Due to the increasing productivity in the scientific community, it is difficult to keep up with the literature without the assistance of AI methods. This paper evaluates various methods for extracting mathematical model variables from epidemiological studies, such as ‘infection rate (𝛼),” ‘recovery rate (𝛾),” and ‘mortality rate (𝜇).” Variable extraction appears to be a basic task, but plays a pivotal role in recovering models from scientific literature. Once extracted, we can use these variables for automatic mathematical modeling, simulation, and replication of published results. We also introduce a benchmark dataset comprising manually-annotated variable descriptions and variable values extracted from scientific papers. Our analysis shows that LLM-based solutions perform the best. Despite the incremental benefits of combining rule-based extraction outputs with LLMs, the leap in performance attributed to the transfer-learning and instruction-tuning capabilities of LLMs themselves is far more significant. This investigation demonstrates the potential of LLMs to enhance automatic comprehension of scientific artifacts and for automatic model recovery and simulation.

Wills must comply with jurisdiction-specific statutory provisions to be valid, but retrieving the relevant laws for execution, validation, and probate remains labor-intensive and error-prone. Prior legal information retrieval (LIR) research has addressed contracts, criminal law, and judicial decisions, but wills and probate law remain largely unexplored, with no prior work on retrieving statutes for will validity assessment. We propose a legal information retrieval framework that combines lexical and semantic retrieval in a hybrid pipeline with large language model (LLM) reasoning to retrieve the most relevant provisions for a will statement. Evaluations on annotated will-statement datasets from the U.S. states of Tennessee and Idaho using six LLMs show that our hybrid framework consistently outperforms zero-shot baselines. Notably, when paired with our hybrid retrieval pipeline, GPT-5-mini achieves the largest relative accuracy gains, improving by 41.09 points on the Tennessee and 48.68 points on the Idaho test set. We observed similarly strong improvements across all models and datasets.

We introduce a neural architecture finetuned for the task of scenario context generation: The relevant location and time of an event or entity mentioned in text. Contextualizing information extraction helps to scope the validity of automated finings when aggregating them as knowledge graphs. Our approach uses a high-quality curated dataset of time and location annotations in a corpus of epidemiology papers to train an encoder-decoder architecture. We also explored the use of data augmentation techniques during training. Our findings suggest that a relatively small fine-tuned encoder-decoder model performs better than out-of-the-box LLMs and semantic role labeling parsers to accurate predict the relevant scenario information of a particular entity or event.

This work presents a new task-aware prompt design and example retrieval approach for information extraction (IE) using a prompt chaining technique. Our approach divides IE tasks into two steps: (1) text classification to understand what information (e.g., entity or event types) is contained in the underlying text and (2) information extraction for the identified types. Initially, we use a large language model (LLM) in a few-shot setting to classify the contained information. The classification output is used to select the relevant prompt and retrieve the examples relevant to the input text. Finally, we ask a LLM to do the information extraction with the generated prompt. By evaluating our approach on legal IE tasks with two different LLMs, we demonstrate that the prompt chaining technique improves the LLM’s overall performance in a few-shot setting when compared to the baseline in which examples from all possible classes are included in the prompt. Our approach can be used in a low-resource setting as it does not require a large amount of training data. Also, it can be easily adapted to many different IE tasks by simply adjusting the prompts. Lastly, it provides a cost benefit by reducing the number of tokens in the prompt.

This work presents a manually annotated dataset for Information Extraction (IE) from legal wills, and relevant in-context learning experiments on the dataset. The dataset consists of entities, binary relations between the entities (e.g., relations between testator and beneficiary), and n-ary events (e.g., bequest) extracted from 45 legal wills from two US states. This dataset can serve as a foundation for downstream tasks in the legal domain. Another use case of this dataset is evaluating the performance of large language models (LLMs) on this IE task. We evaluated GPT-4 with our dataset to investigate its ability to extract information from legal wills. Our evaluation result demonstrates that the model is capable of handling the task reasonably well. When given instructions and examples as a prompt, GPT-4 shows decent performance for both entity extraction and relation extraction tasks. Nevertheless, the evaluation result also reveals that the model is not perfect. We observed inconsistent outputs (given a prompt) as well as prompt over-generalization.

