Search results for the GEO ID: GSE18965  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM469508 | GPL96 |
|
HN_64
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469508
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469508/suppl/GSM469508.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469509 | GPL96 |
|
AA_71
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469509
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469509/suppl/GSM469509.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469510 | GPL96 |
|
AA_78
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469510
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469510/suppl/GSM469510.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469511 | GPL96 |
|
AA_87
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469511
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469511/suppl/GSM469511.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469512 | GPL96 |
|
AA_88
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469512
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469512/suppl/GSM469512.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469513 | GPL96 |
|
HN_97
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469513
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469513/suppl/GSM469513.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469514 | GPL96 |
|
AA_98
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469514
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469514/suppl/GSM469514.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469515 | GPL96 |
|
HN_109
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469515
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469515/suppl/GSM469515.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469516 | GPL96 |
|
HN_119
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469516
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469516/suppl/GSM469516.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469517 | GPL96 |
|
HN_122
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469517
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469517/suppl/GSM469517.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469518 | GPL96 |
|
AA_124
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469518
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469518/suppl/GSM469518.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469519 | GPL96 |
|
HN_125
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469519
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469519/suppl/GSM469519.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469520 | GPL96 |
|
AA_126
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469520
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469520/suppl/GSM469520.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469521 | GPL96 |
|
HN_127
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469521
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469521/suppl/GSM469521.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469522 | GPL96 |
|
AA_128
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469522
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469522/suppl/GSM469522.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
| | |
|
GSM469523 | GPL96 |
|
AA_135
|
Airway epithelial cells
|
cell type: epithelial cells
|
Airway epithelial cells
|
| Sample_geo_accession | GSM469523
| | Sample_status | Public on Mar 31 2010
| | Sample_submission_date | Nov 10 2009
| | Sample_last_update_date | Mar 31 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Department of Respiratory Medicine, Princess Margaret Hospital for Children, Perth, 6001, Western Australia, Australia.
| | Sample_treatment_protocol_ch1 | tissue: Epithelial cells were collected by bronchial brushing and cultured.
| | Sample_treatment_protocol_ch1 | media: For culture, cells were washed once in RPMI-1640 media and the cell pellet resuspended in bronchial epithelial basal media (BEBM, Clonetics, CA) supplemented with bovine pituitary extract (50 mM), insulin (5 mM), hydrocortisone (0.5 mM), gentamicin (0.001%, v/v), amphotericin B (0.0005%, v/v), retinoic acid (0.1 µM), transferrin (10 mM), triiodothyronine (6.5 µM), epinephrine (6.5 µM) and human recombinant epidermal growth factor (EGF: 0.5 µM).
| | Sample_treatment_protocol_ch1 | plating: The plate was incubated for 20 minutes (37C, 5% CO2) to allow the macrophages to adhere. The suspended epithelial cells were aspirated from the plate, and the macrophages removed using trypsin (0.25%) for subsequent analysis.
| | Sample_treatment_protocol_ch1 | passage: The cells were seeded into a culture vessel (25 cm2 growth surface area) pre-coated with a mixture of fibronectin, collagen and bovine serum albumin, and maintained at 37C in a humidified incubator. Twenty-four hours post-isolation, unattached cells were collected. These cells were reseeded into the same culture vessel, with fresh media containing Ultroser G (2% v/v; BioSepra, CA), a serum substitute. The collection and reseeding of viable unattached cells was repeated at both 48 and 72 hours post isolation. Subsequent cultures were fed every second day and were usually passaged every 13–16 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RTotal RNA was extracted from epithelial cells using the QIAGEN RNeasy kit (Vic, Australia).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | For microarray hybridization, RNA was processed for hybridization to Affymetrix GeneChip® Human HG-U133A Arrays according to the manufacturer’s instructions.
| | Sample_hyb_protocol | The standard hybridization protocol was used as recommended by Affymterix.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
| | Sample_data_processing | R/Bioconductor GC-RMA normalization log2
| | Sample_platform_id | GPL96
| | Sample_contact_name | Richard,,Beyer
| | Sample_contact_email | dbeyer@u.washington.edu
| | Sample_contact_phone | 206-616-7378
| | Sample_contact_laboratory | Center for Ecogenetics and Environmental Health
| | Sample_contact_institute | University of Washington
| | Sample_contact_address | 4225 Roosevelt Way, NE, Suite 100
| | Sample_contact_city | Seattle
| | Sample_contact_state | WA
| | Sample_contact_zip/postal_code | 98105
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM469nnn/GSM469523/suppl/GSM469523.CEL.gz
| | Sample_series_id | GSE18965
| | Sample_data_row_count | 22215
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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" |
Enter the group name here: |
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