AIMC Topic: Bacteria
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Pre_GI: a global map of ontological links between horizontally transferred genomic islands in bacterial and archaeal genomes.
Database : the journal of biological databases and curation
Jun 17, 2015
The Predicted Genomic Islands database (Pre_GI) is a comprehensive repository of prokaryotic genomic islands (islands, GIs) freely accessible at http://pregi.bi.up.ac.za/index.php. Pre_GI, Version 2015, catalogues 26 744 islands identified in 2407 ba...
Construction of an ortholog database using the semantic web technology for integrative analysis of genomic data.
PloS one
Apr 13, 2015
Recently, various types of biological data, including genomic sequences, have been rapidly accumulating. To discover biological knowledge from such growing heterogeneous data, a flexible framework for data integration is necessary. Ortholog informati...
MorphoCol: An ontology-based knowledgebase for the characterisation of clinically significant bacterial colony morphologies.
Journal of biomedical informatics
Mar 25, 2015
BACKGROUND: One of the major concerns of the biomedical community is the increasing prevalence of antimicrobial resistant microorganisms. Recent findings show that the diversification of colony morphology may be indicative of the expression of virule...
Prediction and analysis of quorum sensing peptides based on sequence features.
PloS one
Mar 17, 2015
Quorum sensing peptides (QSPs) are the signaling molecules used by the Gram-positive bacteria in orchestrating cell-to-cell communication. In spite of their enormous importance in signaling process, their detailed bioinformatics analysis is lacking. ...
Predicting fecal sources in waters with diverse pollution loads using general and molecular host-specific indicators and applying machine learning methods.
Journal of environmental management
Jan 10, 2015
In this study we use a machine learning software (Ichnaea) to generate predictive models for water samples with different concentrations of fecal contamination (point source, moderate and low). We applied several MST methods (host-specific Bacteroide...
Deep learning-based detection of bacterial swarm motion using a single image.
Gut microbes
Dec 1, 2025
Motility is a fundamental characteristic of bacteria. Distinguishing between swarming and swimming, the two principal forms of bacterial movement, holds significant conceptual and clinical relevance. Conventionally, the detection of bacterial swarmin...
Machine learning classification of quorum sensing-induced bacterial aggregation using flow rate assays on paper chips toward bacterial species identification in potable water sources.
Biosensors & bioelectronics
Sep 15, 2025
Preventing waterborne disease caused by bacteria is especially important in low-resource settings, where skilled personnel and laboratory equipment are scarce. This work reports a straightforward method for classifying bacterial species by monitoring...
A critical review on occurrence, speciation, mobilization, and toxicity of per- and polyfluoroalkyl substances in the soil-microbe-plant system and bioremediation strategies.
Journal of hazardous materials
Aug 15, 2025
Per- and polyfluoroalkyl substances (PFAS) are a group of recalcitrant anthropogenic compounds that are extensively utilized for numerous industrial applications globally. Despite such vast utilization, PFAS accumulation in the soils and sediments wi...
Paper-based SERS chip with adaptive attention neural network for pathogen identification.
Journal of hazardous materials
Aug 15, 2025
High-speed and accuracy identification of pathogens has become increasingly critical in both individual patient care and public health. Artificial intelligence (AI)-assisted surface-enhanced Raman scattering (SERS) biosensors enable simultaneous iden...
Prediction of airborne bacterial concentrations and identification of critical factors in contaminated waste facilities: Insights into interpretable machine learning models.
Journal of hazardous materials
Aug 15, 2025
The efficient prediction of airborne bacterial concentrations is crucial for better understanding and management of environmental sanitation risks in waste facilities. Traditional linear models have proven inadequate in capturing the complex relation...
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