AIMC Topic: Genome, Bacterial

Clear Filters Showing 51 to 60 of 94 articles

Beyond multidrug resistance: Leveraging rare variants with machine and statistical learning models in Mycobacterium tuberculosis resistance prediction.

EBioMedicine Apr 29, 2019
BACKGROUND: The diagnosis of multidrug resistant and extensively drug resistant tuberculosis is a global health priority. Whole genome sequencing of clinical Mycobacterium tuberculosis isolates promises to circumvent the long wait times and limited s...
Machine Learning Prognosis Reproducibility of Results Microbial Sensitivity Tests Humans Evolution, Molecular Databases, Genetic ROC Curve Antitubercular Agents Cluster Analysis Genomics Tuberculosis, Multidrug-Resistant Models, Statistical Computational Biology Genome, Bacterial Genetic Variation Extensively Drug-Resistant Tuberculosis Mycobacterium tuberculosis
View on PubMed DOI

ML-DSP: Machine Learning with Digital Signal Processing for ultrafast, accurate, and scalable genome classification at all taxonomic levels.

BMC genomics Apr 3, 2019
BACKGROUND: Although software tools abound for the comparison, analysis, identification, and classification of genomic sequences, taxonomic classification remains challenging due to the magnitude of the datasets and the intrinsic problems associated ...
Algorithms Computer Simulation Animals Humans Machine Learning Software Genome, Viral Genome, Mitochondrial Genome, Bacterial Vertebrates Genomics Signal Processing, Computer-Assisted Dengue Virus
View on PubMed DOI

Incorporating microbial community data with machine learning techniques to predict feed substrates in microbial fuel cells.

Biosensors & bioelectronics Mar 13, 2019
The complicated interactions that occur in mixed-species biotechnologies, including biosensors, hinder chemical detection specificity. This lack of specificity limits applications in which biosensors may be deployed, such as those where an unknown fe...
Bacteria Acetates Microbiota Algorithms Biosensing Techniques Genomics Carbohydrates Genome, Bacterial Machine Learning Wastewater
View on PubMed DOI

Using Machine Learning To Predict Antimicrobial MICs and Associated Genomic Features for Nontyphoidal .

Journal of clinical microbiology Jan 30, 2019
Nontyphoidal species are the leading bacterial cause of foodborne disease in the United States. Whole-genome sequences and paired antimicrobial susceptibility data are available for strains because of surveillance efforts from public health agencie...
United States Foodborne Diseases Genotyping Techniques Salmonella Infections Genome, Bacterial Drug Resistance, Bacterial Microbial Sensitivity Tests Salmonella Humans Machine Learning
View on PubMed DOI

Machine learning and structural analysis of Mycobacterium tuberculosis pan-genome identifies genetic signatures of antibiotic resistance.

Nature communications Oct 17, 2018
Mycobacterium tuberculosis is a serious human pathogen threat exhibiting complex evolution of antimicrobial resistance (AMR). Accordingly, the many publicly available datasets describing its AMR characteristics demand disparate data-type analyses. He...
Genome, Bacterial Machine Learning Gene Frequency Selection, Genetic Drug Resistance, Bacterial Mycobacterium tuberculosis
View on PubMed DOI

Functional Annotation of Proteins Encoded by the Minimal Bacterial Genome Based on Secondary Structure Element Alignment.

Journal of proteome research May 24, 2018
In synthetic biology, one of the key focuses is building a minimal artificial cell which can provide basic chassis for functional study. Recently, the J. Craig Venter Institute published the latest version of the minimal bacterial genome JCVI-syn3.0,...
Protein Structure, Secondary Sequence Homology, Amino Acid Supervised Machine Learning Artificial Intelligence Molecular Sequence Annotation Algorithms Genome, Bacterial Bacterial Proteins
View on PubMed DOI

Computational Prediction of Sigma-54 Promoters in Bacterial Genomes by Integrating Motif Finding and Machine Learning Strategies.

IEEE/ACM transactions on computational biology and bioinformatics Mar 15, 2018
Sigma factor, as a unit of RNA polymerase holoenzyme, is a critical factor in the process of gene transcriptional regulation. It recognizes the specific DNA sites and brings the core enzyme of RNA polymerase to the upstream regions of target genes. T...
False Positive Reactions Promoter Regions, Genetic Transcription, Genetic DNA-Directed RNA Polymerases RNA Polymerase Sigma 54 Genome, Bacterial Amino Acid Motifs Models, Statistical Escherichia coli Proteins Base Sequence Reproducibility of Results Computational Biology Escherichia coli Machine Learning Software
View on PubMed DOI

1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life.

Nature biotechnology Jun 12, 2017
We present 1,003 reference genomes that were sequenced as part of the Genomic Encyclopedia of Bacteria and Archaea (GEBA) initiative, selected to maximize sequence coverage of phylogenetic space. These genomes double the number of existing type strai...
Reference Values High-Throughput Nucleotide Sequencing Datasets as Topic Databases, Genetic Knowledge Bases Encyclopedias as Topic Genome, Archaeal Genome, Bacterial Database Management Systems Chromosome Mapping
View on PubMed DOI

An improved method for identification of small non-coding RNAs in bacteria using support vector machine.

Scientific reports Apr 6, 2017
Bacterial small non-coding RNAs (sRNAs) are not translated into proteins, but act as functional RNAs. They are involved in diverse biological processes like virulence, stress response and quorum sensing. Several high-throughput techniques have enable...
RNA, Small Untranslated Machine Learning Reproducibility of Results Databases, Genetic Genome, Bacterial Computational Biology RNA, Bacterial Support Vector Machine
View on PubMed DOI

Genomic Islands: an overview of current software and future improvements.

Journal of integrative bioinformatics Dec 22, 2016
Microbes are highly diverse and widely distributed organisms. They account for ~60% of Earth’s biomass and new predictions point for the existence of 1011 to 1012 species, which are constantly sharing genes through several different mechanisms....
Genomic Islands Software Genome, Bacterial Bacteria Sequence Analysis, DNA
View on PubMed DOI
Popular Topics
Recent Journals