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Overall, the two main contributions of this work include the application of sentence simplification to association extraction as described above, and the use of distributional semantics for concept extraction. The proposed work on concept…
Scholarly usage data provides unique opportunities to address the known shortcomings of citation analysis. However, the collection, processing and analysis of usage data remains an area of active research. This article provides a review of…
While several public institutions provide its data openly, the effort required to access, integrate and query this data is too high, reducing the amount of possible dataset users. The Blended Integrated Open Data (BIOD) project has as…
Biomedical research encompasses diverse types of activities, from basic science ("bench") to clinical medicine ("bedside") to bench-to-bedside translational research. It, however, remains unclear whether different types of research receive…
A cross-disciplinary examination of the user behaviours involved in seeking and evaluating data is surprisingly absent from the research data discussion. This review explores the data retrieval literature to identify commonalities in how…
Rapid advancements in high-throughput single-cell RNA-seq (scRNA-seq) technologies and experimental protocols have led to the generation of vast amounts of genomic data that populates several online databases and repositories. Here, we…
The Internet has become a very powerful platform where diverse medical information are expressed daily. Recently, a huge growth is seen in searches like symptoms, diseases, medicines, and many other health related queries around the globe.…
Molecular biology data are subject to terms of use that vary widely between databases and curating institutions. This research presents a taxonomy of contractual and technical restrictions applicable to databases in life science. It builds…
Today, healthcare has become one of the largest and most fast-paced industries due to the rapid development of digital healthcare technologies. The fundamental thing to enhance healthcare services is communicating and linking massive…
Document clustering is a text mining technique used to provide better document search and browsing in digital libraries or online corpora. A lot of research has been done on biomedical document clustering that is based on using existing…
This article introduces the Data Retrieval Web Engine (also referred to as doctor web), a flexible and modular tool for extracting structured data from web pages using a simple query language. We discuss the engineering challenges addressed…
Electronic Health Records maintained in health care settings are a potential source of substantial clinical knowledge. The massive volume of data, unstructured nature of records and obligatory requirement of domain acquaintance together…
The amount of data in the world is expanding rapidly. Every day, huge amounts of data are created by scientific experiments, companies, and end users' activities. These large data sets have been labeled as "Big Data", and their storage,…
MicroRNAs play critical roles in many physiological processes. Their dysregulations are also closely related to the development and progression of various human diseases, including cancer. Therefore, identifying new microRNAs that are…
This is a thought piece on data-intensive science requirements for databases and science centers. It argues that peta-scale datasets will be housed by science centers that provide substantial storage and processing for scientists who access…
Computational biology continues to spread into new fields, becoming more accessible to researchers trained in the wet lab who are eager to take advantage of growing datasets, falling costs, and novel assays that present new opportunities…
Astrophysics papers often rely on software which may or may not be available, and URLs are often used as proxy citations for software and data. We extracted all URLs from two journals' 2015 research articles, removed those from certain…
The scientific literature's exponential growth makes it increasingly challenging to navigate and synthesize knowledge across disciplines. Large language models (LLMs) are powerful tools for understanding scientific text, but they fail to…
Machine Learning on Big Data gets more and more attention in various fields. Even so privacy-preserving techniques become more important, even necessary due to legal regulations such as the General Data Protection Regulation (GDPR). On the…
Like other types of computational research, modeling and simulation of biological processes (biomodels) is still largely communicated without sufficient detail to allow independent reproduction of results. But reproducibility in this area…