Search results for the GEO ID: GSE28444  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM317505 | GPL570 |
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MCF-7 RNA
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MCF7 cell line
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Cell line: MCF7
Gender: Female
Age: 69
Tissue: Breast tumor
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Array Image: Without seriously artifacts
Background: 20-100
Noise: <10
Hybridization controls: BioB: 50%A; 50%P
bioC, bioD, and cre: P
internal control genes: Either 3'/5' probe set of GAPDH or 3'/5' probe set of actin <3
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| Sample_geo_accession | GSM317505
| | Sample_status | Public on Sep 05 2008
| | Sample_submission_date | Sep 02 2008
| | Sample_last_update_date | Sep 04 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were grown to 85 % confluence in 10 cm tissue culture dish. Each 10 cm dish was washed with 1x PBS for three times. Total RNA was extracted according to the RNeasy® Mini Kit Spin Protocol (QIAGEN). The integrity of the RNA extract was checked by 1.2 % (w/v) agarose gel electrophoresis and the concentration of RNA was estimated by ultraviolet spectrophotometry.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_hyb_protocol | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_scan_protocol | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_data_processing | Using scaling factor. The default settings are "scaling all probe sets to target signal: 500" and "normalization by user defined in value: 1
| | Sample_platform_id | GPL570
| | Sample_contact_name | Ming-Ta,,Hsu
| | Sample_contact_email | kentkenpony@hotmail.com
| | Sample_contact_institute | National Yang Ming University
| | Sample_contact_address | No.155, Sec.2, Linong Street
| | Sample_contact_city | Taipei
| | Sample_contact_zip/postal_code | 112
| | Sample_contact_country | Taiwan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM317nnn/GSM317505/suppl/GSM317505.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM317nnn/GSM317505/suppl/GSM317505.CHP.gz
| | Sample_series_id | GSE12650
| | Sample_series_id | GSE28444
| | Sample_series_id | GSE30350
| | Sample_data_row_count | 54675
| | |
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GSM317506 | GPL570 |
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MCF-7 RNA (10ug/ml alpha-amanitin)
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MCF7 cell line (with 10μg/ml alpha-amanitin treatment for 48hrs)
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Cell line: MCF7
Gender: Female
Age: 69
Tissue: Breast tumor
|
Array Image: Without seriously artifacts
Background: 20-100
Noise: <10
Hybridization controls: BioB: 50%A; 50%P
bioC, bioD, and cre: P
internal control genes: Either 3'/5' probe set of GAPDH or 3'/5' probe set of actin <3
|
| Sample_geo_accession | GSM317506
| | Sample_status | Public on Sep 05 2008
| | Sample_submission_date | Sep 03 2008
| | Sample_last_update_date | Sep 04 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cells were grown to 85 % confluence in 10 cm tissue culture dish. Cells were treated with 10μg/ml of alpha-amanitin for 48hrs. Each 10 cm dish was washed with 1x PBS for three times. Total RNA was extracted according to the RNeasy® Mini Kit Spin Protocol (QIAGEN). The integrity of the RNA extract was checked by 1.2 % (w/v) agarose gel electrophoresis and the concentration of RNA was estimated by ultraviolet spectrophotometry.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_hyb_protocol | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_scan_protocol | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_data_processing | Using scaling factor. The default settings are "scaling all probe sets to target signal: 500" and "normalization by user defined in value: 1
| | Sample_platform_id | GPL570
| | Sample_contact_name | Ming-Ta,,Hsu
| | Sample_contact_email | kentkenpony@hotmail.com
| | Sample_contact_institute | National Yang Ming University
| | Sample_contact_address | No.155, Sec.2, Linong Street
| | Sample_contact_city | Taipei
| | Sample_contact_zip/postal_code | 112
| | Sample_contact_country | Taiwan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM317nnn/GSM317506/suppl/GSM317506.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM317nnn/GSM317506/suppl/GSM317506.CHP.gz
| | Sample_series_id | GSE12650
| | Sample_series_id | GSE28444
| | Sample_series_id | GSE30350
| | Sample_data_row_count | 54675
| | |
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GSM703116 | GPL570 |
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Control-T
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MCF-7 cell line control
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cell line: MCF-7 breast cancer cell line
cell line source: 69 year old female
agent: Control
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Expression data from untreated MCF-7 cell line
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| Sample_geo_accession | GSM703116
| | Sample_status | Public on Jul 01 2011
| | Sample_submission_date | Apr 07 2011
| | Sample_last_update_date | Jul 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were treated with 0.3μM of Triptolide for 24 hours.
