1 sample(s) found by the keyword GSM211839.


  1. GEO sample ID: GSM211839
    • Sample_geo_accession: GSM211839
    • 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 24 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 24 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/GSM211839/GSM211839.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 1
    ID_REF Corrected Value VALUE
    10000_at 2.82050784506339 3.00204115439279
    10001_at 5.83144234096451 5.84035862405927
    10002_i_at 10.7434652480873 10.7885678770092
    10003_f_at 12.3486317909599 12.3263197921378
    10004_at 3.49785219706811 3.87718571422104
    10005_at 7.45314165827386 7.58500867691695
    10006_at 6.2390306018881 6.45279209724852
    10007_at 6.65886254940522 6.88327989894722
    10008_at 5.54156576315621 5.84522674896249
    10009_at 5.94189166486425 6.21155545397009
    View Full Table






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