[HTML][HTML] Constructing knowledge graphs and their biomedical applications

DN Nicholson, CS Greene - Computational and structural biotechnology …, 2020 - Elsevier
Abstract Knowledge graphs can support many biomedical applications. These graphs
represent biomedical concepts and relationships in the form of nodes and edges. In this review, …

[HTML][HTML] The Nephila clavipes genome highlights the diversity of spider silk genes and their complex expression

…, NF Lahens, SM Correa-Garhwal, DN Nicholson… - Nature Genetics, 2017 - nature.com
Spider silks are the toughest known biological materials, yet are lightweight and virtually
invisible to the human immune system, and they thus have revolutionary potential for medicine …

[HTML][HTML] Characterization of the genome and silk-gland transcriptomes of Darwin's bark spider (Caerostris darwini)

PL Babb, M Gregorič, NF Lahens, DN Nicholson… - Plos one, 2022 - journals.plos.org
Natural silks crafted by spiders comprise some of the most versatile materials known.
Artificial silks–based on the sequences of their natural brethren–replicate some desirable …

[HTML][HTML] Examining linguistic shifts between preprints and publications

DN Nicholson, V Rubinetti, D Hu, M Thielk… - PLoS …, 2022 - journals.plos.org
Preprints allow researchers to make their findings available to the scientific community before
they have undergone peer review. Studies on preprints within bioRxiv have been largely …

[HTML][HTML] Changing word meanings in biomedical literature reveal pandemics and new technologies

DN Nicholson, F Alquaddoomi, V Rubinetti, CS Greene - BioData Mining, 2023 - Springer
While we often think of words as having a fixed meaning that we use to describe a changing
world, words are also dynamic and changing. Scientific research can also be remarkably fast…

Linguistic Analysis of the bioRxiv Preprint Landscape

DN Nicholson, V Rubinetti, D Hu, M Thielk, LE Hunter… - bioRxiv, 2021 - biorxiv.org
Preprints allow researchers to make their findings available to the scientific community before
they have undergone peer review. Studies on preprints within bioRxiv have been largely …

[HTML][HTML] Expanding a database-derived biomedical knowledge graph via multi-relation extraction from biomedical abstracts

DN Nicholson, DS Himmelstein, CS Greene - BioData Mining, 2022 - Springer
Background Knowledge graphs support biomedical research efforts by providing contextual
information for biomedical entities, constructing networks, and supporting the interpretation …

Executable architecture for the first digitized division

…, M Hamrick, DN Nicholson… - Digitization of the …, 2000 - spiedigitallibrary.org
The C4ISR Architecture Framework, Version 2.0, provides the basis for all Department of
Defense commands, services and agencies to describe their Information System architectures. …

Hetnet connectivity search provides rapid insights into how biomedical entities are related

…, BJ Heil, F Alquaddoomi, D Hu, DN Nicholson… - …, 2023 - academic.oup.com
Background Hetnets, short for “heterogeneous networks,” contain multiple node and relationship
types and offer a way to encode biomedical knowledge. One such example, Hetionet, …

Reusing label functions to extract multiple types of biomedical relationships from biomedical abstracts at scale

DN Nicholson, DS Himmelstein, CS Greene - bioRxiv, 2019 - biorxiv.org
Abstract Knowledge bases support multiple research efforts such as providing contextual
information for biomedical entities, constructing networks, and supporting the interpretation of …