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Table 4. Gene products identified in over-represented entities by the Functions and Pathways class analysis of the D-cluster and trends in their expression revealed by post hoc analysis of gene expression data

in
by unknown authors
"... In PAGE 7: ... The concentration 75 mM (Group-75) mainly depresses the activation of these genes with time. From the identified cellu- lar processes, involved genes and trends in their expression ( Table4 ), we summarized the stress response induced by hydrazine in hepatocytes. (1) Induction of oxidative stress accompanied by dis- ruption of glutathione metabolism and peroxisome function: This effect is revealed by (i) up-regulation of heat shock proteins, which correlates with oxidative stress (Arrigo, 1998) and (ii) a down-regulation (espe- cially strong for the exposure concentration 75 mM) of most enzymes involved in glutathione metabolism and peroxisome function that may cause disruption of the cellular antioxidation defense in hepatocytes and oxidative damage of mitochondrial DNA (Rusyn et al.... ..."

Table 1. Cancer microarray gene expression data sets used in the experimental analysis

in BIOINFORMATICS ORIGINAL PAPER doi:10.1093/bioinformatics/btm312 Data and text mining
by Minca Mramor, Gregor Leban, Janez Dems ˇ Ar, Blaz ˇ Zupan
"... In PAGE 6: ..., 2001) and lung cancer (Bhattacharjee et al., 2001) ( Table1 ). The Supplementary Material includes additional information on these data sets, and the analysis of 18 other publicly available cancer gene expression data sets.... ..."

Table B.6 Measurements (MIAME distinguishes between three levels of data processing: image (raw data), image analysis and quantitation, gene expression data matrix (normalized and summarized data).

in Performance Approach to Quality Assessment
by William H. Benson, David Lattier Ord, Susan Lundquist Oei, Greg Miller Opei, Doug Wolf Ord, Genomics Microarray Workgroup, Kathryn Gallagher, Kerry Dearfield 2007

(Table 1). The supplemental web page includes additional informa- tion on these data sets, and the analysis of 18 other publicly avail- able cancer gene expression data sets.

in classification
by Minca Mramor, Gregor Leban, Janez Demšar, Blaž Zupan

Table 1. Relevant types of data and their characteristics

in Comparative Evaluation of Microarray-based Gene Expression Databases
by Hong-hai Do, Toralf Kirsten, Erhard Rahm 2003
"... In PAGE 4: ... The latter is further divided into Gene, Sample and Experiment Annotations. Table1 summarizes their characteristics and usage in gene expression analysis. Image Data.... ..."
Cited by 4

Table 4: Gene by gene concordance of relative expression levels between platform data and sample-matched QRT-PCR data

in unknown title
by unknown authors 2006
"... In PAGE 8: ... Array data for ERBB2, however, were found to be equally inconsistent from all 3 platforms. A gene by gene analysis of the expression relative to the reference sample revealed a high agreement between array data and QRT-PCR data ( Table4 ). This observation was independent of the overall expression level as assessed by the average Ct values for each gene.... ..."

Table 1. Different Regions of the Brain Show Many Statistically Significant Differentially Expressed Genes

in unknown title
by unknown authors
"... In PAGE 3: ... Counts of probesets meeting p , 0.001 for differential expression in one region relative to the others for both the mouse and primary human data are shown in Table1 . As was found with the human analysis, the three mouse brain regions examined had very distinct gene expression profiles with many statistically significant changes (Table 1).... ..."

Table 1: Some data sets for gene-based analysis.

in Cluster Analysis for Gene Expression Data: A Survey
by Daxin Jiang, Chun Tang, Aidong Zhang 2004
"... In PAGE 18: ...very noisy gene expression data set in which the number of clusters is unknown, CAST or CLICK may be a better choice. Table1 lists some gene expression data sets to which gene-based clustering... ..."
Cited by 32

Table 1. Choline transporter-like protein-1 gene expression profiles in the National Center for Biotechnology Information Gene Expression Omnibus database

in Downloaded from
by Zongfei Yuan, Angela Tie, Mark Tarnopolsky, Marica Bakovic, T. Barrett, D. B. Troup, S. E. Wilhite, P. Ledoux, D. Rudnev, C. Evangelista, I. F. Kim, M. Tomashevsky, R. Edgar 2005
"... In PAGE 8: ...shown in Fig. 3B). In addition, the S3 site did not bind Sp1 from myotubes, a feature that could be important for the regulation of CTL1 gene transcription in myoblasts (undiffer- entiated cells) relative to myotubes (differentiated cells). As we describe later, the microarray data ( Table1 ) as well as our unpublished data both suggest that myotubes actually express more CTL1 mRNA than myoblasts and have a stronger pro- moter activity, essentially when Sp1 is absent from the S3 site. To relate the regulation of the hCTL1 gene with other CTL1 genes, the analysis of the 5H11032-flanking regions from several mammalian species was performed using the VISTA multiple- alignment server, which revealed high structural conservation among CTL1 promoters, as shown in Fig.... In PAGE 13: ... This study is the first to address the transcriptional regulation of the hCTL1 gene, and there is no published information available with which to compare our results. To understand some of the above results, we examined the CTL1 microarray expression profiles deposited in the NCBI Gene Expression Omnibus (GEO) database ( Table1 ). On the basis of mouse transcriptome data, mCTL1 mRNA is ubiquitously expressed (GEO No.... ..."

TABLE 2. Analysis of Variance of Gene Expression

in CD40
by Scott M. Damrauer, Rachel Defina, Hongzhen He, Kathleen J. Haley, David L. Perkins
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