DNA Microarrays and Gene Expression : From Experiments to Data Analysis and Modeling
Dual analysis of DNA microarrays
... categorical data view, the dy- namic PCA plot and the deviation ...the expression values. In order to achieve the parallel and linked analysis of genes and samples, all the views are capable of ...
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Complete gene expression profiling of Saccharopolyspora erythraea using GeneChip DNA microarrays
... of analysis of the entire ...derived from genome sequencing allowed the design of a microar- ray to investigate almost all ...analyzed gene expression along the time course, determining ...
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Independent component analysis of Alzheimer's DNA microarray gene expression data
... The gene expression data provided by microarray technol- ogy is considered a linear combination of some independ- ent components having specific biological ...the expression levels of the m ...
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Incorporation of gene-specific variability improves expression analysis using high-density DNA microarrays
... sets from the gene population in the U95A set in which there was an agreement (26 sets) or disagreement (26 sets) between Affymetrix Fold Change and T-score results across different ...the expression ...
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Global regulators of gene expression in Mycobacterium tuberculosis: Functional analysis using DNA microarrays
... antibody formation that requires CD4^ helper T cells; cell-mediated immune responses requiring CD4^ and/or CD8^ T cells; delayed-type hypersensitivity responses, and killing of virus-infected or malignant cells. Figures ...
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Comparative environmental genomics in non model species: using heterologous hybridization to DNA based microarrays
... generated from either human oligonucleotide sequences (Affymetric U95A arrays) or longer cDNAs (~1000·bp) were used to characterize quantitative differences in gene expression among several primate ...
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Transcriptional programs activated by exposure of human prostate cancer cells to androgen
... extracted from the cells and analyzed using DNA ...mRNA from each sample of treated or control cells was reverse transcribed to produce Cy5-labeled cDNA, and this was compared to a common reference ...
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Towards gene network estimation with structure learning
... of DNA microarray technology such as cDNA (complementary DNA) microarrays and oligonucleotide ...of gene expression data that were successfully used in cancer research and drug ...
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Breast cancer subtypes, mouse models, and microarrays
... a gene expression signature related to RB1 LOH, a 2-class Significance Analysis of Microarrays (SAM) was ...similar analysis was performed using RB immunostaining data (0 vs ...
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Multicriteria Gene Screening for Analysis of Differential Expression with DNA Microarrays
... discovered DNA more than fifty years ago, the field of genomics has progressed from a spec- ulative science to one of the most thriving areas of current research and development ...of DNA mi- ...
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Probe Design and Data Analysis for Gene Expression Microarrays
... Power analysis has shown in this case that there is not much power to detect differentially expressed genes for most of the genes due to insufficient sample and array ...For gene expression ...
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Putative psychosis genes in the prefrontal cortex: combined analysis of gene expression microarrays
... Gene expression microarray technology has become a powerful tool for discovery, although this technology had some limitations such as high cost of experiments, limited sample size, and lack of ...
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Bayesian model-based methods for the analysis of DNA microarrays with survival, genetic, and sequence data
... of microarrays is often not modeled directly by methods that link gene expression and ...because microarrays have significant amounts of assay noise (Yang et ...The analysis of noise in ...
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Purification and Characterization of a Cellular Protein That Binds to the Downstream Activation Sequence of the Strict Late UL38 Promoter of Herpes Simplex Virus Type 1
... viral DNA replication are all factors to be con- sidered in understanding the basis for the differential temporal expression of different kinetic classes of viral ...
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Clinically relevant genes and regulatory pathways associated with NRAS Q61 mutations in melanoma through an integrative genomics approach
... mutations, DNA methylation, gene expression, and miRNA expression to investigate the influence of driver ...genomic data (methylation, mRNA expression, and miRNA ...
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The beta-3 adrenergic agonist (CL-316,243) restores the expression of down-regulated fatty acid oxidation genes in type 2 diabetic mice
... SLC27A1 expression in adipocytes, with an early repression, followed by a stimu- lation during differentiation and a subsequent repression in mature adipocytes ...lower expression in the pre-diabetic MKR ...
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Identification of ‘stress and Ca++ metabolism related gene expression’ in wild Peromyscus exposed to environmental lead using combinatorial data from Mus cDNA microarrays and blood metabolites
... in expression be- tween laboratory exposed mice and field deer mice was probably because field mice were exposed to multiple stressors, both contaminants and environ- mental conditions, whereas laboratory mice ...
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From pattern to gene, from gene to pattern
... pair-rule gene mutants in Drosophila was wholly unexpected because it revealed that the establishment of the overt segmental periodicity of the larva proceeded through an intermediate, morphologically invis- ible, ...
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Global histone modification profiling reveals the epigenomic dynamics during malignant transformation in a four-stage breast cancer model
... statistical analysis showed that KDM3A significantly increases in breast cancer tissues compared with normal tissues ...array from the same batch was stained with ...these data show that histone H3K9 ...
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Histone modification signature at myeloperoxidase and proteinase 3 in patients with anti-neutrophil cytoplasmic autoantibody-associated vasculitis
... PR3 expression among neutrophils We report the level of specific histone modifications at autoantigen genes in samples of total circulating neutro- phils; however, several reports have documented a subset of ...
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