AIMC Topic: Gene Expression Profiling

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Unsupervised deep learning reveals prognostically relevant subtypes of glioblastoma.

BMC bioinformatics Oct 3, 2017
BACKGROUND: One approach to improving the personalized treatment of cancer is to understand the cellular signaling transduction pathways that cause cancer at the level of the individual patient. In this study, we used unsupervised deep learning to le...
Humans Gene Expression Profiling Algorithms Machine Learning Gene Expression Regulation, Neoplastic Prognosis Cluster Analysis Brain Neoplasms Glioblastoma
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A support vector machine classifier for the prediction of osteosarcoma metastasis with high accuracy.

International journal of molecular medicine Sep 7, 2017
In this study, gene expression profiles of osteosarcoma (OS) were analyzed to identify critical genes associated with metastasis. Five gene expression datasets were screened and downloaded from Gene Expression Omnibus (GEO). Following assessment by M...
Humans Bone Neoplasms Neoplasm Staging Neoplasm Metastasis Protein Interaction Mapping Gene Expression Regulation, Neoplastic Signal Transduction Support Vector Machine Reproducibility of Results Osteosarcoma Gene Expression Profiling Protein Interaction Maps
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Gene Ontology-Based Analysis of Zebrafish Omics Data Using the Web Tool Comparative Gene Ontology.

Zebrafish Sep 5, 2017
Gene Ontology (GO) analysis is a powerful tool in systems biology, which uses a defined nomenclature to annotate genes/proteins within three categories: "Molecular Function," "Biological Process," and "Cellular Component." GO analysis can assist in r...
Zebrafish Gene Ontology Genomics Proteomics Internet Animals Software Gene Expression Profiling
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Finding disagreement pathway signatures and constructing an ensemble model for cancer classification.

Scientific reports Aug 30, 2017
Cancer classification based on molecular level is a relatively routine research procedure with advances in high-throughput molecular profiling techniques. However, the number of genes typically far exceeds the number of the sample size in gene expres...
Gene Regulatory Networks Gene Expression Regulation, Neoplastic Signal Transduction Support Vector Machine Neoplasms Antineoplastic Agents Gene Expression Profiling Taxoids Atlases as Topic Anthracyclines Neoplasm Proteins Datasets as Topic Oligonucleotide Array Sequence Analysis Humans
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Employing decomposable partially observable Markov decision processes to control gene regulatory networks.

Artificial intelligence in medicine Jul 18, 2017
OBJECTIVE: Formulate the induction and control of gene regulatory networks (GRNs) from gene expression data using Partially Observable Markov Decision Processes (POMDPs).
Humans Artificial Intelligence Melanoma Transcriptome Gene Regulatory Networks Skin Neoplasms Gene Expression Profiling Markov Chains Computational Biology Gene Expression Regulation, Neoplastic Databases, Genetic
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Combining Supervised and Unsupervised Learning for Improved miRNA Target Prediction.

IEEE/ACM transactions on computational biology and bioinformatics Jul 13, 2017
MicroRNAs (miRNAs) are short non-coding RNAs which bind to mRNAs and regulate their expression. MiRNAs have been found to be associated with initiation and progression of many complex diseases. Investigating miRNAs and their targets can thus help dev...
Computational Biology RNA, Messenger Sequence Analysis, RNA Gene Expression Profiling Transcriptome Support Vector Machine Unsupervised Machine Learning Gene Regulatory Networks MicroRNAs Supervised Machine Learning
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Unsupervised Extraction of Stable Expression Signatures from Public Compendia with an Ensemble of Neural Networks.

Cell systems Jul 12, 2017
Cross-experiment comparisons in public data compendia are challenged by unmatched conditions and technical noise. The ADAGE method, which performs unsupervised integration with denoising autoencoder neural networks, can identify biological patterns, ...
Pseudomonas aeruginosa Information Storage and Retrieval Gene Expression Regulation Starvation Systems Integration Public Sector Transcriptome Health Knowledge, Attitudes, Practice Bacterial Proteins Humans Neural Networks, Computer Gene Expression Profiling
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Defining and characterizing the critical transition state prior to the type 2 diabetes disease.

PloS one Jul 7, 2017
BACKGROUND: Type 2 diabetes mellitus (T2DM), with increased risk of serious long-term complications, currently represents 8.3% of the adult population. We hypothesized that a critical transition state prior to the new onset T2DM can be revealed throu...
Diabetes Mellitus, Type 2 Adult Humans Maine Electronic Health Records Insulin Resistance Markov Chains Health Information Exchange Datasets as Topic Female Support Vector Machine Male Gene Expression Profiling Gene Expression Regulation Prediabetic State
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A Type-2 fuzzy data fusion approach for building reliable weighted protein interaction networks with application in protein complex detection.

Computers in biology and medicine Jun 23, 2017
Detecting the protein complexes is an important task in analyzing the protein interaction networks. Although many algorithms predict protein complexes in different ways, surveys on the interaction networks indicate that about 50% of detected interact...
Gene Expression Profiling Protein Interaction Maps Computational Biology Multiprotein Complexes Fuzzy Logic Algorithms Databases, Protein Semantics Protein Interaction Mapping
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Integrated gene expression profiling and chromatin immunoprecipitation followed by sequencing: Analysis of the C-terminal binding protein in breast cancer.

The journal of obstetrics and gynaecology research Jun 14, 2017
AIM: This study explored the possible mechanisms of the transcriptional regulatory activities of C-terminal binding protein (CtBP) and the role of CtBP in the pathogenesis of breast cancer.
DNA-Binding Proteins Alcohol Oxidoreductases Gene Ontology Gene Expression Profiling Humans Gene Expression Regulation, Neoplastic Female MCF-7 Cells Breast Neoplasms
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