Search results for the GEO ID: GSE27041  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM666024 | GPL570 |
|
Control 4673 gal
|
fibroblast control 4673
|
gender: male
age: 1 year 6 months
culture condition: galactose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line 4673 on galactose
|
| Sample_geo_accession | GSM666024
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666024/suppl/GSM666024_090724_An_20_4673_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666025 | GPL570 |
|
Control 4673 glu
|
fibroblast control 4673
|
gender: male
age: 1 year 6 months
culture condition: glucose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line 4673 on glucose
|
| Sample_geo_accession | GSM666025
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666025/suppl/GSM666025_090724_An_19_4673_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666026 | GPL570 |
|
Control 4752 gal
|
fibroblast control 4752
|
gender: female
age: 1 year 11 months
culture condition: galactose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line 4752 on galactose
|
| Sample_geo_accession | GSM666026
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666026/suppl/GSM666026_090724_An_08_4752_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666027 | GPL570 |
|
Control 4752 glu
|
fibroblast control 4752
|
gender: female
age: 1 year 11 months
culture condition: glucose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line 4752 on glucose
|
| Sample_geo_accession | GSM666027
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666027/suppl/GSM666027_090724_An_07_4752_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666028 | GPL570 |
|
Control 6855 gal
|
fibroblast control 6855
|
gender: male
age: 6 months
culture condition: galactose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line 6855 on galactose
|
| Sample_geo_accession | GSM666028
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666028/suppl/GSM666028_090724_An_04_6855_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666029 | GPL570 |
|
Control 6855 glu
|
fibroblast control 6855
|
gender: male
age: 6 months
culture condition: glucose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line 6855 on glucose
|
| Sample_geo_accession | GSM666029
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666029/suppl/GSM666029_090724_An_03_6855_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666030 | GPL570 |
|
Control 9481 gal
|
fibroblast control 9481
|
gender: male
age: 3 years 3 months
culture condition: galactose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line 9481 on galactose
|
| Sample_geo_accession | GSM666030
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666030/suppl/GSM666030_090724_An_10_9481_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666031 | GPL570 |
|
Control 9481 glu
|
fibroblast control 9481
|
gender: male
age: 3 years 3 months
culture condition: glucose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line 9481 on glucose
|
| Sample_geo_accession | GSM666031
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666031/suppl/GSM666031_090724_An_09_9481_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666032 | GPL570 |
|
Control MW25 gal
|
fibroblast control MW25
|
gender: male
age: 1 year 7 months
culture condition: galactose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line MW25 on galactose
|
| Sample_geo_accession | GSM666032
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666032/suppl/GSM666032_090724_An_12_MW25_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666033 | GPL570 |
|
Control MW25 glu
|
fibroblast control MW25
|
gender: male
age: 1 year 7 months
culture condition: glucose
cell type: fibroblast
disease state: control
|
Gene expression data from fibroblasts of cell line MW25 on glucose
|
| Sample_geo_accession | GSM666033
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666033/suppl/GSM666033_090724_An_11_MW25_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666034 | GPL570 |
|
Patient 5175 gal
|
fibroblast CI deficient 5175
|
gender: male
age: 3 years
culture condition: galactose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 5175 on galactose
|
| Sample_geo_accession | GSM666034
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666034/suppl/GSM666034_090724_An_02_5175_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666035 | GPL570 |
|
Patient 5175 glu
|
fibroblast CI deficient 5175
|
gender: male
age: 3 years
culture condition: glucose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 5175 on glucose
|
| Sample_geo_accession | GSM666035
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666035/suppl/GSM666035_090724_An_01_5175_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666036 | GPL570 |
|
Patient 6613 gal
|
fibroblast CI deficient 6613
|
gender: male
age: <1 month
culture condition: galactose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 6613 on galactose
|
| Sample_geo_accession | GSM666036
