AIMC Topic: Gene Expression

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Glioma stages prediction based on machine learning algorithm combined with protein-protein interaction networks.

Genomics May 29, 2019
BACKGROUND: Glioma is the most lethal nervous system cancer. Recent studies have made great efforts to study the occurrence and development of glioma, but the molecular mechanisms are still unclear. This study was designed to reveal the molecular mec...
Gene Ontology Protein Interaction Mapping Glioma Machine Learning Gene Expression Brain Neoplasms Neoplasm Staging
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Whole-genome deep-learning analysis identifies contribution of noncoding mutations to autism risk.

Nature genetics May 27, 2019
We address the challenge of detecting the contribution of noncoding mutations to disease with a deep-learning-based framework that predicts the specific regulatory effects and the deleterious impact of genetic variants. Applying this framework to 1,7...
Computational Biology Gene Expression Mutation Genomics Genetic Predisposition to Disease Genetic Association Studies Transcription, Genetic RNA, Untranslated Genes, Reporter RNA Processing, Post-Transcriptional Alleles Gene Expression Regulation Genome, Human Humans Autism Spectrum Disorder Deep Learning Algorithms Phenotype
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Sparse support vector machines with L approximation for ultra-high dimensional omics data.

Artificial intelligence in medicine Apr 30, 2019
Omics data usually have ultra-high dimension (p) and small sample size (n). Standard support vector machines (SVMs), which minimize the L norm for the primal variables, only lead to sparse solutions for the dual variables. L based SVMs, directly mini...
Humans Artificial Intelligence Support Vector Machine Gene Expression Metagenomics
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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...
Databases, Protein Area Under Curve Gene Expression Protein Binding Proteome Models, Statistical Protein Interaction Mapping Bacillus anthracis Eukaryotic Cells Molecular Mimicry Bacterial Proteins Host-Pathogen Interactions Yersinia pestis Humans Machine Learning Francisella tularensis
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Introducing high school students to the Gene Ontology classification system.

F1000Research Mar 1, 2019
We present a tutorial that introduces high school students to the Gene Ontology classification system which is widely used in genomics and systems biology studies to characterize large sets of genes based on functional and structural information. Thi...
Humans Students Gene Expression Gene Ontology Genomics Databases, Genetic
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Predicting breast tumor proliferation from whole-slide images: The TUPAC16 challenge.

Medical image analysis Feb 27, 2019
Tumor proliferation is an important biomarker indicative of the prognosis of breast cancer patients. Assessment of tumor proliferation in a clinical setting is a highly subjective and labor-intensive task. Previous efforts to automate tumor prolifera...
Image Processing, Computer-Assisted Cell Proliferation Predictive Value of Tests Pathology Breast Neoplasms Gene Expression Humans Biomarkers, Tumor Mitosis Prognosis Deep Learning Female
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CirGO: an alternative circular way of visualising gene ontology terms.

BMC bioinformatics Feb 18, 2019
BACKGROUND: Prioritisation of gene ontology terms from differential gene expression analyses in a two-dimensional format remains a challenge with exponentially growing data volumes. Typically, gene ontology terms are represented as tree-maps that enc...
Gene Expression Gene Ontology Software Computer Graphics Humans Algorithms Cluster Analysis
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Functional expression of porcine interferon-α using a combinational strategy in Pichia pastoris GS115.

Enzyme and microbial technology Dec 10, 2018
Porcine interferon-α (pIFN-α) could be used as the vaccine adjuvant to enhance the antiviral ability of porcine in swine industry. In here, a combinational strategy integrating codon optimization, multiple gene insertion, strong AOX1 promoter, and ef...
Gene Expression Antiviral Agents Pichia Interferon-alpha Bioreactors Recombinant Proteins Vesiculovirus Fermentation Methanol Cell Line Animals Swine Cattle
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Incorporating EBO-HSIC with SVM for Gene Selection Associated with Cervical Cancer Classification.

Journal of medical systems Oct 6, 2018
Microarray technology is utilized by the biologists, in order to compute the expression levels of thousands of genes. Cervical cancer classification utilizing gene expression data depends upon conventional supervised learning methods, wherein only la...
Oligonucleotide Array Sequence Analysis Support Vector Machine Fuzzy Logic Gene Expression Algorithms Female Uterine Cervical Neoplasms Humans
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Universal method for robust detection of circadian state from gene expression.

Proceedings of the National Academy of Sciences of the United States of America Sep 10, 2018
Circadian clocks play a key role in regulating a vast array of biological processes, with significant implications for human health. Accurate assessment of physiological time using transcriptional biomarkers found in human blood can significantly imp...
Reproducibility of Results Gene Expression Profiling Transcriptome Sleep Humans Genes Models, Statistical Circadian Clocks Machine Learning Gene Expression Biomarkers Circadian Rhythm
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