Related papers: New model for datasets citation and extraction rep…
Computational physics increasingly depends on large simulation datasets generated by software that remains under active development for many years. In such settings, reproducibility requires not only well documented data but also explicit…
The difficulties of automatic extraction of definitions and methods from scientific documents lie in two aspects: (1) the complexity and diversity of natural language texts, which requests an analysis method to support the discovery of…
Reasoning distillation transfers complex reasoning abilities from large language models (LLMs) to smaller ones, yet its success depends on how well the training data align with the student model. This paper introduces the Data-Model…
Reproducibility remains a central challenge in machine learning (ML), especially in collaborative eScience projects where teams iterate over data, features, and models. Current ML workflows are often dynamic yet fragmented, relying on…
Relation extraction is the task of identifying relation instance between two entities given a corpus whereas Knowledge base modeling is the task of representing a knowledge base, in terms of relations between entities. This paper proposes…
Clinical value set authoring -- the task of identifying all codes in a standardized vocabulary that define a clinical concept -- is a recurring bottleneck in clinical quality measurement and phenotyping. A natural approach is to prompt a…
This study explores three approaches to processing table data in scientific papers to enhance extractive question answering and develop a software tool for the systematic review process. The methods evaluated include: (1) Optical Character…
We introduce the STEM (Science, Technology, Engineering, and Medicine) Dataset for Scientific Entity Extraction, Classification, and Resolution, version 1.0 (STEM-ECR v1.0). The STEM-ECR v1.0 dataset has been developed to provide a…
With the recent developments in digitisation, there are increasing number of documents available online. There are several information extraction tools that are available to extract information from digitised documents. However, identifying…
We report new statistical time-series analysis tools providing significant improvements in the rapid, precision extraction of discrete state dynamics from large databases of experimental observations of molecular machines. By building…
One of the key requirements for incorporating machine learning into the drug discovery process is complete reproducibility and traceability of the model building and evaluation process. With this in mind, we have developed an end-to-end…
Scientist learn early on how to cite scientific sources to support their claims. Sometimes, however, scientists have challenges determining where a citation should be situated -- or, even worse, fail to cite a source altogether.…
High-throughput computational materials design promises to greatly accelerate the process of discovering new materials and compounds, and of optimizing their properties. The large databases of structures and properties that result from…
Many of the most commonly explored natural language processing (NLP) information extraction tasks can be thought of as evaluations of declarative knowledge, or fact-based information extraction. Procedural knowledge extraction, i.e.,…
We describe the current state and future plans for a set of tools for scientific data management (SDM) designed to support scientific transparency and reproducible research. SDM has been in active use at our MRI Center for more than two…
Rapid progress in natural language processing has led to its utilization in a variety of industrial and enterprise settings, including in its use for information extraction, specifically named entity recognition and relation extraction,…
Joint extraction of entities and relations is an important task in information extraction. To tackle this problem, we firstly propose a novel tagging scheme that can convert the joint extraction task to a tagging problem. Then, based on our…
Citing legal opinions is a key part of legal argumentation, an expert task that requires retrieval, extraction and summarization of information from court decisions. The identification of legally salient parts in an opinion for the purpose…
Recent advances in scanning transmission electron and scanning probe microscopies have opened exciting opportunities in probing the materials structural parameters and various functional properties in real space with angstrom-level…
Using different sources of information to support automated extracting of relations between biomedical concepts contributes to the development of our understanding of biological systems. The primary comprehensive source of these relations…