1 sample(s) found by the keyword GSM225401.


  1. GEO sample ID: GSM225401
    • Sample_geo_accession: GSM225401
    • Sample_status: Public on Aug 31 2007
    • Sample_submission_date: Aug 29 2007
    • Sample_last_update_date: Oct 09 2008
    • Sample_type: RNA
    • Sample_channel_count: 1
    • Sample_source_name_ch1: ethanol limited aerobic chemostat culture
    • Sample_organism_ch1: Saccharomyces cerevisiae
    • Sample_characteristics_ch1: Prototrophic S. cerevisiae strain CEN.PK113–7D (MATa)
    • Sample_biomaterial_provider_ch1: Jean-Marc Daran
    • Sample_treatment_protocol_ch1: liquid nitrogen quenching
    • Sample_growth_protocol_ch1: Strain and Growth Conditions—Wild-type S. cerevisiae strain CEN.PK113–7D (MATa) (1) was grown at 30 °C in 2-liter chemostats (Applikon), with a working volume of 1.0 liter as described in Ref. 2. Cultures were fed with a defined mineral medium that limited growth by glucose, ethanol, acetate, or maltose with all other growth requirements in excess. The dilution rate was set at 0.10 h-1. The pH was measured on-line and kept constant at 5.0 by the automatic addition of 2 M KOH with the use of an Applikon ADI 1030 biocontroller. Stirrer speed was 800 rpm, and the airflow was 0.5 liters_min-1. Dissolved oxygen tension was measured online with an Ingold model 34-100-3002 probe, and was between 60 and 75% of air saturation. The off-gas was cooled by a condenser connected to a cryostat set at 2 °C and analyzed as previously described (3). Steady-state samples were taken after 10–14 volume changes to avoid strain adaptation caused by long term cultivation (4).
    • Sample_growth_protocol_ch1: Media—The defined mineral medium composition was based on that described by Verduyn et al. (5). The carbon source was 256 mmol
    • Sample_growth_protocol_ch1: of carbon/liter.
    • Sample_growth_protocol_ch1: 1. Pronk, J. T., Wenzel, T. J., Luttik, M. A. H., Klaassen, C. C. M., Scheffers, W. A., and van Dijken, J. P. (1994) Microbiology 140, 601–610
    • Sample_growth_protocol_ch1: 2. van den Berg, M. A., de Jong-Gubbels, P., Kortland, C. J., van Dijken, J. P., Pronk, J. T., and Steensma, H. Y. (1996) J. Biol. Chem. 271, 28953–28959
    • Sample_growth_protocol_ch1: 3. van Maris, A. J. A., Luttik, M. A. H., Winkler, A. A., van Dijken, J. P., and Pronk, J. T. (2003) Appl. Environ. Microbiol. 69, 2094–2099
    • Sample_growth_protocol_ch1: 4. Ferea, T. L., Botstein, D., Brown, P. O., and Rosenzweig, R. F. (1999) Proc. Natl. Acad. Sci. U. S. A. 96, 9721–9726
    • Sample_growth_protocol_ch1: 5- Verduyn, C., Postma, E., Scheffers, W. A., and van Dijken, J. P. (1992) Yeast 8, 501–517
    • Sample_molecule_ch1: polyA RNA
    • Sample_extract_protocol_ch1: Sampling of cells from chemostats, probe preparation, and hybridization to Affymetrix GeneChip® microarrays were
    • Sample_extract_protocol_ch1: performed as described previously (6)
    • Sample_extract_protocol_ch1: 6- Piper, M. D. W., Daran-Lapujade, P., Bro, C., Regenberg, B., Knudsen, S.,Nielsen, J., and Pronk, J. T. (2002) J. Biol. Chem. 277, 37001–37008
    • Sample_label_ch1: Biotinylated dUTP - streptavidine Phycoerythrin (SAPE)
    • Sample_label_protocol_ch1: Sampling of cells from chemostats, probe preparation, and hybridization to Affymetrix GeneChip® microarrays were
    • Sample_label_protocol_ch1: performed as described previously (6)
    • Sample_label_protocol_ch1: 6- Piper, M. D. W., Daran-Lapujade, P., Bro, C., Regenberg, B., Knudsen, S.,Nielsen, J., and Pronk, J. T. (2002) J. Biol. Chem. 277, 37001–37008
    • Sample_hyb_protocol: Sampling of cells from chemostats, probe preparation, and hybridization to Affymetrix GeneChip® microarrays were performed as described previously (6)
    • Sample_hyb_protocol: 6- Piper, M. D. W., Daran-Lapujade, P., Bro, C., Regenberg, B., Knudsen, S.,Nielsen, J., and Pronk, J. T. (2002) J. Biol. Chem. 277, 37001–37008
    • Sample_scan_protocol: Sampling of cells from chemostats, probe preparation, and hybridization to Affymetrix GeneChip® microarrays were
    • Sample_scan_protocol: performed as described previously (6)
    • Sample_scan_protocol: 6- Piper, M. D. W., Daran-Lapujade, P., Bro, C., Regenberg, B., Knudsen, S.,Nielsen, J., and Pronk, J. T. (2002) J. Biol. Chem. 277, 37001–37008
    • Sample_description: P29
    • Sample_data_processing: MAS5.0 calculated intensity with global array targetting at 150
    • Sample_platform_id: GPL90
    • Sample_contact_name: Jean-Marc,,Daran
    • Sample_contact_email: j.g.daran@tudelft.nl
    • Sample_contact_phone: +31 15 278 2412
    • Sample_contact_fax: +31 15 278 23 55
    • Sample_contact_laboratory: Kluyver centre for genomics of industrial organisms
    • Sample_contact_department: Department of Biotechnology
    • Sample_contact_institute: Delft University of Technology
    • Sample_contact_address: Julianalaan 67
    • Sample_contact_city: Delft
    • Sample_contact_zip/postal_code: 2628BC
    • Sample_contact_country: Netherlands
    • Sample_supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM225nnn/GSM225401/GSM225401.CEL.gz
    • Sample_supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM225nnn/GSM225401/GSM225401.EXP.gz
    • Sample_series_id: GSE8895
    • Sample_series_id: GSE11452
    • Sample_data_row_count: 9335
    • Sample_comment: Raw data provided as supplementary file
    • sample_table_begin:
    • sample_table_end:
    • Sample_title: Acetate limited chemostat culture D=0.1/h -1
    ID_REF Corrected Value VALUE ABS_CALL
    AFFX-MurIL2_at 0.3 1.1 A
    AFFX-MurIL10_at 0.5 2.1 A
    AFFX-MurIL4_at 0.8 1.1 A
    AFFX-MurFAS_at 1.7 1.6 A
    AFFX-BioB-5_at 116.3 71.4 P
    AFFX-BioB-M_at 137.8 94.6 P
    AFFX-BioB-3_at 152.5 110.1 P
    AFFX-BioC-5_at 240.3 200.1 P
    AFFX-BioC-3_at 196.9 154.9 P
    AFFX-BioDn-5_at 222.4 183.2 P
    View Full Table






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