Israt Jahan

Israt Jahan, Md Tahmid Rahman Laskar, Chun Peng et al.

Recently, Large Language Models (LLM) have demonstrated impressive capability to solve a wide range of tasks. However, despite their success across various tasks, no prior work has investigated their capability in the biomedical domain yet. To this end, this paper aims to evaluate the performance of LLMs on benchmark biomedical tasks. For this purpose, we conduct a comprehensive evaluation of 4 popular LLMs in 6 diverse biomedical tasks across 26 datasets. To the best of our knowledge, this is the first work that conducts an extensive evaluation and comparison of various LLMs in the biomedical domain. Interestingly, we find based on our evaluation that in biomedical datasets that have smaller training sets, zero-shot LLMs even outperform the current state-of-the-art fine-tuned biomedical models. This suggests that pretraining on large text corpora makes LLMs quite specialized even in the biomedical domain. We also find that not a single LLM can outperform other LLMs in all tasks, with the performance of different LLMs may vary depending on the task. While their performance is still quite poor in comparison to the biomedical models that were fine-tuned on large training sets, our findings demonstrate that LLMs have the potential to be a valuable tool for various biomedical tasks that lack large annotated data.

Israt Jahan, Md Tahmid Rahman Laskar, Chun Peng et al.

ChatGPT is a large language model developed by OpenAI. Despite its impressive performance across various tasks, no prior work has investigated its capability in the biomedical domain yet. To this end, this paper aims to evaluate the performance of ChatGPT on various benchmark biomedical tasks, such as relation extraction, document classification, question answering, and summarization. To the best of our knowledge, this is the first work that conducts an extensive evaluation of ChatGPT in the biomedical domain. Interestingly, we find based on our evaluation that in biomedical datasets that have smaller training sets, zero-shot ChatGPT even outperforms the state-of-the-art fine-tuned generative transformer models, such as BioGPT and BioBART. This suggests that ChatGPT's pre-training on large text corpora makes it quite specialized even in the biomedical domain. Our findings demonstrate that ChatGPT has the potential to be a valuable tool for various tasks in the biomedical domain that lack large annotated data.

Taminul Islam, MD Alamin Hosen, Akhi Mony et al.

Recent years have seen an explosion in social media usage, allowing people to connect with others. Since the appearance of platforms such as Facebook and Twitter, such platforms influence how we speak, think, and behave. This problem negatively undermines confidence in content because of the existence of fake news. For instance, false news was a determining factor in influencing the outcome of the U.S. presidential election and other sites. Because this information is so harmful, it is essential to make sure we have the necessary tools to detect and resist it. We applied Bidirectional Long Short-Term Memory (Bi-LSTM) to determine if the news is false or real in order to showcase this study. A number of foreign websites and newspapers were used for data collection. After creating & running the model, the work achieved 84% model accuracy and 62.0 F1-macro scores with training data.

Md Tahmid Rahman Laskar, Mizanur Rahman, Israt Jahan et al.

Debatepedia is a publicly available dataset consisting of arguments and counter-arguments on controversial topics that has been widely used for the single-document query-focused abstractive summarization task in recent years. However, it has been recently found that this dataset is limited by noise and even most queries in this dataset do not have any relevance to the respective document. In this paper, we present a methodology for cleaning the Debatepedia dataset by leveraging the generative power of large language models to make it suitable for query-focused abstractive summarization. More specifically, we harness the language generation capabilities of ChatGPT to regenerate its queries. We evaluate the effectiveness of the proposed ChatGPT annotated version of the Debatepedia dataset using several benchmark summarization models and demonstrate that the newly annotated version of Debatepedia outperforms the original dataset in terms of both query relevance as well as summary generation quality. We will make this annotated and cleaned version of the dataset publicly available.

Md Tahmid Rahman Laskar, Israt Jahan, Elham Dolatabadi et al.

Large Language Models (LLMs) have demonstrated impressive performance in biomedical relation extraction, even in zero-shot scenarios. However, evaluating LLMs in this task remains challenging due to their ability to generate human-like text, often producing synonyms or abbreviations of gold-standard answers, making traditional automatic evaluation metrics unreliable. On the other hand, while human evaluation is more reliable, it is costly and time-consuming, making it impractical for real-world applications. This paper investigates the use of LLMs-as-the-Judge as an alternative evaluation method for biomedical relation extraction. We benchmark 8 LLMs as judges to evaluate the responses generated by 5 other LLMs across 3 biomedical relation extraction datasets. Unlike other text-generation tasks, we observe that LLM-based judges perform quite poorly (usually below 50% accuracy) in the biomedical relation extraction task. Our findings reveal that it happens mainly because relations extracted by LLMs do not adhere to any standard format. To address this, we propose structured output formatting for LLM-generated responses that helps LLM-Judges to improve their performance by about 15% (on average). We also introduce a domain adaptation technique to further enhance LLM-Judge performance by effectively transferring knowledge between datasets. We release both our human-annotated and LLM-annotated judgment data (36k samples in total) for public use here: https://github.com/tahmedge/llm_judge_biomedical_re.

Israt Jahan, Md Tahmid Rahman Laskar, Chun Peng et al.

This paper presents a comprehensive evaluation of cost-efficient Large Language Models (LLMs) for diverse biomedical tasks spanning both text and image modalities. We evaluated a range of closed-source and open-source LLMs on tasks such as biomedical text classification and generation, question answering, and multimodal image processing. Our experimental findings indicate that there is no single LLM that can consistently outperform others across all tasks. Instead, different LLMs excel in different tasks. While some closed-source LLMs demonstrate strong performance on specific tasks, their open-source counterparts achieve comparable results (sometimes even better), with additional benefits like faster inference and enhanced privacy. Our experimental results offer valuable insights for selecting models that are optimally suited for specific biomedical applications.