Category Ranking
98%
Total Visits
921
Avg Visit Duration
2 minutes
Citations
20
Article Abstract
As a conceptual model of disease mechanisms, a disease map integrates available knowledge and is applied for data interpretation, predictions and hypothesis generation. It is possible to model disease mechanisms on different levels of granularity and adjust the approach to the goals of a particular project. This rich environment together with requirements for high-quality network reconstruction makes it challenging for new curators and groups to be quickly introduced to the development methods. In this review, we offer a step-by-step guide for developing a disease map within its mainstream pipeline that involves using the CellDesigner tool for creating and editing diagrams and the MINERVA Platform for online visualisation and exploration. We also describe how the Neo4j graph database environment can be used for managing and querying efficiently such a resource. For assessing the interoperability and reproducibility we apply FAIR principles.
Download full-text PDF |
Source |
|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10325725 | PMC |
| http://dx.doi.org/10.3389/fbinf.2023.1197310 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Multi-Omics Analysis Revealed Characterization of Gastric Microbiome and Metabolome in Helicobacter pylori-Induced Progression of MASLD.
Helicobacter
September 2025
Department of Gastroenterology, The First Affiliated Hospital of Nanjing Medical University, Nanjing, China.
Background: Several clinical studies have demonstrated that Helicobacter pylori (Hp) infection may exacerbate the progression of Metabolic Dysfunction-Associated Steatotic Liver Disease (MASLD); however, the underlying mechanisms remain unclear. This study aims to investigate the characterization of the gastric microbiome and metabolome in relation to the progression of MASLD induced by Hp infection.
Methods: We established a high-fat diet (HFD) obese mouse model, both with and without Hp infection, to compare alterations in serum and liver metabolic phenotypes.
Transcriptomic analysis of immune and metabolic responses in largemouth bass (Micropterus salmoides) challenged with Citrobacter freundii.
J Fish Biol
September 2025
College of Animal Science and Technology, Yangzhou University, Yangzhou, China.
Citrobacter freundii, a common zoonotic pathogen affecting humans, livestock and fish, is recognized for its substantial impact on largemouth bass (Micropterus salmoides) mortality. However, the mechanisms of C. freundii infection in largemouth bass remain poorly understood.
View Article and Find Full Text PDFGut Microbes and Inflammation: Their Role in Spinal Cord Injury Progression and Secondary Damage.
Curr Microbiol
September 2025
Department of Spine Surgery, Honghui Hospital, Xi'an Jiaotong University, Xi'an, Shaanxi, China.
This review article describes recent research advances in the relationship between spinal cord injury (SCI) and the gut microbiota and each other's inflammatory response. SCI is a serious neurological disease that directly damages physiological function. Recent studies have shown that SCI significantly affected the composition and function of the gut microbiota, and even caused intestinal inflammation.
View Article and Find Full Text PDFAssociation between overweight/obesity and oral health in adults aged 55 and older: a systematic review and meta-analysis.
Geroscience
September 2025
Department of Orofacial Pain and Dysfunction, Academic Centre for Dentistry Amsterdam (ACTA) University of Amsterdam and Vrije Universiteit Amsterdam, Gustav Mahlerlaan, 3004, 1081 LA, Amsterdam, the Netherlands.
The increasing prevalence of overweight/obesity among the elderly has significant implications for oral health due to shared pathophysiological mechanisms. Despite its importance, comprehensive reviews on this topic remain limited. This study investigates the association between overweight/obesity and oral health outcomes in adults aged 55 and older.
View Article and Find Full Text PDFInsights Into the Separate and Joint Effects of Cadmium and Cesium on the Risk of Circadian Syndrome and the Underlying Mechanism: An Integrated Epidemiological and Network Toxicological Study.
Biol Trace Elem Res
September 2025
Department of Occupational and Environmental Health, Key Laboratory of Environment and Health, Ministry of Education & Ministry of Environmental Protection, and State Key Laboratory of Environmental Health (Incubating), School of Public Health, Tongji Medical College, Huazhong University of Science
The uncharted effects of cadmium and cesium on circadian syndrome (CircS), an emerging circadian rhythm disorder drawing considerable attention, and underlying mechanisms warrant exigent elaboration. Data of 11141 subjects from National Health and Nutrition Examination Survey 2005-2018 were incorporated to investigate separate-, joint-/interaction-, and mixture-effects of urinary cadmium and cesium on prevalent CircS risk exploiting survey weight regression and quantile g-computation. The underlying mechanisms were probed by network toxicological analysis.
View Article and Find Full Text PDF