AIMC Topic: Microbiota
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Learning, visualizing and exploring 16S rRNA structure using an attention-based deep neural network.
PLoS computational biology
Sep 22, 2021
Recurrent neural networks with memory and attention mechanisms are widely used in natural language processing because they can capture short and long term sequential information for diverse tasks. We propose an integrated deep learning model for micr...
Misic, a general deep learning-based method for the high-throughput cell segmentation of complex bacterial communities.
eLife
Sep 9, 2021
Studies of bacterial communities, biofilms and microbiomes, are multiplying due to their impact on health and ecology. Live imaging of microbial communities requires new tools for the robust identification of bacterial cells in dense and often inter-...
The use of a UV-C disinfection robot in the routine cleaning process: a field study in an Academic hospital.
Antimicrobial resistance and infection control
May 29, 2021
BACKGROUND: Environmental surface decontamination is a crucial tool to prevent the spread of infections in hospitals. However, manual cleaning and disinfection may be insufficient to eliminate pathogens from contaminated surfaces. Ultraviolet-C (UV-C...
Artificial neural network analysis of microbial diversity in the central and southern Adriatic Sea.
Scientific reports
May 27, 2021
Bacteria are an active and diverse component of pelagic communities. The identification of main factors governing microbial diversity and spatial distribution requires advanced mathematical analyses. Here, the bacterial community composition was anal...
MiMeNet: Exploring microbiome-metabolome relationships using neural networks.
PLoS computational biology
May 17, 2021
The advance in microbiome and metabolome studies has generated rich omics data revealing the involvement of the microbial community in host disease pathogenesis through interactions with their host at a metabolic level. However, the computational too...
Prediction of preterm birth based on machine learning using bacterial risk score in cervicovaginal fluid.
American journal of reproductive immunology (New York, N.Y. : 1989)
May 10, 2021
PROBLEM: Preterm birth (PTB) is a major cause of increased morbidity and mortality in newborns. The main cause of spontaneous PTB (sPTB) is the activation of an inflammatory response as a result of ascending genital tract infection. Despite various s...
Machine learning-assisted immune profiling stratifies peri-implantitis patients with unique microbial colonization and clinical outcomes.
Theranostics
May 3, 2021
The endemic of peri-implantitis affects over 25% of dental implants. Current treatment depends on empirical patient and site-based stratifications and lacks a consistent risk grading system. We investigated a unique cohort of peri-implantitis patie...
Microbiome meta-analysis and cross-disease comparison enabled by the SIAMCAT machine learning toolbox.
Genome biology
Mar 30, 2021
The human microbiome is increasingly mined for diagnostic and therapeutic biomarkers using machine learning (ML). However, metagenomics-specific software is scarce, and overoptimistic evaluation and limited cross-study generalization are prevailing i...
Nonlinear machine learning pattern recognition and bacteria-metabolite multilayer network analysis of perturbed gastric microbiome.
Nature communications
Mar 26, 2021
The stomach is inhabited by diverse microbial communities, co-existing in a dynamic balance. Long-term use of drugs such as proton pump inhibitors (PPIs), or bacterial infection such as Helicobacter pylori, cause significant microbial alterations. Ye...
Explainable AI reveals changes in skin microbiome composition linked to phenotypic differences.
Scientific reports
Feb 25, 2021
Alterations in the human microbiome have been observed in a variety of conditions such as asthma, gingivitis, dermatitis and cancer, and much remains to be learned about the links between the microbiome and human health. The fusion of artificial inte...
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