E-TABM-778 - Transcription profiling of mouse esophageal squamous cells after zinc-deficient or zinc-sufficient diet

Status
Released on 24 August 2010, last updated on 29 October 2015
Organism
Mus musculus
Samples (4)
Array (1)
Protocols (5)
Description
Weanling littermates Cox-2-/- and Cox-2+/+ (WT) mice were fed a zinc-deficient (ZD) or zinc-sufficient (ZS) diet to form 4 groups, namely, ZD:Cox-2-/- (n=4), ZD:WT (n=4), ZS:Cox-2-/- (n=4) and ZS:WT (n=4). After 8 weeks, ZD mouse forestomach evidenced increased cell proliferation as demonstrated by increased proliferating cell nuclear antigen [PCNA] labeling. The mice were sacrificed and forestomachs isolated. Forestomach epithelia were prepared by using a blade to strip off the submucosal and muscularis layers under the guidance of a dissecting microscope. We performed microarray analysis on individual RNA samples prepared from 4 mice from each of the following 4 groups: ZS:Cox-2-/-, ZS:WT, ZD:Cox-2-/- and ZD:WT mice (n=4/group), using GeneChipᆴ Mouse Genome 430 2.0 Array (Affymetrix, Santa Clara, CA). All RNA samples displayed intact ribosomal RNA 18S and 28S bands as determined by the Agilent 2100 Bioanalyzer. Five micrograms of total RNA was reverse transcribed into cDNA followed by in vitro transcription and labeling to produce biotin-labeled cRNA using IVT Labeling Kit. The labeled cRNA was hybridized to the array, followed staining with streptavidin-phycoerythrin. The distribution of fluorescent material on the oligonucleotide probes sets was obtained using GeneArray Scanner
Experiment types
transcription profiling by array, co-expression
Contact
Citations
Zinc deficiency activates S100A8 inflammation in the absence of COX-2 and promotes murine oral-esophageal tumor progression. Wan SG, Taccioli C, Jiang Y, Chen H, Smalley KJ, Huang K, Liu XP, Farber JL, Croce CM, Fong LY. :331-345 (2011), Europe PMC 20857495
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-TABM-778.idf.txt
Sample and data relationshipE-TABM-778.sdrf.txt
Raw data (1)E-TABM-778.raw.1.zip
Processed data (1)E-TABM-778.processed.1.zip
Array designA-AFFY-45.adf.txt
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