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Publication DateIEEE Transactions on Evolutionary Computation, ISSN 1089-778X, 02/2016, Volume 20, Issue 1, pp. 65 - 80
In this paper, a novel self-learning gene expression programming (GEP) methodology named SL-GEP is proposed to improve the search accuracy and efficiency of...
Accuracy | Even Parity Problem | Input variables | Sociology | Symbolic Regression Problem | Programming | Evolutionary Computation | Gene Expression Programming | Gene expression | Genetic Programming | Statistics | Biological cells | evolutionary computation | genetic programming (GP) | MEMETIC COMPUTATION | Even-parity problem | CLASSIFICATION | gene expression programming (GEP) | OPTIMIZATION | COMPUTER SCIENCE, THEORY & METHODS | DIFFERENTIAL EVOLUTION | COMPUTER SCIENCE, ARTIFICIAL INTELLIGENCE | symbolic regression problem | Efficiency | Chromosomes | Algorithms | Searching | Evolution | Mathematical models
Accuracy | Even Parity Problem | Input variables | Sociology | Symbolic Regression Problem | Programming | Evolutionary Computation | Gene Expression Programming | Gene expression | Genetic Programming | Statistics | Biological cells | evolutionary computation | genetic programming (GP) | MEMETIC COMPUTATION | Even-parity problem | CLASSIFICATION | gene expression programming (GEP) | OPTIMIZATION | COMPUTER SCIENCE, THEORY & METHODS | DIFFERENTIAL EVOLUTION | COMPUTER SCIENCE, ARTIFICIAL INTELLIGENCE | symbolic regression problem | Efficiency | Chromosomes | Algorithms | Searching | Evolution | Mathematical models
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Loading RightsGenome Biology, ISSN 1474-7596, 02/2018, Volume 19, Issue 1, pp. 15 - 5
SCANPY is a scalable toolkit for analyzing single-cell gene expression data. It includes methods for preprocessing, visualization, clustering, pseudotime and...
Single-cell transcriptomics | Visualization | Graph analysis | Scalability | Machine learning | Differential expression testing | Clustering | Trajectory inference | Bioinformatics | Pseudotemporal ordering | RECONSTRUCTION | TRAJECTORIES | DIFFUSION MAPS | HETEROGENEITY | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | GENETICS & HEREDITY | RNA-SEQUENCING DATA | Gene Expression Profiling - methods | Software | Gene Regulatory Networks | Single-Cell Analysis | Datasets | Annotations | Genomics | Dimensional analysis | Data processing | Principal components analysis | Gene expression | Graph representations
Single-cell transcriptomics | Visualization | Graph analysis | Scalability | Machine learning | Differential expression testing | Clustering | Trajectory inference | Bioinformatics | Pseudotemporal ordering | RECONSTRUCTION | TRAJECTORIES | DIFFUSION MAPS | HETEROGENEITY | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | GENETICS & HEREDITY | RNA-SEQUENCING DATA | Gene Expression Profiling - methods | Software | Gene Regulatory Networks | Single-Cell Analysis | Datasets | Annotations | Genomics | Dimensional analysis | Data processing | Principal components analysis | Gene expression | Graph representations
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Loading Rights2001, Principles and practice., ISBN 3540415076, ix, 140
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Gastroenterology, ISSN 0016-5085, 2013, Volume 145, Issue 6, pp. 1289 - 1299
Background & Aims Gene expression profiling provides an opportunity for definitive diagnosis but has not yet been well applied to inflammatory diseases. Here...
