AIMC Topic: Microbiota
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Chronological age estimation from human microbiomes with transformer-based Robust Principal Component Analysis.
Communications biology
Aug 6, 2025
Deep learning for microbiome analysis has shown potential for understanding microbial communities and human phenotypes. Here, we propose an approach, Transformer-based Robust Principal Component Analysis(TRPCA), which leverages the strengths of trans...
A computational framework for inferring species dynamics and interactions with applications in microbiota ecology.
NPJ systems biology and applications
Aug 5, 2025
We present MBPert, a generic computational framework for inferring species interactions and predicting dynamics in time-evolving ecosystems from perturbation and time-series data. In this work, we contextualize the framework in microbial ecosystem mo...
Skin Microbiome alterations in heroin users revealed by full-length 16S rRNA sequencing.
BMC microbiology
Jul 30, 2025
BACKGROUND: Identifying key characteristics of unknown suspects, such as age, height, and drug use, is essential for advancing forensic investigations.
Biological Function Assignment across Taxonomic Levels in Mass-Spectrometry-Based Metaproteomics via a Modified Expectation Maximization Algorithm.
Journal of proteome research
Jul 18, 2025
A major challenge in mass-spectrometry-based metaproteomics is accurately identifying and quantifying biological functions across the full taxonomic lineage of microorganisms. This issue stems from what we refer to as the "shared confidently identifi...
Microbiome-based prediction of allogeneic hematopoietic stem cell transplantation outcome.
Genome medicine
Jul 17, 2025
BACKGROUND: Allogeneic hematopoietic stem cell transplantation (HSCT) is potentially curative for hematologic malignancies but is frequently complicated by relapse and immune-mediated complications, such as graft-versus-host disease (GVHD). Emerging ...
Ensemble learning for microbiome-based caries diagnosis: multi-group modeling and biological interpretation from salivary and plaque metagenomic data.
BMC oral health
Jul 17, 2025
BACKGROUND: Oral microbiota is a major etiological factor in the development of dental caries. Next-generation sequencing techniques have been widely used, generating vast amounts of data which is underexplored. The advancement of artificial intellig...
Extensive novel diversity and phenotypic associations in the dromedary camel microbiome are revealed through deep metagenomics and machine learning.
PloS one
Jul 17, 2025
The dromedary camel, also known as one-humped camel or Arabian camel, is iconic and economically important to Arabian society. Its contemporary importance in commerce and transportation, along with the historical and modern use of its milk and meat p...
Escaping Historical Lock-in─Redesigning Wastewater Treatment Plants and Their Microbiomes for the 21st Century.
Environmental science & technology
Jul 15, 2025
Wastewater treatment plants (WWTPs) have gradually, over the last hundred years, been designed and extended to deal with a sequence of problems, including a) odor, b) suspended solids, c) organics, d) ammonia, e) nitrate and phosphate, and f) recalci...
Prediction of postoperative infection through early-stage salivary microbiota following kidney transplantation using machine learning techniques.
Renal failure
Jul 3, 2025
Kidney transplantation (KT) is an effective treatment for end-stage renal disease; however, the lifelong immunosuppressive regimen increases the risk of infection, presenting significant clinical, and economic challenges. Identifying predictive bioma...
Machine learning-based identification of wastewater treatment plant-specific microbial indicators using 16S rRNA gene sequencing.
Scientific reports
Jul 3, 2025
Effluent released from municipal wastewater treatment plants reflects the microbial communities responsible for degrading and removing contaminants within the plants. Monitoring this effluent offers essential insights into its environmental impacts, ...
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