Search results for the GEO ID: GSE25148  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM618017 | GPL570 |
|
HEK-TLR2 2h-LPS rep1
|
HEK-TLR2 cells untreated for 2h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 2h
|
| Sample_geo_accession | GSM618017
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618017/suppl/GSM618017.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618018 | GPL570 |
|
HEK-TLR2 2h-LPS rep2
|
HEK-TLR2 cells untreated for 2h rep 2
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 2h
|
| Sample_geo_accession | GSM618018
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618018/suppl/GSM618018.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618019 | GPL570 |
|
HEK-TLR2 2h+LPS rep1
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 2h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in treated HEK-TLR2 cells at 2h
|
| Sample_geo_accession | GSM618019
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618019/suppl/GSM618019.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618020 | GPL570 |
|
HEK-TLR2 2h+LPS rep2
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 2h rep 2
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in treated HEK-TLR2 cells at 2h
|
| Sample_geo_accession | GSM618020
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618020/suppl/GSM618020.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618021 | GPL570 |
|
HEK-TLR2 4h-LPS rep1
|
HEK-TLR2 cells untreated for 4h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 4h
|
| Sample_geo_accession | GSM618021
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618021/suppl/GSM618021.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618022 | GPL570 |
|
HEK-TLR2 4h-LPS rep2
|
HEK-TLR2 cells untreated for 4h rep 2
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 4h
|
| Sample_geo_accession | GSM618022
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618022/suppl/GSM618022.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618023 | GPL570 |
|
HEK-TLR2 4h+LPS rep1
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 4h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in treated HEK-TLR2 cells at 4h
|
| Sample_geo_accession | GSM618023
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618023/suppl/GSM618023.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618024 | GPL570 |
|
HEK-TLR2 4h+LPS rep2
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 4h rep 2
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in treated HEK-TLR2 cells at 4h
|
| Sample_geo_accession | GSM618024
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618024/suppl/GSM618024.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618025 | GPL570 |
|
HEK-TLR2 8h-LPS rep1
|
HEK-TLR2 cells untreated for 8h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 8h
|
| Sample_geo_accession | GSM618025
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618025/suppl/GSM618025.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618026 | GPL570 |
|
HEK-TLR2 8h-LPS rep2
|
HEK-TLR2 cells untreated for 8h rep 2
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 8h
|
| Sample_geo_accession | GSM618026
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618026/suppl/GSM618026.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618027 | GPL570 |
|
HEK-TLR2 8h+LPS rep1
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 8h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in treated HEK-TLR2 cells at 8h
|
| Sample_geo_accession | GSM618027
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618027/suppl/GSM618027.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618028 | GPL570 |
|
HEK-TLR2 8h+LPS rep2
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 8h rep 2
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in treated HEK-TLR2 cells at 8h
|
| Sample_geo_accession | GSM618028
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618028/suppl/GSM618028.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618029 | GPL570 |
|
HEK-TLR2 24h-LPS rep1
|
HEK-TLR2 cells untreated for 24h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 24h
|
| Sample_geo_accession | GSM618029
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618029/suppl/GSM618029.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618030 | GPL570 |
|
HEK-TLR2 24h-LPS rep2
|
HEK-TLR2 cells untreated for 24h rep 2
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 24h
|
| Sample_geo_accession | GSM618030
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618030/suppl/GSM618030.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618031 | GPL570 |
|
HEK-TLR2 24h+LPS rep1
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 24h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in treated HEK-TLR2 cells at 24h
|
| Sample_geo_accession | GSM618031
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618031/suppl/GSM618031.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618032 | GPL570 |
|
HEK-TLR2 24h+LPS rep2
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 24h rep 2
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in treated HEK-TLR2 cells at 24h
|
| Sample_geo_accession | GSM618032
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618032/suppl/GSM618032.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618033 | GPL570 |
|
HEK-TLR2 48h-LPS rep1
|
HEK-TLR2 cells untreated for 48h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 48h
|
| Sample_geo_accession | GSM618033
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618033/suppl/GSM618033.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618034 | GPL570 |
|
HEK-TLR2 48h-LPS rep2
|
HEK-TLR2 cells untreated for 48h rep 2
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in untreated HEK-TLR2 cells at 48h
|
| Sample_geo_accession | GSM618034
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618034/suppl/GSM618034.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618035 | GPL570 |
|
HEK-TLR2 48h+LPS rep1
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 48h rep 1
|
tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
|
gene expression in treated HEK-TLR2 cells at 48h
|
| Sample_geo_accession | GSM618035
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618035/suppl/GSM618035.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
| | |
|
GSM618036 | GPL570 |
|
HEK-TLR2 48h+LPS rep2
|
HEK-TLR2 cells treated with 10 μg/ml H. pylori LPS for 48h rep 2
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tissue: embryonic kidney
cell type: human embryonic kidney (HEK) cells stably transfected with Toll-like receptor 2 (TLR2)
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gene expression in treated HEK-TLR2 cells at 48h
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| Sample_geo_accession | GSM618036
| | Sample_status | Public on Jan 12 2011
| | Sample_submission_date | Nov 04 2010
| | Sample_last_update_date | Jan 13 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The morning of treatment, the cell culture medium was replaced with either fresh medium (untreated) or medium containing 10 μg/ml H. pylori lipopolysaccharide
| | Sample_growth_protocol_ch1 | HEK-TLR2 cells were routinely maintained in MEM alpha medium (Gibco) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma), 100 μg/ml streptomycin and 500 μg/ml G418 (Sigma). The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At time points of 2, 4, 8, 24 and 48 h post-stimulation, cells were harvested and RNA isolated using the Nucleospin RNAII kit (Machery Nagel) according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 μg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) using the Affymetrix IVT labeling kit.
| | Sample_hyb_protocol | Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix U133 plus 2.0 genechips. GeneChips were washed and stained in the Automated fluidics 450 station.
| | Sample_scan_protocol | Genechips were scanned using the GeneChip 3000 7G scanner
| | Sample_data_processing | Scanned images, obtained using Affymetrix Software (MAS5), were normalized using robust multichip average (RMA) analysis with RMAExpress version 0.4.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Sinead,Marian,Smith
| | Sample_contact_laboratory | Trinity Centre for Health Sciences
| | Sample_contact_institute | Trinity College Dublin
| | Sample_contact_address | St. James's Hospital
| | Sample_contact_city | Dublin 8
| | Sample_contact_zip/postal_code | D8
| | Sample_contact_country | Ireland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618036/suppl/GSM618036.CEL.gz
| | Sample_series_id | GSE25148
| | Sample_series_id | GSE25155
| | Sample_data_row_count | 54675
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