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Fillinger, L.

Publications and source records attributed to Fillinger, L..

2 recordsLinked to original sources

Graph Lens Lite: An interactive biological network viewer for displaying, exploring, and sharing disease pathobiology and drug mechanism of action models

Biological network visualization together with graph-based analyses are key techniques in systems biology and network medicine to detect patterns and generate hypotheses regarding disease pathobiology, drug target identification, biomarker prioritization, and digital drug discovery. Network representations provide an intuitive way to communicate and share research findings. We have developed Graph Lens Lite, a browser-based tool that combines rich visualization with a streamlined interface for exploring and sharing biological networks. It offers an expressive query language, topological network analysis, interactive filtering, visual grouping, customizable layouts, a data editor, fine-grained property-based styling, animated edge-flow visualization, community detection, and a context-aware locally powered AI assistant particularly suited for exploring molecular models of disease pathobiology or drug mechanism of action. We demonstrate its utility on a curated network model of autosomal dominant polycystic kidney disease. Graph Lens Lite is open source, with a live web version available at https://delta4ai.github.io/GraphLensLite/.

bioinformatics↗

Biodiversity and niche partitioning in an anaerobic benzene degrading culture

A key question in microbial ecology is what the driving forces behind the persistence of large biodiversity in natural environments are. We studied a microbial community with more than 100 different types of species which evolved in a 15-years old bioreactor with benzene as the main carbon and free energy source and nitrate as the electron acceptor. We demonstrate that only a few community members are able to degrade benzene, and that most of the others feed on the metabolic left-overs or on the contents of dead cells making up a food web with different trophic levels. As a result of niche partitioning, a high species richness is maintained and the complexity of a natural community is stabilized in a relatively simple environment. This view highlights the importance of species interactions and interdependencies, which drive microbial community structure and function. These mechanisms may well be conserved across ecosystems.

ecology↗