Search results for the GEO ID: GSE16238  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM408950 | GPL570 |
|
HTB58_antiEvi1siRNA_1
|
Adherent lung cancer cell line, anti-Evi1 siRNA
|
cell line: HTB-58
gender: male
age: 65 years
race: Caucasian
disease: squamous cell carcinoma of the lung
sirna: anti-Evi1
|
Replicate 1 of 3.
|
| Sample_geo_accession | GSM408950
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408950/suppl/GSM408950.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408951 | GPL570 |
|
HTB58_antiEvi1siRNA_2
|
Adherent lung cancer cell line, anti-Evi1 siRNA
|
cell line: HTB-58
gender: male
age: 65 years
race: Caucasian
disease: squamous cell carcinoma of the lung
sirna: anti-Evi1
|
Replicate 2 of 3.
|
| Sample_geo_accession | GSM408951
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408951/suppl/GSM408951.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408952 | GPL570 |
|
HTB58_antiEvi1siRNA_3
|
Adherent lung cancer cell line, anti-Evi1 siRNA
|
cell line: HTB-58
gender: male
age: 65 years
race: Caucasian
disease: squamous cell carcinoma of the lung
sirna: anti-Evi1
|
Replicate 3 of 3.
|
| Sample_geo_accession | GSM408952
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408952/suppl/GSM408952.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408953 | GPL570 |
|
HTB58_controlsiRNA_1
|
Adherent lung cancer cell line, control siRNA
|
cell line: HTB-58
gender: male
age: 65 years
race: Caucasian
disease: squamous cell carcinoma of the lung
sirna: control
|
Replicate 1 of 3.
|
| Sample_geo_accession | GSM408953
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408953/suppl/GSM408953.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408954 | GPL570 |
|
HTB58_controlsiRNA_2
|
Adherent lung cancer cell line, control siRNA
|
cell line: HTB-58
gender: male
age: 65 years
race: Caucasian
disease: squamous cell carcinoma of the lung
sirna: control
|
Replicate 2 of 3.
|
| Sample_geo_accession | GSM408954
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408954/suppl/GSM408954.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408955 | GPL570 |
|
HTB58_controlsiRNA_3
|
Adherent lung cancer cell line, control siRNA
|
cell line: HTB-58
gender: male
age: 65 years
race: Caucasian
disease: squamous cell carcinoma of the lung
sirna: control
|
Replicate 3 of 3.
|
| Sample_geo_accession | GSM408955
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408955/suppl/GSM408955.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408956 | GPL570 |
|
TF1_antiEvi1siRNA_1
|
Myeloid cell line, anti-Evi1 siRNA
|
cell line: TF-1
gender: male
age: 35 years
disease: erythroleukemia (AML M6)
sirna: anti-Evi1
|
Replicate 1 of 3.
|
| Sample_geo_accession | GSM408956
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408956/suppl/GSM408956.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408957 | GPL570 |
|
TF1_antiEvi1siRNA_2
|
Myeloid cell line, anti-Evi1 siRNA
|
cell line: TF-1
gender: male
age: 35 years
disease: erythroleukemia (AML M6)
sirna: anti-Evi1
|
Replicate 2 of 3.
|
| Sample_geo_accession | GSM408957
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408957/suppl/GSM408957.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408958 | GPL570 |
|
TF1_antiEvi1siRNA_3
|
Myeloid cell line, anti-Evi1 siRNA
|
cell line: TF-1
gender: male
age: 35 years
disease: erythroleukemia (AML M6)
sirna: anti-Evi1
|
Replicate 3 of 3.
|
| Sample_geo_accession | GSM408958
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408958/suppl/GSM408958.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408959 | GPL570 |
|
TF1_controlsiRNA_1
|
Myeloid cell line, control siRNA
|
cell line: TF-1
gender: male
age: 35 years
disease: erythroleukemia (AML M6)
sirna: control
|
Replicate 1 of 3.
|
| Sample_geo_accession | GSM408959
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408959/suppl/GSM408959.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
| | |
|
GSM408960 | GPL570 |
|
TF1_controlsiRNA_2
|
Myeloid cell line, control siRNA
|
cell line: TF-1
gender: male
age: 35 years
disease: erythroleukemia (AML M6)
sirna: control
|
Replicate 2 of 3.
|
| Sample_geo_accession | GSM408960
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408960/suppl/GSM408960.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
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GSM408961 | GPL570 |
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TF1_controlsiRNA_3
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Myeloid cell line, control siRNA
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cell line: TF-1
gender: male
age: 35 years
disease: erythroleukemia (AML M6)
sirna: control
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Replicate 3 of 3.
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| Sample_geo_accession | GSM408961
| | Sample_status | Public on Sep 30 2012
| | Sample_submission_date | May 26 2009
| | Sample_last_update_date | Sep 30 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were transfected with 1 μg/μl (75 μM) of chemically synthesized anti-EVI1 siRNA or control siRNA.
| | Sample_growth_protocol_ch1 | Cells were cultured in RPMI-1640 medium supplemented with 10% FBS in the case of HTB-58 cells or with 20% FBS and 5-10 ng/ml recombinant GM-CSF in the case of TF-1.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The cDNA was prepared from 2 microg total RNA using the One –Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133Plus2 chip according to the protocols provided by the manufacturer.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
| | Sample_data_processing | RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,D,Odero
| | Sample_contact_email | modero@unav.es
| | Sample_contact_institute | University of Navarra
| | Sample_contact_address | Pio XII, 55
| | Sample_contact_city | Pamplona
| | Sample_contact_zip/postal_code | 31008
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM408nnn/GSM408961/suppl/GSM408961.CEL.gz
| | Sample_series_id | GSE16238
| | Sample_data_row_count | 54675
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