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Sample GSM17283 Query DataSets for GSM17283
Status Public on Mar 20, 2004
Title control 1
Sample type RNA
 
Source name mouse liver
Organism Mus musculus
Extracted molecule total RNA
 
Description Fifty micrograms of RNA from each mouse liver sample were enriched for poly A+ RNA using the AtlasTM Pure Total RNA Labeling system (Clontech, Palo Alto, CA), and reverse transcribed in the presence of [33P]dATP, dCTP, dGTP, dTTP and AMV reverse transcriptase to produce cDNA probes. The probes were purified using the ProbeQuantâ„¢ G-50 Micro Columns (Amersham Pharmacia Biotech Inc., Piscataway, NJ), and then denatured in the presence of Cot-1 DNA. The Clontech AtlasTM Mouse 1.2 Arrays (7853-1)(Palo Alto, CA) were prehybridized in 5 ml of ExpressHyb (Clontech) and 0.5 mg of heat denatured sheared salmon sperm for 30 minutes at 68C prior to probe incubation. The probes were added and incubated overnight at 68C degrees before washing four times for 30 minutes each time with 2X SSC, 1% SDS, then once with 0.1X SSC, 0.5% SDS for 30 minutes, and once with 2X SSC for 5 minutes at 68oC. Blots were visualized by placing them on a K-screen for 3-4 days (Bio-Rad, Hercules, CA).
Arrays were visualized from the K-screen, and analyzed and quantified with a phosphoimager (Molecular Imager FX, Bio-Rad, Hercules, CA) and the ResGen PathwaysTM Universal Microarray Analysis SoftwareTM (Research Genetics, Carlsbad, CA). Local background was subtracted automatically from the individual spot intensities, and spot intensities were normalized to the mean intensity of all spots on the array. This is called datapoint normalization on the ResGen Pathways Microarray Analysis SoftwareTM. Normalized gene intensities on the arrays probed with 4-NP treated mouse livers and untreated mouse liver cDNA were compared, and fold differences were calculated.
Keywords = 4-nonylphenol
 
Submission date Feb 27, 2004
Last update date Oct 28, 2005
Contact name William Baldwin
E-mail(s) wbaldwin@utep.edu
Phone 915-747-6888
Organization name Unversity of Texas at El Paso
Department Biological Sciences
Street address 500 W. University Ave.
City El Paso
State/province TX
ZIP/Postal code 79968
Country USA
 
Platform ID GPL144
Series (1)
GSE1083 Alterations in gene expression in FVB/NJ mouse liver following 4-nonylphenol (4-NP) treatment for 32 weeks

Data table header descriptions
ID_REF
VALUE normalized intensity of spot

Data table
ID_REF VALUE
MA337 0.889601121
MA160 1.05871028
MA156 0.639782067
V115 0.712676982
V116 1.428558115
V117 1.584398134
V135 1.007884033
V369 0.998890798
V379 0.716575505
V391 0.684560343
V393 0.882440309
V283 0.796407744
V284 0.696609598
V048 0.759944933
V222 0.616740006
V260 0.583763852
V366 0.564712527
M372 0.575094253
M388 0.654978107
M316 1.004132661

Total number of rows: 1185

Table truncated, full table size 19 Kbytes.




Supplementary data files not provided

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