Result

Search results for the GEO ID: GSE18501

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM461114

GPL570

MCF7 untreated, rep1

MCF7, untreated

cell line: MCF7 cell type: adenocarcinoma mammary cells treatment: untreated

Gene expression data from MCF7 untreated.

Sample_geo_accession	GSM461114
Sample_status	Public on Jul 14 2010
Sample_submission_date	Oct 09 2009
Sample_last_update_date	Jul 09 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
Sample_growth_protocol_ch1	MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
Sample_hyb_protocol	Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
Sample_scan_protocol	GeneChips were scanned using the GeneChip® Scanner 3000.
Sample_data_processing	Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
Sample_platform_id	GPL570
Sample_contact_name	Roberta,,Bosotti
Sample_contact_email	roberta.bosotti@nervianoms.com
Sample_contact_laboratory	Genomics
Sample_contact_department	Biotechnology
Sample_contact_institute	Nerviano Medical Sciences srl
Sample_contact_address	viale Pasteur,10
Sample_contact_city	Nerviano
Sample_contact_state	MI
Sample_contact_zip/postal_code	20014
Sample_contact_country	Italy
Sample_contact_web_link	http://www.nervianoms.com/cont/en/
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461114/suppl/GSM461114.CEL.gz
Sample_series_id	GSE18501
Sample_series_id	GSE18552
Sample_data_row_count	54675

GSM461115

GPL570

MCF7 untreated, rep2

MCF7, untreated

cell line: MCF7 cell type: adenocarcinoma mammary cells treatment: untreated

Gene expression data from MCF7 untreated.

Sample_geo_accession	GSM461115
Sample_status	Public on Jul 14 2010
Sample_submission_date	Oct 09 2009
Sample_last_update_date	Jul 09 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
Sample_growth_protocol_ch1	MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
Sample_hyb_protocol	Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
Sample_scan_protocol	GeneChips were scanned using the GeneChip® Scanner 3000.
Sample_data_processing	Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
Sample_platform_id	GPL570
Sample_contact_name	Roberta,,Bosotti
Sample_contact_email	roberta.bosotti@nervianoms.com
Sample_contact_laboratory	Genomics
Sample_contact_department	Biotechnology
Sample_contact_institute	Nerviano Medical Sciences srl
Sample_contact_address	viale Pasteur,10
Sample_contact_city	Nerviano
Sample_contact_state	MI
Sample_contact_zip/postal_code	20014
Sample_contact_country	Italy
Sample_contact_web_link	http://www.nervianoms.com/cont/en/
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461115/suppl/GSM461115.CEL.gz
Sample_series_id	GSE18501
Sample_series_id	GSE18552
Sample_data_row_count	54675

GSM461116

GPL570

MCF7 treated with CDK-125, rep1

MCF7, CDK-125

cell line: MCF7 cell type: adenocarcinoma mammary cells treatment: CDK-125

Gene expression data from MCF7 treated with CDK-125.

Sample_geo_accession	GSM461116
Sample_status	Public on Jul 14 2010
Sample_submission_date	Oct 09 2009
Sample_last_update_date	Jul 09 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
Sample_growth_protocol_ch1	MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
Sample_hyb_protocol	Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
Sample_scan_protocol	GeneChips were scanned using the GeneChip® Scanner 3000.
Sample_data_processing	Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
Sample_platform_id	GPL570
Sample_contact_name	Roberta,,Bosotti
Sample_contact_email	roberta.bosotti@nervianoms.com
Sample_contact_laboratory	Genomics
Sample_contact_department	Biotechnology
Sample_contact_institute	Nerviano Medical Sciences srl
Sample_contact_address	viale Pasteur,10
Sample_contact_city	Nerviano
Sample_contact_state	MI
Sample_contact_zip/postal_code	20014
Sample_contact_country	Italy
Sample_contact_web_link	http://www.nervianoms.com/cont/en/
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461116/suppl/GSM461116.CEL.gz
Sample_series_id	GSE18501
Sample_series_id	GSE18552
Sample_data_row_count	54675

GSM461117

GPL570

MCF7 treated with CDK-125, rep2

MCF7, CDK-125

cell line: MCF7 cell type: adenocarcinoma mammary cells treatment: CDK-125

Gene expression data from MCF7 treated with CDK-125.

Sample_geo_accession	GSM461117
Sample_status	Public on Jul 14 2010
Sample_submission_date	Oct 09 2009
Sample_last_update_date	Jul 09 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
Sample_growth_protocol_ch1	MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
Sample_hyb_protocol	Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
Sample_scan_protocol	GeneChips were scanned using the GeneChip® Scanner 3000.
Sample_data_processing	Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
Sample_platform_id	GPL570
Sample_contact_name	Roberta,,Bosotti
Sample_contact_email	roberta.bosotti@nervianoms.com
Sample_contact_laboratory	Genomics
Sample_contact_department	Biotechnology
Sample_contact_institute	Nerviano Medical Sciences srl
Sample_contact_address	viale Pasteur,10
Sample_contact_city	Nerviano
Sample_contact_state	MI
Sample_contact_zip/postal_code	20014
Sample_contact_country	Italy
Sample_contact_web_link	http://www.nervianoms.com/cont/en/
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461117/suppl/GSM461117.CEL.gz
Sample_series_id	GSE18501
Sample_series_id	GSE18552
Sample_data_row_count	54675

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