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Sample GSM37923 Query DataSets for GSM37923
Status Public on Dec 22, 2004
Title A72
Sample type RNA
 
Source name pig liver
Organism Homo sapiens
Extracted molecule total RNA
 
Description cRNAs were hybridized with HumU133A oligo arrays (Affymetrix, Santa Clara, CA) which contain 22,283 probe sets. Preliminary studies indicated that Affymetrix Human GeneChips detected more than 60% of pig liver transcripts. All Affymetrix data were filtered for those genes with fluorescent intensity value of less than 100. Genes whose expressions in livers from the folate deficient and ethanol fed groups were either increased or decreased by 2-fold or more (p<0.05) compared to those in livers from the control group were considered significantly changed. GeneChip cRNA probes used in GeneChip expressions were obtained by following a protocol from the manufacturer. First strand cDNA was synthesized by reverse transcription of 8 μg total RNA with superscript II reverse transcriptase (Invitrogen, Carlsbad, CA) and T7-oligo (dT) 24 primer (Genset Oligos, Boulder, CO), followed by second strand cDNA synthesis. Biotin-labeled cRNA probes were generated by reverse transcription of double stranded cDNA using BioArray High yield RNA transcript labeling kit (ENZO Life Sciences, Inc., Farmingdale, NY). The cRNA probes were purified from unincorporated nucleotides by RNeasy mini column (QIAGEN, Valencia, CA), fragmented and hybridized overnight at 680 C to the Human GeneChip array (HG U133A, Affymetrix).
 
Submission date Dec 21, 2004
Last update date Sep 08, 2006
Contact name Farah ESfandiari
E-mail(s) fesfandiari@ucdavis.edu
Phone 530-752-6715
Organization name University of California davis
Department
Street address
City Davis
State/province CA
ZIP/Postal code 95616
Country USA
 
Platform ID GPL96
Series (1)
GSE2099 control-ethanol liver RNA

Data table header descriptions
ID_REF
VALUE expression

Data table
ID_REF VALUE
AFFX-BioB-5_at 167.066
AFFX-BioB-M_at 179.063
AFFX-BioB-3_at 180.079
AFFX-BioC-5_at 311.066
AFFX-BioC-3_at 496.223
AFFX-BioDn-5_at 398.875
AFFX-BioDn-3_at 1770.66
AFFX-CreX-5_at 3383.22
AFFX-CreX-3_at 4441.45
AFFX-DapX-5_at 29.8652
AFFX-DapX-M_at 80.9877
AFFX-DapX-3_at 35.5811
AFFX-LysX-5_at 25.4617
AFFX-LysX-M_at 35.2212
AFFX-LysX-3_at 43.9684
AFFX-PheX-5_at 31.3014
AFFX-PheX-M_at 24.9157
AFFX-PheX-3_at 110.567
AFFX-ThrX-5_at 38.8054
AFFX-ThrX-M_at 32.7146

Total number of rows: 22283

Table truncated, full table size 409 Kbytes.




Supplementary data files not provided

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