| | Sample_growth_protocol_ch1 | Cells were grown to 85 % confluence in 10 cm tissue culture dish.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each 10 cm dish was washed with 1x PBS for three times. Total RNA was extracted according to the RNeasy® Mini Kit Spin Protocol (QIAGEN). The integrity of the RNA extract was checked by 1.2 % (w/v) agarose gel electrophoresis and the concentration of RNA was estimated by ultraviolet spectrophotometry.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_hyb_protocol | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_scan_protocol | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_data_processing | MAS5.0 calculated signal intensities. Using scaling factor. The default settings are "scaling all probe sets to target signal: 500" and "normalization by user defined in value: 1
| | Sample_platform_id | GPL570
| | Sample_contact_name | Ming-Ta,,Hsu
| | Sample_contact_email | kentkenpony@hotmail.com
| | Sample_contact_institute | National Yang Ming University
| | Sample_contact_address | No.155, Sec.2, Linong Street
| | Sample_contact_city | Taipei
| | Sample_contact_zip/postal_code | 112
| | Sample_contact_country | Taiwan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM703nnn/GSM703116/suppl/GSM703116.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM703nnn/GSM703116/suppl/GSM703116.CHP.gz
| | Sample_series_id | GSE28444
| | Sample_series_id | GSE30350
| | Sample_data_row_count | 54675
| | |
|
GSM703117 | GPL570 |
|
Triptolide
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MCF-7 cell line treated with 0.3μM of Triptolide for 24 hours
|
cell line: MCF-7 breast cancer cell line
cell line source: 69 year old female
agent: Triptolide
|
Expression data from MCF-7 cell line treated with 0.3 mM of Triptolide for 24 hours
|
| Sample_geo_accession | GSM703117
| | Sample_status | Public on Jul 01 2011
| | Sample_submission_date | Apr 07 2011
| | Sample_last_update_date | Jul 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were treated with 0.3μM of Triptolide for 24 hours.
| | Sample_growth_protocol_ch1 | Cells were grown to 85 % confluence in 10 cm tissue culture dish.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each 10 cm dish was washed with 1x PBS for three times. Total RNA was extracted according to the RNeasy® Mini Kit Spin Protocol (QIAGEN). The integrity of the RNA extract was checked by 1.2 % (w/v) agarose gel electrophoresis and the concentration of RNA was estimated by ultraviolet spectrophotometry.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_hyb_protocol | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_scan_protocol | Affymetrix microarray was performed using Human U133 2.0 (Affymetrix). Details of the methods for RNA quality, sample labeling, hybridization and expression analysis are according to the manual of Affymetrix Microarray Kit and Affymetrix website.
| | Sample_data_processing | MAS5.0 calculated signal intensities. Using scaling factor. The default settings are "scaling all probe sets to target signal: 500" and "normalization by user defined in value: 1
| | Sample_platform_id | GPL570
| | Sample_contact_name | Ming-Ta,,Hsu
| | Sample_contact_email | kentkenpony@hotmail.com
| | Sample_contact_institute | National Yang Ming University
| | Sample_contact_address | No.155, Sec.2, Linong Street
| | Sample_contact_city | Taipei
| | Sample_contact_zip/postal_code | 112
| | Sample_contact_country | Taiwan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM703nnn/GSM703117/suppl/GSM703117.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM703nnn/GSM703117/suppl/GSM703117.CHP.gz
| | Sample_series_id | GSE28444
| | Sample_series_id | GSE30350
| | Sample_data_row_count | 54675
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