AIMC Topic: Saccharomyces cerevisiae

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Prior knowledge guided active modules identification: an integrated multi-objective approach.

BMC systems biology Mar 14, 2017
BACKGROUND: Active module, defined as an area in biological network that shows striking changes in molecular activity or phenotypic signatures, is important to reveal dynamic and process-specific information that is correlated with cellular or diseas...
Saccharomyces cerevisiae Protein Interaction Mapping Computational Biology Galactose Machine Learning Gene Regulatory Networks
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Machine Learning of Global Phosphoproteomic Profiles Enables Discrimination of Direct versus Indirect Kinase Substrates.

Molecular & cellular proteomics : MCP Mar 6, 2017
Mass spectrometry allows quantification of tens of thousands of phosphorylation sites from minute amounts of cellular material. Despite this wealth of information, our understanding of phosphorylation-based signaling is limited, in part because it is...
Algorithms Proteomics Phosphorylation Phosphoproteins Machine Learning Protein Kinases Substrate Specificity DNA Mutational Analysis Saccharomyces cerevisiae Proteins Saccharomyces cerevisiae Pyrazoles Pyrimidines
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Detecting N-methyladenosine sites from RNA transcriptomes using ensemble Support Vector Machines.

Scientific reports Jan 12, 2017
As one of the most abundant RNA post-transcriptional modifications, N-methyladenosine (mA) involves in a broad spectrum of biological and physiological processes ranging from mRNA splicing and stability to cell differentiation and reprogramming. Howe...
Saccharomyces cerevisiae Adenosine RNA Processing, Post-Transcriptional Computational Biology Support Vector Machine RNA Transcriptome
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Mechanisms of inactivation of Candida humilis and Saccharomyces cerevisiae by pulsed electric fields.

Bioelectrochemistry (Amsterdam, Netherlands) Dec 30, 2016
AIMS: This study aimed to determine how electric field strength, pulse width and shape, and specific energy input relate to the effect of pulsed electric fields (PEF) on viability and membrane permeabilization in Candida humilis and Saccharomyces cer...
Electroporation Cell Membrane Permeability Saccharomyces cerevisiae Electromagnetic Fields Propidium Candida Equipment Design
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Improved protein-protein interactions prediction via weighted sparse representation model combining continuous wavelet descriptor and PseAA composition.

BMC systems biology Dec 23, 2016
BACKGROUND: Protein-protein interactions (PPIs) are essential to most biological processes. Since bioscience has entered into the era of genome and proteome, there is a growing demand for the knowledge about PPI network. High-throughput biological te...
Humans Amino Acid Sequence Computational Biology Saccharomyces cerevisiae Helicobacter pylori Protein Interaction Mapping
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Interspecies gene function prediction using semantic similarity.

BMC systems biology Dec 23, 2016
BACKGROUND: Gene Ontology (GO) is a collaborative project that maintains and develops controlled vocabulary (or terms) to describe the molecular function, biological roles and cellular location of gene products in a hierarchical ontology. GO also pro...
Humans Animals Mice Zebrafish Semantics Saccharomyces cerevisiae Species Specificity Computational Biology Databases, Genetic Natural Language Processing Molecular Sequence Annotation Gene Ontology
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The Essential Oils of Hairy Roots and Roots of Soil-Grown Plants: Chemical Composition and Antimicrobial, Anti-Inflammatory, and Antioxidant Activities.

Oxidative medicine and cellular longevity Dec 18, 2016
The essential oils were isolated by hydrodistillation from the hairy roots (HR) and roots of soil-grown plants (SGR) of and were analyzed by GC-MS method. In the both essential oils 62 compounds were identified. The root essential oils showed the di...
Reactive Oxygen Species Plant Roots Interleukin-1beta Humans Candida albicans Gas Chromatography-Mass Spectrometry Astrocytes Oils, Volatile Anti-Infective Agents Lipopolysaccharides Interleukin-6 Enterococcus faecalis Anti-Inflammatory Agents Tumor Necrosis Factor-alpha Cell Line Microbial Sensitivity Tests Saccharomyces cerevisiae Enzyme-Linked Immunosorbent Assay Pseudomonas aeruginosa Leuzea
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Prediction of Protein-Protein Interactions by Evidence Combining Methods.

International journal of molecular sciences Nov 22, 2016
Most cellular functions involve proteins' features based on their physical interactions with other partner proteins. Sketching a map of protein-protein interactions (PPIs) is therefore an important inception step towards understanding the basics of c...
Drosophila melanogaster Molecular Sequence Annotation Gene Ontology Arabidopsis Protein Interaction Mapping Protein Interaction Domains and Motifs High-Throughput Nucleotide Sequencing Datasets as Topic Saccharomyces cerevisiae Proteins Models, Molecular Data Mining Humans Computer Simulation Animals Support Vector Machine Mice Escherichia coli Computational Biology
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Rectified-Linear-Unit-Based Deep Learning for Biomedical Multi-label Data.

Interdisciplinary sciences, computational life sciences Nov 11, 2016
Disease diagnosis is one of the major data mining questions by the clinicians. The current diagnosis models usually have a strong assumption that one patient has only one disease, i.e. a single-label data mining problem. But the patients, especially ...
Algorithms Saccharomyces cerevisiae Biomedical Technology Machine Learning
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Inferring Unknown Biological Function by Integration of GO Annotations and Gene Expression Data.

IEEE/ACM transactions on computational biology and bioinformatics Oct 7, 2016
Characterizing genes with semantic information is an important process regarding the description of gene products. In spite that complete genomes of many organisms have been already sequenced, the biological functions of all of their genes are still ...
Machine Learning Gene Expression Profiling Models, Genetic Databases, Genetic Transcriptome Computational Biology Cluster Analysis Gene Ontology Saccharomyces cerevisiae Genes Molecular Sequence Annotation Arabidopsis
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