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666036/suppl/GSM666036_090724_An_06_6613_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666037 | GPL570 |
|
Patient 6613 glu
|
fibroblast CI deficient 6613
|
gender: male
age: <1 month
culture condition: glucose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 6613 on glucose
|
| Sample_geo_accession | GSM666037
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666037/suppl/GSM666037_090724_An_05_6613_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666038 | GPL570 |
|
Patient 7898 gal
|
fibroblast CI deficient 7898
|
gender: male
age: <7 months
culture condition: galactose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 7898 on galactose
|
| Sample_geo_accession | GSM666038
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666038/suppl/GSM666038_090724_An_18_7898_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666039 | GPL570 |
|
Patient 7898 glu
|
fibroblast CI deficient 7898
|
gender: male
age: <7 months
culture condition: glucose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 7898 on glucose
|
| Sample_geo_accession | GSM666039
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666039/suppl/GSM666039_090724_An_17_7898_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666040 | GPL570 |
|
Patient 8328 gal
|
fibroblast CI deficient 8328
|
gender: male
age: 1 year
culture condition: galactose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 8328 on galactose
|
| Sample_geo_accession | GSM666040
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666040/suppl/GSM666040_090724_An_16_8328_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666041 | GPL570 |
|
Patient 8328 glu
|
fibroblast CI deficient 8328
|
gender: male
age: 1 year
culture condition: glucose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 8328 on glucose
|
| Sample_geo_accession | GSM666041
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666041/suppl/GSM666041_090724_An_15_8328_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666042 | GPL570 |
|
Patient 8807 gal
|
fibroblast CI deficient 8807
|
gender: female
age: 7 months
culture condition: galactose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 8807 on galactose
|
| Sample_geo_accession | GSM666042
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666042/suppl/GSM666042_090724_An_14_8807_gal_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
| | |
|
GSM666043 | GPL570 |
|
Patient 8807 glu
|
fibroblast CI deficient 8807
|
gender: female
age: 7 months
culture condition: glucose
cell type: fibroblast
disease state: defective complex I
|
Gene expression data from fibroblasts of cell line 8807 on galactose
|
| Sample_geo_accession | GSM666043
| | Sample_status | Public on Nov 01 2011
| | Sample_submission_date | Feb 03 2011
| | Sample_last_update_date | Nov 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Fibroblasts were cultured in Dulbecco’s modified Eagle medium (DMEM; Gibco) with high glucose (4.5 g/L) supplemented with 10% fetal bovine serum (FBS), 0.2 mM uridine (Acros), penicillin and streptomycin. To stimulate energy production by oxidative phosphorylation, fibroblasts were cultured for 48 hours without glucose in de presence of galactose. Galactose medium consisted of DMEM without glucose supplemented with 5.5mM galactose (Sigma), 20% FBS, 0.2 mM uridine, penicillin and streptomycin.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TRIzol reagent and purified with the Rneasy clean-up kit (Qiagen)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 150ng fibroblast RNA was reverse transcribed into cDNA and amplified in a two-round amplification according to the manufacturer's protocol (Affymetrix)
| | Sample_hyb_protocol | A mixture of cDNA and added hybridization controls was hybridized on Affymetrix HG-U133 Plus 2.0 chips, followed by staining and washing steps in the Affymetrix GeneChip fluidics station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | MAS 5.0 normalized. The data were analyzed with R, a free software program for statistical computing and graphics. Normal linear regression models were used to asses significantly differentially expressed genes between patients and controls.
| | Sample_platform_id | GPL570
| | Sample_contact_name | An,M,Voets
| | Sample_contact_email | an.voets@gen.unimaas.nl
| | Sample_contact_department | Genetics and Cell Biology
| | Sample_contact_institute | Maastricht University
| | Sample_contact_address | Universiteitssingel 50
| | Sample_contact_city | Maastricht
| | Sample_contact_zip/postal_code | 6200MD
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM666nnn/GSM666043/suppl/GSM666043_090724_An_13_8807_glu_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE27041
| | Sample_data_row_count | 54675
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Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
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