AIMC Topic: Bacterial Proteins
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A deep learning ensemble for function prediction of hypothetical proteins from pathogenic bacterial species.
Computational biology and chemistry
Oct 19, 2019
Protein function prediction is a crucial task in the post-genomics era due to their diverse irreplaceable roles in a biological system. Traditional methods involved cost-intensive and time-consuming molecular biology techniques but they proved to be ...
Fast and Accurate Bacterial Species Identification in Urine Specimens Using LC-MS/MS Mass Spectrometry and Machine Learning.
Molecular & cellular proteomics : MCP
Oct 4, 2019
Fast identification of microbial species in clinical samples is essential to provide an appropriate antibiotherapy to the patient and reduce the prescription of broad-spectrum antimicrobials leading to antibioresistances. MALDI-TOF-MS technology has ...
Use of high-content analysis and machine learning to characterize complex microbial samples via morphological analysis.
PloS one
Sep 23, 2019
High Content Analysis (HCA) has become a cornerstone of cellular analysis within the drug discovery industry. To expand the capabilities of HCA, we have applied the same analysis methods, validated in numerous mammalian cell models, to microbiology m...
SecProMTB: Support Vector Machine-Based Classifier for Secretory Proteins Using Imbalanced Data Sets Applied to Mycobacterium tuberculosis.
Proteomics
Aug 8, 2019
Secretory proteins of Mycobacterium tuberculosis have created more concern, given their dominant immunogenicity and role in pathogenesis. In view of expensive and time-consuming traditional biochemical experiments, an advanced support vector machine ...
Morphology-based classification of mycobacteria-infected macrophages with convolutional neural network: reveal EsxA-induced morphologic changes indistinguishable by naked eyes.
Translational research : the journal of laboratory and clinical medicine
Jun 28, 2019
EsxA is an essential virulence factor for Mycobacterium tuberculosis (Mtb) pathogenesis as well as an important biomarker for Mtb detection. In this study, we use light microscopy and deep learning-based image analysis to classify the morphologic cha...
A Deep Learning-Based Automatic Mosquito Sensing and Control System for Urban Mosquito Habitats.
Sensors (Basel, Switzerland)
Jun 21, 2019
Mosquito control is important as mosquitoes are extremely harmful pests that spread various infectious diseases. In this research, we present the preliminary results of an automated system that detects the presence of mosquitoes via image processing ...
Machine Learning Applied to Predicting Microorganism Growth Temperatures and Enzyme Catalytic Optima.
ACS synthetic biology
Jun 7, 2019
Enzymes that catalyze chemical reactions at high temperatures are used for industrial biocatalysis, applications in molecular biology, and as highly evolvable starting points for protein engineering. The optimal growth temperature (OGT) of organisms ...
Soft-sensing method based on FDLS-SVM in marine alkaline protease fermentation process.
Preparative biochemistry & biotechnology
May 27, 2019
To overcome the problem that soft-sensing model cannot be updated with the bioprocess changes, this article proposed a soft-sensing modeling method which combined fuzzy c-means clustering (FCM) algorithm with least squares support vector machine theo...
DEEPred: Automated Protein Function Prediction with Multi-task Feed-forward Deep Neural Networks.
Scientific reports
May 14, 2019
Automated protein function prediction is critical for the annotation of uncharacterized protein sequences, where accurate prediction methods are still required. Recently, deep learning based methods have outperformed conventional algorithms in comput...
Machine-Learning-Based Predictor of Human-Bacteria Protein-Protein Interactions by Incorporating Comprehensive Host-Network Properties.
Journal of proteome research
Apr 22, 2019
The large-scale identification of protein-protein interactions (PPIs) between humans and bacteria remains a crucial step in systematically understanding the underlying molecular mechanisms of bacterial infection. Computational prediction approaches a...
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