Recognizing causal precedence relations among the chemical interactions in biomedical literature is crucial to understanding the underlying biological mechanisms. However, detecting such causal relation can be hard because: (1) many times, such causal relations among events are not explicitly expressed by certain phrases but implicitly implied by very diverse expressions in the text, and (2) annotating such causal relation detection datasets requires considerable expert knowledge and effort. In this paper, we propose a strategy to address both challenges by training neural models with in-domain pre-training and knowledge distillation. We show that, by using very limited amount of labeled data, and sufficient amount of unlabeled data, the neural models outperform previous baselines on the causal precedence detection task, and are ten times faster at inference compared to the BERT base model.

This work introduces a natural language inference (NLI) dataset that focuses on the validity of statements in legal wills. This dataset is unique because: (a) each entailment decision requires three inputs: the statement from the will, the law, and the conditions that hold at the time of the testator’s death; and (b) the included texts are longer than the ones in current NLI datasets. We trained eight neural NLI models in this dataset. All the models achieve more than 80% macro F1 and accuracy, which indicates that neural approaches can handle this task reasonably well. However, group accuracy, a stricter evaluation measure that is calculated with a group of positive and negative examples generated from the same statement as a unit, is in mid 80s at best, which suggests that the models’ understanding of the task remains superficial. Further ablative analyses and explanation experiments indicate that all three text segments are used for prediction, but some decisions rely on semantically irrelevant tokens. This indicates that overfitting on these longer texts likely happens, and that additional research is required for this task to be solved.

We propose a method to teach an automated agent to learn how to search for multi-hop paths of relations between entities in an open domain. The method learns a policy for directing existing information retrieval and machine reading resources to focus on relevant regions of a corpus. The approach formulates the learning problem as a Markov decision process with a state representation that encodes the dynamics of the search process and a reward structure that minimizes the number of documents that must be processed while still finding multi-hop paths. We implement the method in an actor-critic reinforcement learning algorithm and evaluate it on a dataset of search problems derived from a subset of English Wikipedia. The algorithm finds a family of policies that succeeds in extracting the desired information while processing fewer documents compared to several baseline heuristic algorithms.

Extending machine reading approaches to extract mathematical concepts and their descriptions is useful for a variety of tasks, ranging from mathematical information retrieval to increasing accessibility of scientific documents for the visually impaired. This entails segmenting mathematical formulae into identifiers and linking them to their natural language descriptions. We propose a rule-based approach for this task, which extracts LaTeX representations of formula identifiers and links them to their in-text descriptions, given only the original PDF and the location of the formula of interest. We also present a novel evaluation dataset for this task, as well as the tool used to create it.

Building causal models of complicated phenomena such as food insecurity is currently a slow and labor-intensive manual process. In this paper, we introduce an approach that builds executable probabilistic models from raw, free text. The proposed approach is implemented through three systems: Eidos, INDRA, and Delphi. Eidos is an open-domain machine reading system designed to extract causal relations from natural language. It is rule-based, allowing for rapid domain transfer, customizability, and interpretability. INDRA aggregates multiple sources of causal information and performs assembly to create a coherent knowledge base and assess its reliability. This assembled knowledge serves as the starting point for modeling. Delphi is a modeling framework that assembles quantified causal fragments and their contexts into executable probabilistic models that respect the semantics of the original text, and can be used to support decision making.

An important task in the machine reading of biochemical events expressed in biomedical texts is correctly reading the polarity, i.e., attributing whether the biochemical event is a promotion or an inhibition. Here we present a novel dataset for studying polarity attribution accuracy. We use this dataset to train and evaluate several deep learning models for polarity identification, and compare these to a linguistically-informed model. The best performing deep learning architecture achieves 0.968 average F1 performance in a five-fold cross-validation study, a considerable improvement over the linguistically informed model average F1 of 0.862.

Recent efforts in bioinformatics have achieved tremendous progress in the machine reading of biomedical literature, and the assembly of the extracted biochemical interactions into large-scale models such as protein signaling pathways. However, batch machine reading of literature at today’s scale (PubMed alone indexes over 1 million papers per year) is unfeasible due to both cost and processing overhead. In this work, we introduce a focused reading approach to guide the machine reading of biomedical literature towards what literature should be read to answer a biomedical query as efficiently as possible. We introduce a family of algorithms for focused reading, including an intuitive, strong baseline, and a second approach which uses a reinforcement learning (RL) framework that learns when to explore (widen the search) or exploit (narrow it). We demonstrate that the RL approach is capable of answering more queries than the baseline, while being more efficient, i.e., reading fewer documents.