Gastroenterology and Hepatology | GERD | Nonerosive Reflux Disease | Signature | EoE Transcriptome | EoE | Diagnostic Panel | Fluidic Card | Eosinophil | POPULATION | ADULTS | IL-13 | IDENTIFICATION | CHILDREN | GASTROENTEROLOGY & HEPATOLOGY | CONSENSUS RECOMMENDATIONS | Diagnosis, Differential | Prognosis | Age Factors | Eosinophilic Esophagitis - diagnosis | Humans | Eosinophilic Esophagitis - pathology | Esophagitis, Peptic - diagnosis | Gene Expression Profiling - methods | Transcriptome - genetics | Case-Control Studies | Esophagus - pathology | Esophagitis, Peptic - pathology | Biopsy | Sensitivity and Specificity | Esophagitis, Peptic - genetics | Pathology, Molecular - methods | Adult | Child | Eosinophilic Esophagitis - genetics | Cluster Analysis | Esophagitis | Medical colleges | Diagnosis | Gene expression | signature | fluidic card | transcriptome | EoE transcriptome | genomics | diagnostic panel | eosinophil | NERD | esophagus
Gastroenterology and Hepatology | GERD | Nonerosive Reflux Disease | Signature | EoE Transcriptome | EoE | Diagnostic Panel | Fluidic Card | Eosinophil | POPULATION | ADULTS | IL-13 | IDENTIFICATION | CHILDREN | GASTROENTEROLOGY & HEPATOLOGY | CONSENSUS RECOMMENDATIONS | Diagnosis, Differential | Prognosis | Age Factors | Eosinophilic Esophagitis - diagnosis | Humans | Eosinophilic Esophagitis - pathology | Esophagitis, Peptic - diagnosis | Gene Expression Profiling - methods | Transcriptome - genetics | Case-Control Studies | Esophagus - pathology | Esophagitis, Peptic - pathology | Biopsy | Sensitivity and Specificity | Esophagitis, Peptic - genetics | Pathology, Molecular - methods | Adult | Child | Eosinophilic Esophagitis - genetics | Cluster Analysis | Esophagitis | Medical colleges | Diagnosis | Gene expression | signature | fluidic card | transcriptome | EoE transcriptome | genomics | diagnostic panel | eosinophil | NERD | esophagus
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Loading RightsAnnual Review of Genetics, ISSN 0066-4197, 12/2009, Volume 43, Issue 1, pp. 265 - 285
Plant hormones control most aspects of the plant life cycle by regulating genome expression. Expression of auxin-responsive genes involves interactions among...
SCFTIR1 | ARF | Evolution of auxin signaling | Hormone response element | VASCULAR DEVELOPMENT | AFF | OF-FUNCTION MUTATION | ARABIDOPSIS HYPOCOTYL ELONGATION | ACID-INDUCIBLE GENE | TRANSCRIPTIONAL REPRESSION | MOSS PHYSCOMITRELLA-PATENS | NEGATIVE REGULATOR | hormone response element | LATERAL ROOT INITIATION | GENETICS & HEREDITY | AUX/IAA PROTEIN FAMILY | evolution of auxin signaling | DIFFERENTIAL GROWTH-RESPONSES | Plants - metabolism | Enhancer Elements, Genetic | Indoleacetic Acids - metabolism | Plants - genetics | Gene Expression Regulation, Plant | Ubiquitin-Protein Ligases - metabolism | Transcription, Genetic | Auxin | Analysis | Evolution | Research | Genetic transcription | Plants | Gene expression | Ubiquitin-proteasome system | Transcription factors | Genomics | Plant genetics | Physiological aspects | Genetic aspects | Health aspects | Flowers & plants | Hormones | Proteases | Genes | Deoxyribonucleic acid--DNA
SCFTIR1 | ARF | Evolution of auxin signaling | Hormone response element | VASCULAR DEVELOPMENT | AFF | OF-FUNCTION MUTATION | ARABIDOPSIS HYPOCOTYL ELONGATION | ACID-INDUCIBLE GENE | TRANSCRIPTIONAL REPRESSION | MOSS PHYSCOMITRELLA-PATENS | NEGATIVE REGULATOR | hormone response element | LATERAL ROOT INITIATION | GENETICS & HEREDITY | AUX/IAA PROTEIN FAMILY | evolution of auxin signaling | DIFFERENTIAL GROWTH-RESPONSES | Plants - metabolism | Enhancer Elements, Genetic | Indoleacetic Acids - metabolism | Plants - genetics | Gene Expression Regulation, Plant | Ubiquitin-Protein Ligases - metabolism | Transcription, Genetic | Auxin | Analysis | Evolution | Research | Genetic transcription | Plants | Gene expression | Ubiquitin-proteasome system | Transcription factors | Genomics | Plant genetics | Physiological aspects | Genetic aspects | Health aspects | Flowers & plants | Hormones | Proteases | Genes | Deoxyribonucleic acid--DNA
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Loading RightsThe Journal of Clinical Endocrinology & Metabolism, ISSN 0021-972X, 01/2014, Volume 99, Issue 1, pp. 119 - 125
Background: Increasingly, patients with thyroid nodule cytology labeled atypical (or follicular lesion) of undetermined significance (AUS/FLUS) or follicular...
