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Sample GSM573419 Query DataSets for GSM573419
Status Public on Aug 01, 2011
Title wild_liver_75n
Sample type RNA
 
Source name mouse liver, DEN-treated, KLF6 +/+
Organism Mus musculus
Characteristics tissue type: liver
strain: C57BL/6
genotype/variation: KLF6 +/+
Treatment protocol KLF6 +/- mice were previously generated by homologous recombination in which exon 2 was targeted using an 11-kb targeting construct, and replaced with neomycin/lacZ cassette. After selection with neomycin, the ES clones were injected into C57BL/6 mouse blastocysts and implanted into pseudo pregnant females; two lines of KLF6 +/- mice were generated from the resulting chimeric animals (Blood 107;1357, Oncogene 26;4428). Whereas KLF6 -/- mice are embryonic lethal, KLF6 +/- animals had no demonstrable abnormalities in the absence of any stressor. Male KLF6 +/- mice were bred with wild type C57BL/6 to generate mixed litters of KLF6 +/- and KLF6 +/+ animals. Progeny were genotyped using PCR-amplified tail DNA, using primers as previously described (Oncogene 26;4428). Amplified fragments were separated on a 2.5% agarose gel, revealing bands of ~200 bp (wild type KLF6) and ~100 bp (Neo), as expected. At 2 weeks of age, KLF6 +/+ and KLF6 +/- mice were injected intraperitoneally with either a single dose of diethyl nitrosamine (DEN), 5 µg/g body weight in 100 µl of saline, or vehicle alone. Vehicle and DEN-treated mice were maintained on standard chow, and then sacrificed 3, 6 or 9 months later. At the time of sacrifice the animals were weighed, and blood and liver samples were harvested for analysis and tumor quantification.
Extracted molecule total RNA
Extraction protocol Using frozen non-tumor liver and hepatocellular carcinoma tissues, total RNA was extracted using TRIzol (Invitrogen).
Label biotin
Label protocol Refer to the Affymetrix System Manual
 
Hybridization protocol Refer to the Affymetrix System Manual
Scan protocol Refer to the Affymetrix System Manual
Data processing Raw scan data were normalized with the use of RMA algorithm, based on Core exons' signal intensities using Expression Console software ver.1.1 (Affymetrix).
 
Submission date Aug 02, 2010
Last update date Aug 01, 2011
Contact name Yujin Hoshida
E-mail(s) Yujin.Hoshida@UTSouthwestern.edu
Organization name University of Texas Southwestern Medical Center
Street address 5323 Harry Hines Blvd
City Dallas
State/province TX
ZIP/Postal code 75390
Country USA
 
Platform ID GPL6096
Series (1)
GSE23375 Gene-expression profiles of liver and hepatocellular carcinoma induced by diethylnitrosamine (DEN) in KLF6 +/- and wild type KLF6 mice.

Data table header descriptions
ID_REF
VALUE Normalized signal intensities by Expression Console software ver.1.1 (Affymetrix).

Data table
ID_REF VALUE
6747308 10.09891
6747309 9.169882
6747314 8.584042
6747326 3.696201
6747343 7.575703
6747354 3.059292
6747364 10.19359
6747471 7.465017
6747472 10.00534
6747478 3.103852
6747497 7.228787
6747504 3.169265
6747515 7.295133
6747577 3.883762
6747641 4.235205
6747696 7.483332
6747786 6.854109
6747805 9.280628
6747837 7.834457
6747839 7.748993

Total number of rows: 23332

Table truncated, full table size 384 Kbytes.




Supplementary file Size Download File type/resource
GSM573419.CEL.gz 22.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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