Editorial: Emerging areas in literature-based discovery

Sebastian, Yakub; Smalheiser, Neil R.

doi:10.3389/frma.2023.1122547

Cited by 1 publication

(1 citation statement)

References 7 publications

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“…The proposed LBD technique can aid in bridging the knowledge gaps between DKD etiology and treatment. Applying LBD techniques to DKD research will enable faster processing of novel and actionable knowledge from vast, diverse, and seemingly disconnected fragments of information and the utilization of processed information towards treatment design [91]. The Kidney Precision Medicine Project (KPMP) has extensively contributed to the representation of kidney phenotype terms for acute and chronic kidney disease and increased the ability to improve personalized treatment.…”

Section: Limitations and Future Directionsmentioning

confidence: 99%

Cross-Domain Text Mining of Pathophysiological Processes Associated with Diabetic Kidney Disease

Patidar,

Deng,

Mitchell

et al. 2024

IJMS

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Diabetic kidney disease (DKD) is the leading cause of end-stage renal disease worldwide. This study’s goal was to identify the signaling drivers and pathways that modulate glomerular endothelial dysfunction in DKD via artificial intelligence-enabled literature-based discovery. Cross-domain text mining of 33+ million PubMed articles was performed with SemNet 2.0 to identify and rank multi-scalar and multi-factorial pathophysiological concepts related to DKD. A set of identified relevant genes and proteins that regulate different pathological events associated with DKD were analyzed and ranked using normalized mean HeteSim scores. High-ranking genes and proteins intersected three domains—DKD, the immune response, and glomerular endothelial cells. The top 10% of ranked concepts were mapped to the following biological functions: angiogenesis, apoptotic processes, cell adhesion, chemotaxis, growth factor signaling, vascular permeability, the nitric oxide response, oxidative stress, the cytokine response, macrophage signaling, NFκB factor activity, the TLR pathway, glucose metabolism, the inflammatory response, the ERK/MAPK signaling response, the JAK/STAT pathway, the T-cell-mediated response, the WNT/β-catenin pathway, the renin–angiotensin system, and NADPH oxidase activity. High-ranking genes and proteins were used to generate a protein–protein interaction network. The study results prioritized interactions or molecules involved in dysregulated signaling in DKD, which can be further assessed through biochemical network models or experiments.

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Section: Limitations and Future Directionsmentioning

confidence: 99%