SYSTEM | DIAGNOSIS | IMPACT | MANAGEMENT | ENDOCRINOLOGY & METABOLISM | CYTOPATHOLOGY | PATIENT | CYTOLOGY | THYROID-NODULES | INTEROBSERVER | REPRODUCIBILITY | Thyroid Nodule - genetics | Diagnosis, Differential | Diagnostic Techniques, Endocrine | Humans | Middle Aged | Gene Expression Regulation, Neoplastic | Thyroid Nodule - diagnosis | Gene Expression Profiling - methods | Male | Biopsy, Fine-Needle | Female | Retrospective Studies | Transcriptome - physiology
SYSTEM | DIAGNOSIS | IMPACT | MANAGEMENT | ENDOCRINOLOGY & METABOLISM | CYTOPATHOLOGY | PATIENT | CYTOLOGY | THYROID-NODULES | INTEROBSERVER | REPRODUCIBILITY | Thyroid Nodule - genetics | Diagnosis, Differential | Diagnostic Techniques, Endocrine | Humans | Middle Aged | Gene Expression Regulation, Neoplastic | Thyroid Nodule - diagnosis | Gene Expression Profiling - methods | Male | Biopsy, Fine-Needle | Female | Retrospective Studies | Transcriptome - physiology
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Loading Rights2008, Evidence report/technology assessment, Volume no. 08-E 002.
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Loading RightsPROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, ISSN 0027-8424, 03/2019, Volume 116, Issue 13, pp. 6491 - 6500
Differential expression (DE) is commonly used to explore molecular mechanisms of biological conditions. While many studies report significant results between...
metaanalysis | CLASSIFIER | DNA METHYLATION | MICROARRAY | TRANSCRIPT SIGNATURE | CELL-MEDIATED REJECTION | MULTIDISCIPLINARY SCIENCES | differential expression | CANCER | replicability | MESSENGER-RNA | HUMAN HOUSEKEEPING GENES | transcriptomics | specificity | LUNG ADENOCARCINOMA | Human Genetics | Recurrence | Genomics | Humans | Gene Expression Regulation | Transcriptome | Probability | Electronic Data Processing | Gene Expression Profiling | Kidney Transplantation | Gene Regulatory Networks | Genes, Essential | Lung Neoplasms | Breast Neoplasms - genetics | Sensitivity and Specificity | Female | Graft Rejection | ROC Curve | Adenocarcinoma - genetics | Biomarkers, Tumor - genetics | Adenocarcinoma | Syngeneic grafts | Lung transplantation | Pancreatic islet transplantation | Data processing | Breast cancer | Mutation rates | Conditional probability | Gene expression | Empirical analysis | Data interpretation | Graft rejection | Artifacts | Molecular modelling | Allografts | Pancreas transplantation | Signal processing | Islet cells | Extracellular matrix | Mutation | Cancer | Immune system | Kidney transplantation | Biological Sciences | PNAS Plus
metaanalysis | CLASSIFIER | DNA METHYLATION | MICROARRAY | TRANSCRIPT SIGNATURE | CELL-MEDIATED REJECTION | MULTIDISCIPLINARY SCIENCES | differential expression | CANCER | replicability | MESSENGER-RNA | HUMAN HOUSEKEEPING GENES | transcriptomics | specificity | LUNG ADENOCARCINOMA | Human Genetics | Recurrence | Genomics | Humans | Gene Expression Regulation | Transcriptome | Probability | Electronic Data Processing | Gene Expression Profiling | Kidney Transplantation | Gene Regulatory Networks | Genes, Essential | Lung Neoplasms | Breast Neoplasms - genetics | Sensitivity and Specificity | Female | Graft Rejection | ROC Curve | Adenocarcinoma - genetics | Biomarkers, Tumor - genetics | Adenocarcinoma | Syngeneic grafts | Lung transplantation | Pancreatic islet transplantation | Data processing | Breast cancer | Mutation rates | Conditional probability | Gene expression | Empirical analysis | Data interpretation | Graft rejection | Artifacts | Molecular modelling | Allografts | Pancreas transplantation | Signal processing | Islet cells | Extracellular matrix | Mutation | Cancer | Immune system | Kidney transplantation | Biological Sciences | PNAS Plus
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Loading RightsCerebral Cortex, ISSN 1047-3211, 06/2012, Volume 22, Issue 6, pp. 1343 - 1359
The subplate layer of the cerebral cortex is comprised of a heterogeneous population of cells and contains some of the earliest-generated neurons. In the...
