Applications of machine learning in human microbiome studies: a review on feature selection, biomarker identification, disease prediction and treatment
The number of microbiome-related studies has notably increased the availability of data on
human microbiome composition and function. These studies provide the essential material …
human microbiome composition and function. These studies provide the essential material …
Bacterial biopolymers: from pathogenesis to advanced materials
Bacteria are prime cell factories that can efficiently convert carbon and nitrogen sources into
a large diversity of intracellular and extracellular biopolymers, such as polysaccharides …
a large diversity of intracellular and extracellular biopolymers, such as polysaccharides …
Genome-scale metabolic reconstruction of 7,302 human microorganisms for personalized medicine
The human microbiome influences the efficacy and safety of a wide variety of commonly
prescribed drugs. Designing precision medicine approaches that incorporate microbial …
prescribed drugs. Designing precision medicine approaches that incorporate microbial …
The gut microbial metabolite formate exacerbates colorectal cancer progression
The gut microbiome is a key player in the immunomodulatory and protumorigenic
microenvironment during colorectal cancer (CRC), as different gut-derived bacteria can …
microenvironment during colorectal cancer (CRC), as different gut-derived bacteria can …
Metabolic modeling of single Th17 cells reveals regulators of autoimmunity
Metabolism is a major regulator of immune cell function, but it remains difficult to study the
metabolic status of individual cells. Here, we present Compass, an algorithm to characterize …
metabolic status of individual cells. Here, we present Compass, an algorithm to characterize …
Engineering natural microbiomes toward enhanced bioremediation by microbiome modeling
Z Ruan, K Chen, W Cao, L Meng, B Yang, M Xu… - Nature …, 2024 - nature.com
Engineering natural microbiomes for biotechnological applications remains challenging, as
metabolic interactions within microbiomes are largely unknown, and practical principles and …
metabolic interactions within microbiomes are largely unknown, and practical principles and …
Deep learning-based kcat prediction enables improved enzyme-constrained model reconstruction
Enzyme turnover numbers (k cat) are key to understanding cellular metabolism, proteome
allocation and physiological diversity, but experimentally measured k cat data are sparse …
allocation and physiological diversity, but experimentally measured k cat data are sparse …
Engineering cofactor supply and recycling to drive phenolic acid biosynthesis in yeast
Advances in synthetic biology enable microbial hosts to synthesize valuable natural
products in an efficient, cost-competitive and safe manner. However, current engineering …
products in an efficient, cost-competitive and safe manner. However, current engineering …
[HTML][HTML] Towards bio-upcycling of polyethylene terephthalate
Over 359 million tons of plastics were produced worldwide in 2018, with significant growth
expected in the near future, resulting in the global challenge of end-of-life management. The …
expected in the near future, resulting in the global challenge of end-of-life management. The …
MEMOTE for standardized genome-scale metabolic model testing
To the Editor—Reconstructing metabolic reaction networks enables the development of
testable hypotheses of an organism's metabolism under different conditions 1. State-of-the …
testable hypotheses of an organism's metabolism under different conditions 1. State-of-the …