Search results for the GEO ID: GSE21648  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM540051 | GPL96 |
|
pateint 3 oral mucosal fibroblasts 0h post serum treatment
|
oral mucosal fibroblast, patient 3, serum + 0h
|
cell type: oral mucosal fibroblast
post serum time point: 0 hours
patient number: 3
|
Gene expression data from human oral mucosal fibroblasts following serum starvation
|
| Sample_geo_accession | GSM540051
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540051/suppl/GSM540051.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540051/suppl/GSM540051.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540052 | GPL96 |
|
pateint 4 oral mucosal fibroblasts 0h post serum treatment
|
oral mucosal fibroblast, patient 4, serum + 0h
|
cell type: oral mucosal fibroblast
post serum time point: 0 hours
patient number: 4
|
Gene expression data from human oral mucosal fibroblasts following serum starvation
|
| Sample_geo_accession | GSM540052
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540052/suppl/GSM540052.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540052/suppl/GSM540052.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540053 | GPL96 |
|
pateint 5 oral mucosal fibroblasts 0h post serum treatment
|
oral mucosal fibroblast, patient 5, serum + 0h
|
cell type: oral mucosal fibroblast
post serum time point: 0 hours
patient number: 5
|
Gene expression data from human oral mucosal fibroblasts following serum starvation
|
| Sample_geo_accession | GSM540053
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540053/suppl/GSM540053.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540053/suppl/GSM540053.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540054 | GPL96 |
|
pateint 6 oral mucosal fibroblasts 0h post serum treatment
|
oral mucosal fibroblast, patient 6, serum + 0h
|
cell type: oral mucosal fibroblast
post serum time point: 0 hours
patient number: 6
|
Gene expression data from human oral mucosal fibroblasts following serum starvation
|
| Sample_geo_accession | GSM540054
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540054/suppl/GSM540054.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540054/suppl/GSM540054.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540055 | GPL96 |
|
pateint 3 skin fibroblasts 0h post serum treatment
|
skin fibroblast, patient 3, serum + 0h
|
cell type: skin fibroblast
post serum time point: 0 hours
patient number: 3
|
Gene expression data from human skin fibroblasts following serum starvation
|
| Sample_geo_accession | GSM540055
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540055/suppl/GSM540055.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540055/suppl/GSM540055.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540056 | GPL96 |
|
pateint 4 skin fibroblasts 0h post serum treatment
|
skin fibroblast, patient 4, serum + 0h
|
cell type: skin fibroblast
post serum time point: 0 hours
patient number: 4
|
Gene expression data from human skin fibroblasts following serum starvation
|
| Sample_geo_accession | GSM540056
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540056/suppl/GSM540056.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540056/suppl/GSM540056.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540057 | GPL96 |
|
pateint 5 skin fibroblasts 0h post serum treatment
|
skin fibroblast, patient 5, serum + 0h
|
cell type: skin fibroblast
post serum time point: 0 hours
patient number: 5
|
Gene expression data from human skin fibroblasts following serum starvation
|
| Sample_geo_accession | GSM540057
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540057/suppl/GSM540057.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540057/suppl/GSM540057.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540058 | GPL96 |
|
pateint 6 skin fibroblasts 0h post serum treatment
|
skin fibroblast, patient 6, serum + 0h
|
cell type: skin fibroblast
post serum time point: 0 hours
patient number: 6
|
Gene expression data from human skin fibroblasts following serum starvation
|
| Sample_geo_accession | GSM540058
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540058/suppl/GSM540058.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540058/suppl/GSM540058.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540059 | GPL96 |
|
pateint 3 oral mucosal fibroblasts 6h post serum treatment
|
oral mucosal fibroblast, patient 3, serum + 6h
|
cell type: oral mucosal fibroblast
post serum time point: 6 hours
patient number: 3
|
Gene expression data from human oral mucosal fibroblasts 6 hours following serum stimulation
|
| Sample_geo_accession | GSM540059
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540059/suppl/GSM540059.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540059/suppl/GSM540059.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540060 | GPL96 |
|
pateint 4 oral mucosal fibroblasts 6h post serum treatment
|
oral mucosal fibroblast, patient 4, serum + 6h
|
cell type: oral mucosal fibroblast
post serum time point: 6 hours
patient number: 4
|
Gene expression data from human oral mucosal fibroblasts 6 hours following serum stimulation
|
| Sample_geo_accession | GSM540060