cerebral cortex | laser capture microdissection | embryonic development | gene expression | subplate | DORSOLATERAL PREFRONTAL CORTEX | DIFFERENTIAL EXPRESSION | WHITE-MATTER | OPIOID GROWTH-FACTOR | CORTICAL DEVELOPMENT | NEUROSCIENCES | CEREBRAL-CORTEX | DEVELOPMENTAL HISTORY | SOMATOSENSORY CORTEX | CENTRAL-NERVOUS-SYSTEM | RAT-BRAIN | Animals, Newborn | Animals | Cerebral Cortex - embryology | Gene Expression Regulation, Developmental | Mice, Inbred C57BL | Mice | Cerebral Cortex - metabolism | Mice, Neurologic Mutants | Gene Knock-In Techniques | Subplate
cerebral cortex | laser capture microdissection | embryonic development | gene expression | subplate | DORSOLATERAL PREFRONTAL CORTEX | DIFFERENTIAL EXPRESSION | WHITE-MATTER | OPIOID GROWTH-FACTOR | CORTICAL DEVELOPMENT | NEUROSCIENCES | CEREBRAL-CORTEX | DEVELOPMENTAL HISTORY | SOMATOSENSORY CORTEX | CENTRAL-NERVOUS-SYSTEM | RAT-BRAIN | Animals, Newborn | Animals | Cerebral Cortex - embryology | Gene Expression Regulation, Developmental | Mice, Inbred C57BL | Mice | Cerebral Cortex - metabolism | Mice, Neurologic Mutants | Gene Knock-In Techniques | Subplate
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Loading RightsInternational Journal for Parasitology, ISSN 0020-7519, 08/2007, Volume 37, Issue 10, pp. 1077 - 1086
The completion of the genomic sequences of many protozoan pathogens of humans, including species of , and , provide new approaches to study the pattern of gene...
Quantitative proteomic expression analysis | Comparative genomics | DNA genome microarrays | Differential gene expression | Leishmania | STAGE-SPECIFIC EXPRESSION | quantitative proteomic expression analysis | MAJOR CHROMOSOME-3 | QUANTITATIVE-ANALYSIS | AXENIC AMASTIGOTES | MEXICANA | comparative genomics | MASS-SPECTROMETRY | GENOME | DNA MICROARRAYS | differential gene expression | DEVELOPMENTALLY-REGULATED PROTEINS | LIFE STAGES | PARASITOLOGY | Animals | Protozoan Proteins - metabolism | Genome, Protozoan | Leishmania - metabolism | Gene Expression Profiling | Protozoan Proteins - genetics | Leishmania - genetics | Genetic research | DNA microarrays | Gene expression | Analysis
Quantitative proteomic expression analysis | Comparative genomics | DNA genome microarrays | Differential gene expression | Leishmania | STAGE-SPECIFIC EXPRESSION | quantitative proteomic expression analysis | MAJOR CHROMOSOME-3 | QUANTITATIVE-ANALYSIS | AXENIC AMASTIGOTES | MEXICANA | comparative genomics | MASS-SPECTROMETRY | GENOME | DNA MICROARRAYS | differential gene expression | DEVELOPMENTALLY-REGULATED PROTEINS | LIFE STAGES | PARASITOLOGY | Animals | Protozoan Proteins - metabolism | Genome, Protozoan | Leishmania - metabolism | Gene Expression Profiling | Protozoan Proteins - genetics | Leishmania - genetics | Genetic research | DNA microarrays | Gene expression | Analysis
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Loading RightsAmerican Journal of Respiratory and Critical Care Medicine, ISSN 1073-449X, 01/2006, Volume 173, Issue 2, pp. 188 - 198
Rationale: Many of the interstitial lung diseases represent a diagnostic and therapeutic challenge because their clinical and even histologic features are...
