AIMC Topic: Gene Expression Profiling

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Gene expression profiles reveal key genes for early diagnosis and treatment of adamantinomatous craniopharyngioma.

Cancer gene therapy Apr 23, 2018
Adamantinomatous craniopharyngioma (ACP) is an aggressive brain tumor that occurs predominantly in the pediatric population. Conventional diagnosis method and standard therapy cannot treat ACPs effectively. In this paper, we aimed to identify key gen...
Databases, Genetic Pituitary Neoplasms Craniopharyngioma Humans Female Male Gene Expression Profiling Protein Interaction Maps Gene Regulatory Networks Gene Expression Regulation, Neoplastic Support Vector Machine
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Cox-nnet: An artificial neural network method for prognosis prediction of high-throughput omics data.

PLoS computational biology Apr 10, 2018
Artificial neural networks (ANN) are computing architectures with many interconnections of simple neural-inspired computing elements, and have been applied to biomedical fields such as imaging analysis and diagnosis. We have developed a new ANN frame...
Neural Networks, Computer Prognosis Female Male Humans Sequence Analysis, RNA Metabolic Networks and Pathways High-Throughput Nucleotide Sequencing Survival Analysis Proportional Hazards Models Neoplasms Gene Expression Profiling Gene Regulatory Networks Computational Biology Kaplan-Meier Estimate Databases, Nucleic Acid
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Transcriptomics and machine learning predict diagnosis and severity of growth hormone deficiency.

JCI insight Apr 5, 2018
BACKGROUND: The effect of gene expression data on diagnosis remains limited. Here, we show how diagnosis and classification of growth hormone deficiency (GHD) can be achieved from a single blood sample using a combination of transcriptomics and rando...
Healthy Volunteers Datasets as Topic Gene Regulatory Networks Gene Expression Profiling Polymorphism, Single Nucleotide Biomarkers Transcriptome Predictive Value of Tests Female Child, Preschool Case-Control Studies Principal Component Analysis Male Child Adolescent Severity of Illness Index ROC Curve Humans Human Growth Hormone Machine Learning Growth Disorders
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Transfer Learning for Molecular Cancer Classification Using Deep Neural Networks.

IEEE/ACM transactions on computational biology and bioinformatics Apr 4, 2018
The emergence of deep learning has impacted numerous machine learning based applications and research. The reason for its success lies in two main advantages: 1) it provides the ability to learn very complex non-linear relationships between features ...
Humans Area Under Curve Deep Learning Neural Networks, Computer Linear Models Genomics Software Pattern Recognition, Automated Computational Biology Gene Expression Regulation Models, Statistical Gene Expression Profiling Algorithms Transcriptome Neoplasms Diagnosis, Computer-Assisted
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Identification of Three Rheumatoid Arthritis Disease Subtypes by Machine Learning Integration of Synovial Histologic Features and RNA Sequencing Data.

Arthritis & rheumatology (Hoboken, N.J.) Apr 2, 2018
OBJECTIVE: In this study, we sought to refine histologic scoring of rheumatoid arthritis (RA) synovial tissue by training with gene expression data and machine learning.
Humans Machine Learning Female Gene Expression Profiling Aged Arthritis, Rheumatoid Male Sequence Analysis, RNA Middle Aged Synovial Membrane Osteoarthritis
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Sequential regulatory activity prediction across chromosomes with convolutional neural networks.

Genome research Mar 27, 2018
Models for predicting phenotypic outcomes from genotypes have important applications to understanding genomic function and improving human health. Here, we develop a machine-learning system to predict cell-type-specific epigenetic and transcriptional...
Humans Neural Networks, Computer Machine Learning Animals Regulatory Sequences, Nucleic Acid Gene Expression Profiling Genomics Models, Genetic Polymorphism, Single Nucleotide Computational Biology Gene Expression Regulation Epigenomics Promoter Regions, Genetic Chromosomes
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Functional Categorization of Disease Genes Based on Spectral Graph Theory and Integrated Biological Knowledge.

Interdisciplinary sciences, computational life sciences Jan 30, 2018
Interaction of multiple genetic variants is a major challenge in the development of effective treatment strategies for complex disorders. Identifying the most promising genes enhances the understanding of the underlying mechanisms of the disease, whi...
Genome, Human Oligonucleotide Array Sequence Analysis Humans Computer Graphics Phenotype Algorithms Computational Biology Autism Spectrum Disorder Cluster Analysis Gene Expression Profiling Knowledge Bases Genomics Probability
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InfAcrOnt: calculating cross-ontology term similarities using information flow by a random walk.

BMC genomics Jan 19, 2018
BACKGROUND: Since the establishment of the first biomedical ontology Gene Ontology (GO), the number of biomedical ontology has increased dramatically. Nowadays over 300 ontologies have been built including extensively used Disease Ontology (DO) and H...
Humans Computational Biology Models, Biological Software Gene Expression Profiling Yeasts Gene Regulatory Networks Gene Ontology Genomics Protein Interaction Domains and Motifs
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Support vector machine classifier for prediction of the metastasis of colorectal cancer.

International journal of molecular medicine Jan 2, 2018
Colorectal cancer (CRC) is one of the most common cancers and a major cause of mortality. The present study aimed to identify potential biomarkers for CRC metastasis and uncover the mechanisms underlying the etiology of the disease. The five datasets...
Databases, Genetic Quality Control Neoplasm Metastasis Cell Line, Tumor Protein Interaction Maps Gene Expression Regulation, Neoplastic Support Vector Machine Humans Reproducibility of Results Colorectal Neoplasms Gene Expression Profiling
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Human Wharton's Jelly-Derived Stem Cells Display a Distinct Immunomodulatory and Proregenerative Transcriptional Signature Compared to Bone Marrow-Derived Stem Cells.

Stem cells and development Dec 21, 2017
Mesenchymal stromal cells (MSCs) are multipotent stem cells with immunosuppressive and trophic support functions. While MSCs from different sources frequently display a similar appearance in culture, they often show differences in their surface marke...
Gene Ontology Mesenchymal Stem Cells Humans Cell Adhesion Bone Marrow Cells Gene Expression Profiling Gene Expression Regulation Cell Line, Tumor Immunomodulation Cell Proliferation
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