Search results for the GEO ID: GSE20986  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM524662 | GPL570 |
|
iris-cellline-1
|
vascular endothelial iris cells
|
tissue: iris
cell type: vascular endothelial cells
|
Eyes 1.CEL
|
| Sample_geo_accession | GSM524662
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524662/suppl/GSM524662.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524663 | GPL570 |
|
retina-cellline-1
|
vascular endothelial retina cells
|
tissue: retina
cell type: vascular endothelial cells
|
Eyes 11.CEL
|
| Sample_geo_accession | GSM524663
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524663/suppl/GSM524663.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524664 | GPL570 |
|
retina-cellline-2
|
vascular endothelial retina cells
|
tissue: retina
cell type: vascular endothelial cells
|
Eyes 12.CEL
|
| Sample_geo_accession | GSM524664
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524664/suppl/GSM524664.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524665 | GPL570 |
|
iris-cellline-2
|
vascular endothelial iris cells
|
tissue: iris
cell type: vascular endothelial cells
|
Eyes 2.CEL
|
| Sample_geo_accession | GSM524665
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524665/suppl/GSM524665.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524666 | GPL570 |
|
retina-cellline-3
|
vascular endothelial retina cells
|
tissue: retina
cell type: vascular endothelial cells
|
Eyes 20.CEL
|
| Sample_geo_accession | GSM524666
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524666/suppl/GSM524666.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524667 | GPL570 |
|
iris-cellline-3
|
vascular endothelial iris cells
|
tissue: iris
cell type: vascular endothelial cells
|
Eyes 3.CEL
|
| Sample_geo_accession | GSM524667
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524667/suppl/GSM524667.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524668 | GPL570 |
|
choroid-cellline-1
|
vascular endothelial choroid cells
|
tissue: choroid
cell type: vascular endothelial cells
|
Eyes 4.CEL
|
| Sample_geo_accession | GSM524668
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524668/suppl/GSM524668.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524669 | GPL570 |
|
choroid-cellline-2
|
vascular endothelial choroid cells
|
tissue: choroid
cell type: vascular endothelial cells
|
Eyes 5.CEL
|
| Sample_geo_accession | GSM524669
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524669/suppl/GSM524669.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524670 | GPL570 |
|
choroid-cellline-3
|
vascular endothelial choroid cells
|
tissue: choroid
cell type: vascular endothelial cells
|
Eyes 6.CEL
|
| Sample_geo_accession | GSM524670
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524670/suppl/GSM524670.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524671 | GPL570 |
|
huvec-cellline-1
|
umbilical vein endothelial cells
|
tissue: umbilical vein
cell type: umbilical vein endothelial cells (HUVEC)
|
Eyes 7.CEL
|
| Sample_geo_accession | GSM524671
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524671/suppl/GSM524671.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524672 | GPL570 |
|
huvec-cellline-2
|
umbilical vein endothelial cells
|
tissue: umbilical vein
cell type: umbilical vein endothelial cells (HUVEC)
|
Eyes 8.CEL
|
| Sample_geo_accession | GSM524672
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524672/suppl/GSM524672.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
GSM524673 | GPL570 |
|
huvec-cellline-3
|
umbilical vein endothelial cells
|
tissue: umbilical vein
cell type: umbilical vein endothelial cells (HUVEC)
|
Eyes 9.CEL
|
| Sample_geo_accession | GSM524673
| | Sample_status | Public on Dec 31 2010
| | Sample_submission_date | Mar 20 2010
| | Sample_last_update_date | Dec 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Matched human ocular MVEC were isolated from anonymised paired human globes, enucleated within 24 hours of death and free of any known ocular disease. Isolation and culture of human macular inner choroidal endothelial cells utilising anti-CD31-coated Dynabeads (Dynal Ltd, Wirral, UK) was used with the substitution of macular choroidal tissue with isolated iris, retinal and choroidal tissues (PMID 16170129; http://www.ncbi.nlm.nih.gov/pubmed/16170129).
| | Sample_growth_protocol_ch1 | Cells were seeded onto fibronectin-coated 35mm culture dishes (Beckton Dickinson, Oxford, UK), and incubated at 37°C in a humidified atmosphere of 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was extracted from primary cultures of unpassaged endothelial cells when they had reached approximately 80% confluence, using the Qiagen RNeasy minikit as directed (Qiagen, Crawley, UK). Approximately 5μg of total RNA was obtained from each 35mm culture plate. RNA integrity and quality was assessed using an Agilent 2100 Bioanalyser and RNA 6000 Nano kit (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA probes were prepared from the total RNA samples (1µg) using the microarray target amplification kit and the microarray target RNA synthesis kit (both Roche Applied Sciences) following the manufacturer’s instructions.
| | Sample_hyb_protocol | The cRNA samples were then fragmented and hybridised onto Affymetrix GeneChip ® Human Genome U133 Plus 2.0 arrays (Affymetrix, High Wycombe, Bucks, UK) by incubating at 45°C for 16 hours. Washing and staining of the arrays were carried out following Affymetrix GeneChip ® protocols using a Fluidics Station 450.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix Scanner 3000. GCOS software (Affymetrix) was used to monitor scanning and to convert the raw image files into cell intensity files (‘.CEL’).
| | Sample_data_processing | CEL files were processed with the BioConductor gcrma function from the simpleaffy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Simon,,Cockell
| | Sample_contact_email | Simon.Cockell@newcastle.ac.uk
| | Sample_contact_institute | Newcastle University
| | Sample_contact_address | Framlington Place
| | Sample_contact_city | Newcastle
| | Sample_contact_zip/postal_code | NE2 4HH
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524673/suppl/GSM524673.CEL.gz
| | Sample_series_id | GSE20986
| | Sample_data_row_count | 54675
| | |
|
| |
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