AIMC Topic: Saccharomyces cerevisiae
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Dynamic mode decomposition for analysis and prediction of metabolic oscillations from time-lapse imaging of cellular autofluorescence.
Scientific reports
Jul 2, 2025
Oscillations are a common phenomenon in cell biology. They are based on non-linear coupling of biochemical reactions and can show rich dynamic behavior as found in, for example, glycolysis of yeast cells. Here, we show that dynamic mode decomposition...
Machine learning reveals genes impacting oxidative stress resistance across yeasts.
Nature communications
Jul 1, 2025
Reactive oxygen species (ROS) are highly reactive molecules encountered by yeasts during routine metabolism and during interactions with other organisms, including host infection. Here, we characterize the variation in resistance to the ROS-inducing ...
Divergence in a eukaryotic transcription factor's co-TF dependence involves multiple intrinsically disordered regions.
Nature communications
Jun 18, 2025
Combinatorial control by transcription factors (TFs) is central to eukaryotic gene regulation, yet its mechanism, evolution, and regulatory impact are not well understood. Here we use natural variation in the yeast phosphate starvation (PHO) response...
Natural Language Processing and Machine Learning Techniques for Analyzing Conversations About Nutritional Yeasts in the United States and France: Retrospective Social Media Listening Study.
JMIR infodemiology
May 1, 2025
BACKGROUND: Nutritional yeast, an inactive form of Saccharomyces cerevisiae, has recently become increasingly popular as a food supplement and healthy ingredient, especially among individuals following plant-based diets. It is valued for its health b...
Definer: A computational method for accurate identification of RNA pseudouridine sites based on deep learning.
PloS one
Apr 24, 2025
Pseudouridine is an important modification site, which is widely present in a variety of non-coding RNAs and is involved in a variety of important biological processes. Studies have shown that pseudouridine is important in many biological functions s...
Enhancing yeast cell tracking with a time-symmetric deep learning approach.
NPJ systems biology and applications
Mar 13, 2025
Accurate tracking of live cells using video microscopy recordings remains a challenging task for popular state-of-the-art image processing-based object tracking methods. In recent years, many applications have attempted to integrate deep-learning fra...
Multiplexed engineering of cytochrome P450 enzymes for promoting terpenoid synthesis in Saccharomyces cerevisiae cell factories: A review.
Biotechnology advances
Mar 9, 2025
Terpenoids, also known as isoprenoids, represent the largest and most structurally diverse family of natural products, and their biosynthesis is closely related to cytochrome P450 enzymes (P450s). Given the limitations of direct extraction from natur...
Image-based fuzzy logic control for pressure-driven droplet microfluidics as autosampler for multimodal imaging microscopy.
Lab on a chip
Jan 14, 2025
Here we present a highly customisable image-based fuzzy logic control (FLC) method for pressure-driven droplet microfluidics. The system is designed to position droplets of different sizes in microfluidic chips of varying channel size in the centre o...
[PSI]-CIC: A Deep-Learning Pipeline for the Annotation of Sectored Saccharomyces cerevisiae Colonies.
Bulletin of mathematical biology
Dec 6, 2024
The prion phenotype in yeast manifests as a white, pink, or red color pigment. Experimental manipulations destabilize prion phenotypes, and allow colonies to exhibit (red) sectored phenotypes within otherwise completely white colonies. Further inve...
Discovering geroprotectors through the explainable artificial intelligence-based platform AgeXtend.
Nature aging
Dec 3, 2024
Aging involves metabolic changes that lead to reduced cellular fitness, yet the role of many metabolites in aging is unclear. Understanding the mechanisms of known geroprotective molecules reveals insights into metabolic networks regulating aging and...
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