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540060/suppl/GSM540060.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540060/suppl/GSM540060.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540061 | GPL96 |
|
patient 5 oral mucosal fibroblasts 6h post serum treatment
|
oral mucosal fibroblast, patient 5, serum + 6h
|
cell type: oral mucosal fibroblast
post serum time point: 6 hours
patient number: 5
|
Gene expression data from human oral mucosal fibroblasts 6 hours following serum stimulation
|
| Sample_geo_accession | GSM540061
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540061/suppl/GSM540061.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540061/suppl/GSM540061.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540062 | GPL96 |
|
patient 6 oral mucosal fibroblasts 6h post serum treatment
|
oral mucosal fibroblast, patient 6, serum + 6h
|
cell type: oral mucosal fibroblast
post serum time point: 6 hours
patient number: 6
|
Gene expression data from human oral mucosal fibroblasts 6 hours following serum stimulation
|
| Sample_geo_accession | GSM540062
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540062/suppl/GSM540062.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540062/suppl/GSM540062.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540063 | GPL96 |
|
patient 3 skin fibroblasts 6h post serum treatment
|
skin fibroblast, patient 3, serum + 6h
|
cell type: skin fibroblast
post serum time point: 6 hours
patient number: 3
|
Gene expression data from human skin fibroblasts 6 hours following serum stimulation
|
| Sample_geo_accession | GSM540063
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540063/suppl/GSM540063.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540063/suppl/GSM540063.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540064 | GPL96 |
|
patient 4 skin fibroblasts 6h post serum treatment
|
skin fibroblast, patient 4, serum + 6h
|
cell type: skin fibroblast
post serum time point: 6 hours
patient number: 4
|
Gene expression data from human skin fibroblasts 6 hours following serum stimulation
|
| Sample_geo_accession | GSM540064
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540064/suppl/GSM540064.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540064/suppl/GSM540064.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
GSM540065 | GPL96 |
|
patient 6 skin fibroblasts 6h post serum treatment
|
skin fibroblast, patient 6, serum + 6h
|
cell type: skin fibroblast
post serum time point: 6 hours
patient number: 6
|
Gene expression data from human skin fibroblasts 6 hours following serum stimulation
|
| Sample_geo_accession | GSM540065
| | Sample_status | Public on Jan 01 2011
| | Sample_submission_date | May 04 2010
| | Sample_last_update_date | Jan 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at a density of 1x104 cells/cm2 in 10cm diameter dishes, cultured in normal growth medium for 24 hours, then serum starved (0.1% FCS) for 48 hours prior to stimulation with 10% FCS. Samples were taken at 0h and 6h following serum stimulation of both oral mucosal and skin fibroblast cultures derived from each patient.
| | Sample_growth_protocol_ch1 | Primary cell cultures (derived from 6mm biopsies) of oral mucosal (normal, non-diseased buccal mucosa) fibroblasts and patient-matched skin fibroblasts were grown under standard mammalian tissue culture conditions (37 degrees celcius and 5% carbon dioxide) in fibroblast-serum containing medium (F-SCM) as previously described (Stephens P, Davies KJ, al-Khateeb, et al. , J Dent Res, 1996; 75: 1358-64).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRIzol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg RNA was used to generate double-stranded cDNA by using a T7-linked oligo(dT) primer. Biotinylated cRNA was synthesised using the T7 RNA transcript labelling kit (Enzo Diagnostics, Farmingdale NY, USA)
| | Sample_hyb_protocol | 10 μg fragmented cRNA was then hybridised overnight to the human HG-U133A GeneChip
| | Sample_scan_protocol | GeneChips were scanned using the Agilent Gene Array Scanner controlled by Microarray Suite 5.0.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT 100) as normalization method.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Philip,,Stephens
| | Sample_contact_email | StephensP@cardiff.ac.uk
| | Sample_contact_phone | +44 (0)29 2074 2529
| | Sample_contact_laboratory | Wound Biology Group
| | Sample_contact_department | Dental School
| | Sample_contact_institute | Cardiff University
| | Sample_contact_address | Dental Drive, Heath Park
| | Sample_contact_city | Cardiff
| | Sample_contact_state | South Glamorgan
| | Sample_contact_zip/postal_code | CF14 4XY
| | Sample_contact_country | United Kingdom
| | Sample_contact_web_link | http://www.cardiff.ac.uk/dentl/contactsandpeople/academicstaff/stephens-phil-dr-overview_new.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540065/suppl/GSM540065.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM540nnn/GSM540065/suppl/GSM540065.CHP.gz
| | Sample_series_id | GSE21648
| | Sample_data_row_count | 22283
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
