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Sample GSM1083892 Query DataSets for GSM1083892
Status Public on Aug 24, 2013
Title Wildtype liver DEN-injected 12weeks repl1
Sample type RNA
 
Source name Wildtype liver DEN-injected 12weeks repl1
Organism Mus musculus
Characteristics tissue: Liver
genotype/variation: Hmgn1+/+
treatment: injection of 10 µg/g body weight of N-nitrosodiethylamine
Treatment protocol At age of 4 weeks HMGN1 wildtype and knockout males received an injection of 10 µg/g body weight of N-nitrosodiethylamine or saline as a control.
Growth protocol Hmgn1+/+ and Hmgn1-/- littermates were generated by crossing heterozygous Hmgn1+/- male and female, DNA-tail-genotyping F1 mice and further propagating Hmgn1+/+ and Hmgn1-/- homozygotes separately
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from frozen liver tissue with TRIzol followed by purification using RNeasy Kit.
Label biotin
Label protocol GeneChip One-Cycle Target Labeling and Control Reagents (Affymetrix, P/N 900493).
 
Hybridization protocol GeneChip Hybridization, Wash and Stain Kit: Affymetrix, P/N 900720, suppliers recommendations, mouse 430.2 Affymetrix expression array
Scan protocol Agilent GeneArray Scanner
Data processing Mouse Genome 430 2.0 array has 45101 probe sets associated with approximately 20000 Mouse Genome Informatics (MGI) gene identifiers. Probe sets were mapped to MGI identifiers using information provided by the Jackson Laboratory (http://www.informatics.jax.org/). Values in the Sample data tables were derived from MAS5 algorithm.
 
Submission date Feb 15, 2013
Last update date Aug 24, 2013
Contact name Yuri Postnikov
E-mail(s) PostnikY@mail.nih.gov
Phone 301-496-2885
Organization name NIH
Street address 37 Convent Dr
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platform ID GPL1261
Series (1)
GSE44356 Expression data from wild-type and HMGN1 knockout mice injected with N-nitrosodiethylamine

Data table header descriptions
ID_REF
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 245.89 P 7.00668e-05
AFFX-BioB-M_at 575.061 P 4.42873e-05
AFFX-BioB-3_at 313.155 P 4.42873e-05
AFFX-BioC-5_at 805.021 P 5.16732e-05
AFFX-BioC-3_at 1005.73 P 4.42873e-05
AFFX-BioDn-5_at 2163.68 P 4.42873e-05
AFFX-BioDn-3_at 3857.01 P 4.42873e-05
AFFX-CreX-5_at 14039.2 P 5.16732e-05
AFFX-CreX-3_at 17194.9 P 4.42873e-05
AFFX-DapX-5_at 1978.12 P 4.42873e-05
AFFX-DapX-M_at 3991.13 P 5.16732e-05
AFFX-DapX-3_at 5729.66 P 4.42873e-05
AFFX-LysX-5_at 312.977 P 5.16732e-05
AFFX-LysX-M_at 426.342 P 4.42873e-05
AFFX-LysX-3_at 814.855 P 4.42246e-05
AFFX-PheX-5_at 325.175 P 4.42873e-05
AFFX-PheX-M_at 476.987 P 4.42873e-05
AFFX-PheX-3_at 638.873 P 5.16014e-05
AFFX-ThrX-5_at 306.262 P 9.4506e-05
AFFX-ThrX-M_at 439.853 P 4.42873e-05

Total number of rows: 45101

Table truncated, full table size 1367 Kbytes.




Supplementary file Size Download File type/resource
GSM1083892_Rochman_07_Mouse430_2_.CEL.gz 2.6 Mb (ftp)(http) CEL
GSM1083892_Rochman_07_Mouse430_2_.CHP.gz 427.8 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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