Statistical method in gene expression
A new statistical method for curve group analysis of longitudinal gene expression data illustrated for breast cancer in the NOWAC postgenome cohort as a proof of principle
... statistical power that was achieved even in strata with a low number of cases, such as the six cases with spread in two strata. We stratified the data based on the detec- tion category and lymph node status. The ...
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An assessment of recently published gene expression data analyses: reporting experimental design and statistical factors
... other statistical significance tests that may relax the assumption of homo- geneity of ...differential expression patterns, ...for gene expression data. Furthermore, our results indicate that ...
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TRIzol-based RNA Extraction: A Reliable Method for Gene Expression Studies
... Declaration and informed consent was obtained from all volunteers. PBMC isolation was performed using Ficoll-Paque solution (Sigma, St. Louis, MO, USA) and pooled for every 10 samples. Many aliquots were prepared for ...
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A temporal precedence based clustering method for gene expression microarray data
... the Gene Ontology (GO) database ...the gene ontology (GO) inter- face provided at the Arabidopsis repository at TAIR ...a gene performing the mentioned biological ...another gene annotation ...
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How many replicates of arrays are required to detect gene expression changes in microarray experiments? A mixture model approach
... a method for calculating the number of replicates in microarray ...This method is designed for the situation where the mixture approach is going to be taken to analyze the ...any method for sample ...
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Statistical corrections of linkage data suggest predominantly cis regulations of gene expression
... We have addressed two issues relevant to linkage analysis of multiple traits. First, in data from family constellations larger than one sibling pair, the dependence of IBD shar- ing for different pairs of individuals ...
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Biclustering of Gene Expression Data using a Two Phase Method
... accompanying statistical model [7] or a heuristic scoring method [8] that defines which of the many possible sub matrices represents a significant biological ...Usually, gene expression data ...
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Statistical analysis of human tuberculosis microarray gene expression data in the bioconductor R package
... new method for detection of thousands of DNA or RNA at one ...the expression levels of large numbers of genes or the whole genome of an organism, or to identify differential expressed genes or to determine ...
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Statistical Methods for Gene Differential Expression Analysis of RNA-Sequencing
... marker gene abundances obtained by summing all the constituent ...differential expression tests between these three clusters using multiple logistic regression on TCCs and the likelihood ratio test (see ...
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Statistical Framework for Phylogenomic Analysis of Gene Family Expression Profiles
... independent expression of evolution between ...of expression diversity after gene duplications, including gradual drift and dramatic shift (punctuated ...a gene family is given, we show that ...
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A variance component method for integrated pathway analysis of gene expression data
... For the 5 similarity methods showing the largest number of associations in the positive control pathways across the 200 replicates, similarity matrices were calculated for 723 pathways taken from Pathway Studio 8.0 ...
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Distinct functional enrichment of transcriptional signatures in pigs with high and low IFN-gamma responses after vaccination with a porcine reproductive and respiratory syndrome virus (PRRSV)
... over- expression of this molecule has been recently identified in minimally PRRSV-permissive cells or tissues, and this molecule is able to inhibit PRRSV replication by both mechanisms: binding to a conserved ...
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ANMM4CBR: a case-based reasoning method for gene expression data classification
... ANMM4CBR method the num- ber of iterations is equal to the number of selected fea- ...OVA method to make the final prediction, which needs to solve k (class number) binary ...
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PubMedCentral-PMC5636014.pdf
... Gene expression and epigenetic features are being routinely assessed by high-throughput sequencing solutions, and the results are quantified by the number of sequenced reads within certain genomic ...a ...
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Evolutionary conservation of otd/Otx2 transcription factor action: a genome wide microarray analysis in Drosophila
... target gene regulatory ...the expression of a small number of transcrip- tion factors that are not affected by OTD and which then regu- late the expression of their own subset of downstream ...
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Analysis of embryonic motoneuron gene regulation: derepression of general activators function in concert with enhancer factors
... selective expression of the Hb9 homeodomain protein in these neurons (Pfaff et ...Human Gene Nomenclature Database) result in sacral agenesis due to haploinsufficiency (Ross et ...its expression in ...
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A method to estimate the efficiency of gene expression from an integrated retroviral vector
... To transfect cells by the calcium BBS method, Cos-1 cells were plated onto 10 cm dishes. The media was aspirated and replaced. Two to four hours later, the DNA mix was prepared. 737 µl of 2×BBS (50 mM N, ...
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GENE EXPRESSION DATA ANALYSIS USING DATA MINING ALGORITHMS FOR COLON CANCER
... prediction, gene classification, cancer classification based on microarray data, clustering of gene expression data, statistical model of protein-protein interaction ...over gene ...
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Comparative Transcriptomics of Infectious Spores from the Fungal Pathogen Histoplasma capsulatum Reveals a Core Set of Transcripts That Specify Infectious and Pathogenic States
... of expression by comparing the transcriptomes of conidia, yeast, and mycelia from two divergent ...the gene predictions from each genome, as shown in Table S1 (G217B) and Table S2 (G186AR) in the ...
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HSET overexpression fuels tumor progression via centrosome clustering-independent mechanisms in breast cancer patients
... HSET expression exhibits a strong correlation with clinical development and progression of cancer, we next asked if high HSET levels had any impact on the kinetics of cancer cell proliferation in ...Ki67 ...
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