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Series GSE2099

Query DataSets for GSE2099

Status

Public on Dec 22, 2004

Title

control-ethanol liver RNA

Organism

Homo sapiens

Experiment type

Expression profiling by array

Summary

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).
Keywords: parallel sample

Contributor(s)

Esfandiari FN, Villanueva JA, Wong DH, French SW, Halsted CH

Citation(s)

15705656

Submission date

Dec 21, 2004

Last update date

Aug 10, 2018

Contact name

Farah ESfandiari

E-mail(s)

fesfandiari@ucdavis.edu