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Knowledge Bases

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PotatoG-DKB: a potato gene-disease knowledge base mined from biological literature.

PeerJ
BACKGROUND: Potato is the fourth largest food crop in the world, but potato cultivation faces serious threats from various diseases and pests. Despite significant advancements in research on potato disease resistance, these findings are scattered acr...

[Research on Construction of Knowledge Base for MRI Equipment Maintenance Based on Knowledge Graph].

Zhongguo yi liao qi xie za zhi = Chinese journal of medical instrumentation
To improve the level of modern hospital management and establish a scientific and effective medical equipment maintenance guarantee system, this paper proposes the construction of a dynamic interactive fault repair knowledge base system for magnetic ...

Community knowledge graph abstraction for enhanced link prediction: A study on PubMed knowledge graph.

Journal of biomedical informatics
OBJECTIVE: As new knowledge is produced at a rapid pace in the biomedical field, existing biomedical Knowledge Graphs (KGs) cannot be manually updated in a timely manner. Previous work in Natural Language Processing (NLP) has leveraged link predictio...

An Accurate and Efficient Approach to Knowledge Extraction from Scientific Publications Using Structured Ontology Models, Graph Neural Networks, and Large Language Models.

International journal of molecular sciences
The rapid growth of biomedical literature makes it challenging for researchers to stay current. Integrating knowledge from various sources is crucial for studying complex biological systems. Traditional text-mining methods often have limited accuracy...

Knowledge-based inductive bias and domain adaptation for cell type annotation.

Communications biology
Measurement techniques often result in domain gaps among batches of cellular data from a specific modality. The effectiveness of cross-batch annotation methods is influenced by inductive bias, which refers to a set of assumptions that describe the be...

Introducing high correlation and high quality instances for few-shot entity linking.

Neural networks : the official journal of the International Neural Network Society
Entity linking, the process of connecting textual mentions in documents to canonical entities within a knowledge base, plays an integral role in a myriad of natural language processing tasks. A significant challenge prevalent within the field is the ...

BioTRY: A Comprehensive Knowledge Base for Titer, Rate, and Yield of Biosynthesis.

ACS synthetic biology
Synthetic biology is rapidly evolving into a data-intensive science that increasingly relies on massive data sets; one of its applications is the evaluation of the economic viability of fermentation processes. However, the key economic indicators, na...

scTWAS Atlas: an integrative knowledgebase of single-cell transcriptome-wide association studies.

Nucleic acids research
Single-cell transcriptome-wide association studies (scTWAS) is a new method for conducting TWAS analysis at the cellular level to identify gene-trait associations with higher precision. This approach helps overcome the challenge of interpreting cell-...

OrgXenomics: an integrated proteomic knowledge base for patient-derived organoid and xenograft.

Nucleic acids research
Patient-derived models (PDMs, particularly organoids and xenografts) are irreplaceable tools for precision medicine, from target development to lead identification, then to preclinical evaluation, and finally to clinical decision-making. So far, PDM-...

CircaKB: a comprehensive knowledgebase of circadian genes across multiple species.

Nucleic acids research
Circadian rhythms, which are the natural cycles that dictate various physiological processes over a 24-h period, have been increasingly recognized as important in the management and treatment of various human diseases. However, the lack of sufficient...