1 sample(s) found by the keyword GSM211841.


  1. GEO sample ID: GSM211841
    • Sample_geo_accession: GSM211841
    • Sample_status: Public on Apr 17 2008
    • Sample_submission_date: Jul 20 2007
    • Sample_last_update_date: Apr 16 2008
    • Sample_type: RNA
    • Sample_channel_count: 1
    • Sample_source_name_ch1: yeast cells harvested after 48 hours
    • Sample_organism_ch1: Saccharomyces cerevisiae
    • Sample_characteristics_ch1: An industrial wine strain of S. cerevisiae, Vin13 (Anchor Yeast, South Africa), was used. The dried yeast was resuspended (Marks et al, 2003) and inoculated into 1 L filter sterilized Riesling grape juice harvested from the Okanagan Valley in British Columbia, Canada in the 2000 growing season. The final cell count was 4 x 106 /ml. The grape juice contained 214 g/L sugar (equimolar amounts of glucose and fructose), 70 mg/ L ammonia, and 140 mg/L free alpha-amino nitrogen (Marks, 2003 et al, 2003). Incubation was at 20 °C
    • Sample_molecule_ch1: total RNA
    • Sample_extract_protocol_ch1: extraction of total RNA was done according to (Causton et al, Mol. Biol. Cell 12, 323–337,2001). Double-stranded cDNA was purified using phenol/chloroform/isoamyl alcohol (25:24:1) saturated with 10 mM Tris–HCl, pH 8.0, 1 mM EDTA (Ambion, Austin, TX, USA) and a Phase Lock Gel prepared according to the manufacturer's instructions (Eppendorf, Hamburg, Germany)
    • Sample_label_ch1: biotin
    • Sample_label_protocol_ch1: Following ethanol precipitation, cRNA was prepared by in vitro transcription of the cDNA using the Enzo BioArray™ HighYield™ RNA Transcript Labeling kit (Farmingdale, NY, USA). The cRNA was purified with RNeasy spin columns (Qiagen, Mississauga, ON, Canada), followed by ethanol precipitation. Then, 20 μg of cRNA (0.5 μg μl-1) was fragmented by incubating at 94°C for 35 min in fragmentation buffer (40 mM Tris–acetate, pH 8.1, 100 mM potassium acetate, 30 mM magnesium acetate). Further details of procedures can be found in the GeneChip Expression Analysis Technical Manual (Affymetrix, Santa Clara, CA, USA).
    • Sample_hyb_protocol: 20 μg of cRNA (0.5 μg μl-1) was fragmented by incubating at 94°C for 35 min in fragmentation buffer (40 mM Tris–acetate, pH 8.1, 100 mM potassium acetate, 30 mM magnesium acetate)
    • Sample_scan_protocol: as described by the manufacturer (Eukaryotic Arrays GeneChip Expression Analysis and Technical Manual, Affymetrix, Santa Clara, CA), using an Agilent G2500A GeneArray Scanner
    • Sample_description: yeast cells harvested after 48 hours
    • Sample_data_processing: RMA applied to the whole series (as implemented in the 'affy' package in Bioconductor)
    • Sample_platform_id: GPL90
    • Sample_contact_name: Hennie,JJ,van Vuuren
    • Sample_contact_email: hjjvv@interchange.ubc.ca
    • Sample_contact_phone: (604) 822-0418
    • Sample_contact_fax: (604) 822-5143
    • Sample_contact_institute: UBC
    • Sample_contact_address: 2205 East Mall
    • Sample_contact_city: Vancouver
    • Sample_contact_state: BC
    • Sample_contact_zip/postal_code: V6T 1Z4
    • Sample_contact_country: Canada
    • Sample_contact_web_link: http://www.landfood.ubc.ca/wine/
    • Sample_supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM211nnn/GSM211841/GSM211841.CEL.gz
    • Sample_series_id: GSE8536
    • Sample_data_row_count: 9335
    • Sample_comment: Raw data provided as supplementary file
    • sample_table_begin:
    • sample_table_end:
    • Sample_title: 48 hour rep 3
    ID_REF Corrected Value VALUE
    10000_at 2.75127404901244 2.89909474513188
    10001_at 6.39045053428242 6.42159017661888
    10002_i_at 10.0870629515476 10.1089367215078
    10003_f_at 11.5110574714549 11.5084677856627
    10004_at 3.43321672754695 3.74807353848627
    10005_at 6.86233233225761 6.98452049628829
    10006_at 6.18814009717647 6.39582214727659
    10007_at 6.42472602244213 6.64011321519288
    10008_at 4.99267104923925 5.28493893163489
    10009_at 5.12159676730022 5.3961815943014
    View Full Table






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