Global transcription analysis | Interstitial lung diseases | Microarrays | Nonspecific interstitial pneumonia | Lung fibrosis | LUNG | CELLS | PIGEON-BREEDERS DISEASE | COLLAGEN | lung fibrosis | nonspecific interstitial pneumonia | interstitial lung diseases | BINDING-PROTEINS | microarrays | USUAL INTERSTITIAL PNEUMONIA | GROWTH FACTOR-I | INSULIN | RESPIRATORY SYSTEM | PROGNOSTIC-SIGNIFICANCE | HISTOLOGIC PATTERN | global transcription analysis | CRITICAL CARE MEDICINE | Pulmonary Fibrosis - diagnosis | Biopsy - methods | T-Lymphocytes - physiology | Diagnosis, Differential | Alveolitis, Extrinsic Allergic - genetics | Gene Expression - genetics | Oligonucleotide Array Sequence Analysis - methods | Humans | Middle Aged | Gene Expression Profiling - methods | Male | Pulmonary Fibrosis - genetics | Alveolitis, Extrinsic Allergic - diagnosis | Gene Expression - physiology | Inflammation - genetics | Female | Lung - surgery | Immunity - genetics | C. Interstitial Lung Disease
Global transcription analysis | Interstitial lung diseases | Microarrays | Nonspecific interstitial pneumonia | Lung fibrosis | LUNG | CELLS | PIGEON-BREEDERS DISEASE | COLLAGEN | lung fibrosis | nonspecific interstitial pneumonia | interstitial lung diseases | BINDING-PROTEINS | microarrays | USUAL INTERSTITIAL PNEUMONIA | GROWTH FACTOR-I | INSULIN | RESPIRATORY SYSTEM | PROGNOSTIC-SIGNIFICANCE | HISTOLOGIC PATTERN | global transcription analysis | CRITICAL CARE MEDICINE | Pulmonary Fibrosis - diagnosis | Biopsy - methods | T-Lymphocytes - physiology | Diagnosis, Differential | Alveolitis, Extrinsic Allergic - genetics | Gene Expression - genetics | Oligonucleotide Array Sequence Analysis - methods | Humans | Middle Aged | Gene Expression Profiling - methods | Male | Pulmonary Fibrosis - genetics | Alveolitis, Extrinsic Allergic - diagnosis | Gene Expression - physiology | Inflammation - genetics | Female | Lung - surgery | Immunity - genetics | C. Interstitial Lung Disease
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Loading RightsBMC Bioinformatics, ISSN 1471-2105, 02/2016, Volume 17, Issue 1, p. 103
Background: High-throughput RNA-Sequencing (RNA-Seq) has become the preferred technique for studying gene expression differences between biological samples and...
Gene expression | RNA-Seq | Drosophila | Trimming | TRANSCRIPTOME | BIASES | BIOCHEMICAL RESEARCH METHODS | QUALITY ASSESSMENT | DIFFERENTIAL GENE | AMPLIFICATION | TOPHAT | MESSENGER-RNA | ALIGNMENT | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | COMPLEXITY | MATHEMATICAL & COMPUTATIONAL BIOLOGY | NEURONS | Animals | Gene Expression - genetics | Gene Expression Profiling - methods | Genome | High-Throughput Nucleotide Sequencing - methods | Drosophila melanogaster - genetics | RNA - genetics | RNA sequencing | RNA | Analysis | Genes | Genomics | Genetic research | Genomes
Gene expression | RNA-Seq | Drosophila | Trimming | TRANSCRIPTOME | BIASES | BIOCHEMICAL RESEARCH METHODS | QUALITY ASSESSMENT | DIFFERENTIAL GENE | AMPLIFICATION | TOPHAT | MESSENGER-RNA | ALIGNMENT | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | COMPLEXITY | MATHEMATICAL & COMPUTATIONAL BIOLOGY | NEURONS | Animals | Gene Expression - genetics | Gene Expression Profiling - methods | Genome | High-Throughput Nucleotide Sequencing - methods | Drosophila melanogaster - genetics | RNA - genetics | RNA sequencing | RNA | Analysis | Genes | Genomics | Genetic research | Genomes
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Loading RightsCritical Care Medicine, ISSN 0090-3493, 09/2016, Volume 45, Issue 1, pp. 1 - 10
OBJECTIVE:In response to a need for better sepsis diagnostics, several new gene expression classifiers have been recently published, including the 11-gene...
