to develop a medical dialogue system that can provide COVID19-related consultations. We collected two dialogue datasets -- CovidDialog -- (in English and Chinese respectively) containing conversations between doctors and patients about COVID-19. On these two datasets, we train several dialogue generation models based on Transformer, GPT, and BERT-GPT. Since the two COVID-19 dialogue datasets are small in size, which bear high risk of overfitting, we leverage transfer learning to mitigate data deficiency. Specifically, we take the pretrained models of Transformer, GPT, and BERT-GPT on dialog datasets and other large-scale texts, then finetune them on our CovidDialog tasks. We perform both automatic and human evaluation of responses generated by these models. The results show that the generated responses are promising in being doctor-like, relevant to the conversation history, and clinically informative. The data and code are available at https://github.com/UCSD-AI4H/COVID-Dialogue.
The rapid growth of text data has motivated the development of machine-learning based automatic text summarization strategies that concisely capture the essential ideas in a larger text. This study aimed to devise an extractive summarization method for A-133 Single Audits, which assess if recipients of federal grants are compliant with program requirements for use of federal funding. Currently, these voluminous audits must be manually analyzed by officials for oversight, risk management, and prioritization purposes. Automated summarization has the potential to streamline these processes. Analysis focused on the Findings section of ~20,000 Single Audits spanning 2016-2018. Following text preprocessing and GloVe embedding, sentence-level k-means clustering was performed to partition sentences by topic and to establish the importance of each sentence. For each audit, key summary sentences were extracted by proximity to cluster centroids. Summaries were judged by non-expert human evaluation and compared to human-generated summaries using the ROUGE metric. Though the goal was to fully automate summarization of A-133 audits, human input was required at various stages due to large variability in audit writing style, content, and context. Examples of human inputs include the number of clusters, the choice to keep or discard certain clusters based on their content relevance, and the definition of a top sentence. Overall, this approach made progress towards automated extractive summaries of A-133 audits, with future work to focus on full automation and improving summary consistency. This work highlights the inherent difficulty and subjective nature of automated summarization in a real-world application.
Manual Summarization of large bodies of text involves a lot of human effort and time, especially in the legal domain. Lawyers spend a lot of time preparing legal briefs of their clients case files. Automatic Text summarization is a constantly evolving field of Natural Language Processing(NLP), which is a subdiscipline of the Artificial Intelligence Field. In this paper a hybrid method for automatic text summarization of legal cases using k-means clustering technique and tf-idf(term frequency-inverse document frequency) word vectorizer is proposed. The summary generated by the proposed method is compared using ROGUE evaluation parameters with the case summary as prepared by the lawyer for appeal in court. Further, suggestions for improving the proposed method are also presented.
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