[PDF] Top 20 Identifying differentially expressed genes from cross-site integrated data based on relative expression orderings
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Identifying differentially expressed genes from cross-site integrated data based on relative expression orderings
... Differing from traditional meta-analysis and batch effect adjustment algorithms, we provided a new perspective for differential expression analysis of merged ...method, based on the REOs of gene ... See full document
9
Statistical methods for identifying differentially expressed genes in RNA-Seq experiments
... RNA-Seq data analysis, based upon the argu- ment that the over-dispersion is most likely caused by within group variation in expression if the experiment includes independent biological replicates ... See full document
8
Ranking differentially expressed genes from Affymetrix gene expression data: methods with reproducibility, sensitivity, and specificity
... ing based on the w statistic is much more reproducible than the one based on the AD ...is relative average signal intensity on log-scale so that highly expressed genes are highly ranked ... See full document
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Cis-transcriptional Variation in Maize Inbred Lines B73 and Mo17 Leads to Additive Expression Patterns in the F1 Hybrid
... signal data from the microarrays were processed using two different methods, ...2004). Differentially expressed genes were identified by performing a one-way ANOVA on the GC-RMA or ... See full document
12
Data Mining in Networks of Differentially Expressed Genes during Sow Pregnancy
... three genes were designed using Pri- mer Premier 5 software (Supplementary Material: Table ...pools from six pig breeds (Large White, Beijing Black, Bamei, Rongchang, Laiwu and Min) were sequenced to ... See full document
13
Human newborn bacille Calmette–Guérin vaccination and risk of tuberculosis disease: a case-control study
... We further showed that case infants with higher monocyte to T cell ratios have a transcriptional profile associated with an alternatively activated macrophage phenotype (M2), modestly confirmed by soluble marker ... See full document
13
Microarray data analysis: a practical approach for selecting differentially expressed genes
... microarray data is a new scientific field that has enabled researchers to establish novel and innovative methods for analyzing the ...changed genes. Scientists are moving away from the arbitrary fold ... See full document
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A comparison of gene expression profiles in patients with coronary artery disease, type 2 diabetes, and their coexisting conditions
... mRNA expression in ischae- mic myocardium, and inhibited the defective response of HIF-1 α to ischaemia [51, 52], explaining a positive association between hyperglycaemia at the time of the event and subsequent ... See full document
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A weighted average difference method for detecting differentially expressed genes from microarray data
... of identifying new genes that might have been missed in a previous ...ranked genes or different gene ranking methods used in the original ...FC- based methods. Likewise, the ... See full document
12
Identification of Differentially Expressed Genes in Papillary Thyroid Cancers
... additional tail sequences of longer primers are involved in nonspecific annealing to the cDNA template during PCR cycles at low annealing temperatures. 8 Genefishing technique TM using the ACP system, has recently been ... See full document
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Partial least squares based gene expression analysis in renal failure
... identified differentially expressed genes (Figure ...p65 based on immunohistochemi- cal staining and ELISA suggested that NF-kappaB p65 in rat glomeruli of multiple organ failure was ... See full document
6
Nickel-induced transcriptional changes persist post exposure through epigenetic reprogramming
... tially expressed genes based on the timing of expression changes: (i) the genes that were differentially expressed during nickel exposure (persistently upregulated-A [PU- ... See full document
15
Transcriptome profiling of Camelina sativa to identify genes involved in triacylglycerol biosynthesis and accumulation in the developing seeds
... (WRl1) genes showed seed-specific expression patterns with a relative maximum expression ratio (seed-to-flower ratio) up to ~38-fold and 150-fold in the case of LPAT3 and PDCT, ... See full document
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Identification of aberrantly methylated differentially expressed genes in prostate carcinoma using integrated bioinformatics
... upregulated genes were identified that were enriched in biological processes such as negative regulation of transcription, osteoblast differentiation, intracellular signal transduction, and the Wnt signalling ... See full document
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Transcription networks responsible for early regulation of Salmonella-induced inflammation in the jejunum of pigs
... the genes/proteins in question in cultured cells (thus, in the absence of Salmonella) in earlier studies (studies linked to data in the Comparative Toxicogenomics Database: see ...mRNA expression by ... See full document
15
Identification of genomic expression differences between right-sided and left-sided colon cancer based on bioinformatics analysis
... several genes play a vital role in the occurrence and development of RCC and LCC, respectively, and are involved in some important ...altered genes in ... See full document
10
Identifying evolutionarily conserved genes in the dietary restriction response using bioinformatics and subsequent testing in Caenorhabditis elegans
... identified genes into functional gene clusters. The 25 down-regulated genes assemble into five clusters (Table ...contains genes involved in proteolysis and lysosomal ...encompasses genes ... See full document
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Identification of differentially expressed genes and signaling pathways in ovarian cancer by integrated bioinformatics analysis
... The expression profiles of GDS3592, GSE54388, and GSE66957 were downloaded from the Gene Expression Omnibus (GEO) database, which contained 115 samples, including 85 cases of ovarian cancer samples ... See full document
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Whole transcriptome, high throughput RNA sequence analysis of the bovine macrophage response to Mycobacterium bovis infection in vitro
... coverage from these uniquely mapping reads demonstrated that 15,422 genes (based only on sense strand data) from a total of 25,669 annotated bovine genes ...gene ... See full document
19
Comparison of regional gene expression differences in the brains of the domestic dog and human
... differential expression involving at least 114 genes between all three species in the amygdala and frontal lobe or between dogs and wild canids in the ...these genes were retested by quantitative ... See full document
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