diagnosis | microarray | gene expression | sepsis | COMMUNITY-ACQUIRED PNEUMONIA | FAIM3PLAC8 RATIO | PANDEMIC INFLUENZA | BLOOD TRANSCRIPTOME | TIME | SIGNATURE | PEDIATRIC SEPTIC SHOCK | COMPREHENSIVE VALIDATION | MOLECULAR BIOMARKER | BACTERIAL-INFECTION | CRITICAL CARE MEDICINE | Diagnosis, Differential | Gene Expression | Datasets as Topic | Humans | Sensitivity and Specificity | Sepsis - diagnosis | Benchmarking | Systemic Inflammatory Response Syndrome - diagnosis | Case-Control Studies | Sepsis - genetics | Sepsis
diagnosis | microarray | gene expression | sepsis | COMMUNITY-ACQUIRED PNEUMONIA | FAIM3PLAC8 RATIO | PANDEMIC INFLUENZA | BLOOD TRANSCRIPTOME | TIME | SIGNATURE | PEDIATRIC SEPTIC SHOCK | COMPREHENSIVE VALIDATION | MOLECULAR BIOMARKER | BACTERIAL-INFECTION | CRITICAL CARE MEDICINE | Diagnosis, Differential | Gene Expression | Datasets as Topic | Humans | Sensitivity and Specificity | Sepsis - diagnosis | Benchmarking | Systemic Inflammatory Response Syndrome - diagnosis | Case-Control Studies | Sepsis - genetics | Sepsis
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Loading RightsHepatology, ISSN 0270-9139, 02/2014, Volume 59, Issue 2, pp. 471 - 482
Clinicians rely upon the severity of liver fibrosis to segregate patients with well‐compensated nonalcoholic fatty liver disease (NAFLD) into subpopulations at...
UNITED-STATES | FIBROSIS | HEPATOCELLULAR-CARCINOMA | OSTEOPONTIN | CIRRHOSIS | RISK | DUCTULAR REACTION | STEATOHEPATITIS | MICE | GASTROENTEROLOGY & HEPATOLOGY | ASSOCIATION | Fatty Liver - genetics | Severity of Illness Index | Diagnosis, Differential | Liver - pathology | Fatty Liver - metabolism | Prognosis | Tissue Array Analysis | Humans | Liver - metabolism | Middle Aged | Risk Factors | Transcriptome | Male | Asymptomatic Diseases | Liver Regeneration - genetics | Fatty Liver - diagnosis | Biopsy | Liver Cirrhosis - metabolism | Non-alcoholic Fatty Liver Disease | Liver Cirrhosis - pathology | Adult | Female | Liver Cirrhosis - genetics | Metabolism - genetics | Liver diseases | Gene expression | Liver cirrhosis | Mortality | Hepatology
UNITED-STATES | FIBROSIS | HEPATOCELLULAR-CARCINOMA | OSTEOPONTIN | CIRRHOSIS | RISK | DUCTULAR REACTION | STEATOHEPATITIS | MICE | GASTROENTEROLOGY & HEPATOLOGY | ASSOCIATION | Fatty Liver - genetics | Severity of Illness Index | Diagnosis, Differential | Liver - pathology | Fatty Liver - metabolism | Prognosis | Tissue Array Analysis | Humans | Liver - metabolism | Middle Aged | Risk Factors | Transcriptome | Male | Asymptomatic Diseases | Liver Regeneration - genetics | Fatty Liver - diagnosis | Biopsy | Liver Cirrhosis - metabolism | Non-alcoholic Fatty Liver Disease | Liver Cirrhosis - pathology | Adult | Female | Liver Cirrhosis - genetics | Metabolism - genetics | Liver diseases | Gene expression | Liver cirrhosis | Mortality | Hepatology
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