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Sample GSM17284 Query DataSets for GSM17284
Status Public on Mar 20, 2004
Title control 2
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
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
VALUE normalized intensity of spots

Data table
MA337 0.663009594
MA160 0.707211311
MA156 0.801729892
V115 0.731861312
V116 2.631865402
V117 2.038082198
V135 1.344999306
V369 1.117407057
V379 0.842481606
V391 0.709842123
V393 0.726286132
V283 0.760988083
V284 0.761216199
V048 0.785509808
V222 1.065054636
V260 1.144694635
V366 0.939921827
M372 0.823007793
M388 0.784784379
M316 0.736297429

Total number of rows: 1185

Table truncated, full table size 19 Kbytes.

Supplementary data files not provided

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