1 sample(s) found by the keyword GSM40717.


  1. GEO sample ID: GSM40717
    • Sample_geo_accession: GSM40717
    • Sample_status: Public on Apr 20 2005
    • Sample_submission_date: Feb 01 2005
    • Sample_last_update_date: Oct 28 2005
    • Sample_type: RNA
    • Sample_channel_count: 1
    • Sample_source_name_ch1: Yeast BY4730
    • Sample_organism_ch1: Saccharomyces cerevisiae
    • Sample_molecule_ch1: total RNA
    • Sample_description: BY4730 cultures were exposed to medium containing dilutions of test agent (Cisplatin (Cis), 600mg/mL; Methylmethane sulfonate (MMS), 0.12% v/v; Bleomycin (Bleo), 0.15U/mL; NaCl, 10mg/mL; ethanol, 15% v/v) for 120 min. Control cultures were either mock-treated with the solvent, DMSO (for comparison to Cis, MMS, Bleo) or maintained in media (for comparison to ethanol and NaCl) for 120 mins. Sample preparation and processing procedures were performed according the Affymetrix Genechipâ Expression Analysis Technical Manual (Affymetrix, Santa Clara, CA). Briefly, total RNA was isolated from thawed cell pellets using a hot phenol protocol described by Schmitt et. al. (1990). Total RNA was converted to poly(A)+ mRNA and isolated using Oligotex mRNA kit. Double stranded cDNA was generated by using T7-(dT) 24 oligo primer (Genset Corp., San Diego, CA) and Superscript Double Stranded cDNA Synthesis Kit (Gibco BRL, Carlsbad, CA). The cDNA was used for in vitro transcription (IVT) with Enzo BioArray RNA Transcript Labeling Kit to incorporate biotinylated ribonucleotides. Biotinylated cRNA (15 mg) was fragmented in 40 mM tris-acetate, pH 8.1; 30 mM MgOAc; 100 mM KOAc. Samples were then hybridized with Affymetrix probe array Yeast Genome S98 at 45°C for 16 hours with constant rotation. Hybridized probe arrays were washed and stained using an Affymetrix GeneChipâ Fluidics Station 400 and protocol EukGE-WS2. The chips were scanned using the Affymetrix GeneArray Scanner.
    • Sample_platform_id: GPL90
    • Sample_contact_name: Gregory,R.,Warnes
    • Sample_contact_email: gregory.r.warnes@pfizer.com
    • Sample_contact_phone: 860-715-3536
    • Sample_contact_laboratory: Non-clinical Statistics
    • Sample_contact_institute: Pfizer Inc., Groton, CT - USA
    • Sample_contact_address: Eastern Point Road
    • Sample_contact_city: Groton
    • Sample_contact_state: CT
    • Sample_contact_zip/postal_code: 06340
    • Sample_contact_country: USA
    • Sample_supplementary_file: NONE
    • Sample_series_id: GSE2224
    • Sample_data_row_count: 9335
    • sample_table_begin:
    • sample_table_end:
    • Sample_title: Control 10-23-02
    ID_REF Corrected Value VALUE
    10000_at 2.14051249613898 2.25126657118875
    10001_at 6.26568335889134 6.24720949833586
    10002_i_at 10.3986885857872 10.3897025678127
    10003_f_at 11.8148273366303 11.7797085021146
    10004_at 3.23056405059139 3.39310384953090
    10005_at 7.02831066820745 7.12936719754008
    10006_at 5.7837535114218 5.97585476829341
    10007_at 4.93587571340085 5.19161345856978
    10008_at 4.83224047330736 5.10927525103595
    10009_at 5.2982722452037 5.54421763882381
    View Full Table






Developed by Dirar Homouz, Gang Chen, and Andrzej S. Kudlicki*

Software download