Result

Search results for the GEO ID: GSE25146

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM618009

GPL570

AGS untreated rep 1

AGS cells untreated for 8h rep 1

cell type: gastric epithelial cells cell line: AGS

gene expression in untreated AGS cells

Sample_geo_accession	GSM618009
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	AGS cells were routinely maintained in nutrient mixture F-12 Ham (Sigma) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma) and 100 μg/ml streptomycin. The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	8h 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/GSM618009/suppl/GSM618009.CEL.gz
Sample_series_id	GSE25146
Sample_series_id	GSE25155
Sample_data_row_count	54675

GSM618010

GPL570

AGS untreated rep 2

AGS cells untreated for 8h rep 2

cell type: gastric epithelial cells cell line: AGS

gene expression in untreated AGS cells

Sample_geo_accession	GSM618010
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	AGS cells were routinely maintained in nutrient mixture F-12 Ham (Sigma) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma) and 100 μg/ml streptomycin. The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	8h 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/GSM618010/suppl/GSM618010.CEL.gz
Sample_series_id	GSE25146
Sample_series_id	GSE25155
Sample_data_row_count	54675

GSM618011

GPL570

AGS treated rep 1

AGS cells treated with 10 μg/ml H. pylori LPS for 8h rep 1

cell type: gastric epithelial cells cell line: AGS

gene expression in H. pylori LPS-treated cells

Sample_geo_accession	GSM618011
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	AGS cells were routinely maintained in nutrient mixture F-12 Ham (Sigma) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma) and 100 μg/ml streptomycin. The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	8h 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/GSM618011/suppl/GSM618011.CEL.gz
Sample_series_id	GSE25146
Sample_series_id	GSE25155
Sample_data_row_count	54675

GSM618012

GPL570

AGS treated rep 2

AGS cells treated with 10 μg/ml H. pylori LPS for 8h rep 2

cell type: gastric epithelial cells cell line: AGS

gene expression in H. pylori LPS-treated cells

Sample_geo_accession	GSM618012
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	AGS cells were routinely maintained in nutrient mixture F-12 Ham (Sigma) supplemented with 10% foetal calf serum (Gibco), 2 mM L-glutamine (Sigma), 100 U/ml penicillin (Sigma) and 100 μg/ml streptomycin. The day before treatment, cells were seeded in 6-well plates at 1x106 cells/well.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	8h 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/GSM618012/suppl/GSM618012.CEL.gz
Sample_series_id	GSE25146
Sample_series_id	GSE25155
Sample_data_row_count	54675

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