Search results for the GEO ID: GSE16798  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM421933 | GPL570 |
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U937 cells with knock-down of Pirin - Replica 1
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U937 myelomonocytic cell line, PIR knock-down
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cell line: U937
pir knock-down: yes
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U937 is a human cell line established from a diffuse histiocytic lymphoma and displaying monocytic characteristics.
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| Sample_geo_accession | GSM421933
| | Sample_status | Public on Dec 10 2009
| | Sample_submission_date | Jun 24 2009
| | Sample_last_update_date | Dec 10 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | U937 cell lines were maintained in RPMI-1640 supplemented with 10% FCS and 2mM glutamine at 37°C in a humidified atmosphere containing 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol Reagent (Gibco), followed by clean up on RNeasy mini/midi columns (RNeasy Mini/Midi Kit, Qiagen). For each sample, an RNA pool was obtained by mixing equal quantities of total RNA from each of the three independent RNA extractions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA The size and the accuracy of quantitation of targets were checked by agarose gel electrophoresis of 2ug aliquots, prior to and after fragmentation. After fragmentation, targets were diluted in hybridisation buffer at a concentration of 150ug/ml.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on GeneChip GeneChip HG-U133 Plus v.2 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station. Two copies of the GeneChip HG-U133 Plus v.2 were hybridized with each biotin-labeled target.
| | Sample_scan_protocol | Images were scanned using an Affymetrix GeneArray Scanner, using default parameters.
| | Sample_data_processing | The data were analyzed with GeneChip operating system (GCOS) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Myriam,,Alcalay
| | Sample_contact_email | myriam.alcalay@ifom-ieo-campus.it
| | Sample_contact_laboratory | Functional Genomics
| | Sample_contact_department | Experimental Oncology
| | Sample_contact_institute | European Institute of Oncology
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20139
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM421nnn/GSM421933/suppl/GSM421933.CEL.gz
| | Sample_series_id | GSE16798
| | Sample_data_row_count | 54675
| | |
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GSM421934 | GPL570 |
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U937 cells with knock-down of Pirin - Replica 2
|
U937 myelomonocytic cell line, PIR knock-down
|
cell line: U937
pir knock-down: yes
|
U937 is a human cell line established from a diffuse histiocytic lymphoma and displaying monocytic characteristics.
|
| Sample_geo_accession | GSM421934
| | Sample_status | Public on Dec 10 2009
| | Sample_submission_date | Jun 24 2009
| | Sample_last_update_date | Dec 10 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | U937 cell lines were maintained in RPMI-1640 supplemented with 10% FCS and 2mM glutamine at 37°C in a humidified atmosphere containing 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol Reagent (Gibco), followed by clean up on RNeasy mini/midi columns (RNeasy Mini/Midi Kit, Qiagen). For each sample, an RNA pool was obtained by mixing equal quantities of total RNA from each of the three independent RNA extractions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA The size and the accuracy of quantitation of targets were checked by agarose gel electrophoresis of 2ug aliquots, prior to and after fragmentation. After fragmentation, targets were diluted in hybridisation buffer at a concentration of 150ug/ml.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on GeneChip GeneChip HG-U133 Plus v.2 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station. Two copies of the GeneChip HG-U133 Plus v.2 were hybridized with each biotin-labeled target.
| | Sample_scan_protocol | Images were scanned using an Affymetrix GeneArray Scanner, using default parameters.
| | Sample_data_processing | The data were analyzed with GeneChip operating system (GCOS) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Myriam,,Alcalay
| | Sample_contact_email | myriam.alcalay@ifom-ieo-campus.it
| | Sample_contact_laboratory | Functional Genomics
| | Sample_contact_department | Experimental Oncology
| | Sample_contact_institute | European Institute of Oncology
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20139
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM421nnn/GSM421934/suppl/GSM421934.CEL.gz
| | Sample_series_id | GSE16798
| | Sample_data_row_count | 54675
| | |
|
GSM421935 | GPL570 |
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U937 cells infected with empty pSICO-R vector - Replica 1
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U937 myelomonocytic cell line, control
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cell line: U937
pir knock-down: no
|
U937 is a human cell line established from a diffuse histiocytic lymphoma and displaying monocytic characteristics.
|
| Sample_geo_accession | GSM421935
| | Sample_status | Public on Dec 10 2009
| | Sample_submission_date | Jun 24 2009
| | Sample_last_update_date | Dec 10 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | U937 cell lines were maintained in RPMI-1640 supplemented with 10% FCS and 2mM glutamine at 37°C in a humidified atmosphere containing 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol Reagent (Gibco), followed by clean up on RNeasy mini/midi columns (RNeasy Mini/Midi Kit, Qiagen). For each sample, an RNA pool was obtained by mixing equal quantities of total RNA from each of the three independent RNA extractions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA The size and the accuracy of quantitation of targets were checked by agarose gel electrophoresis of 2ug aliquots, prior to and after fragmentation. After fragmentation, targets were diluted in hybridisation buffer at a concentration of 150ug/ml.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on GeneChip GeneChip HG-U133 Plus v.2 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station. Two copies of the GeneChip HG-U133 Plus v.2 were hybridized with each biotin-labeled target.
| | Sample_scan_protocol | Images were scanned using an Affymetrix GeneArray Scanner, using default parameters.
| | Sample_data_processing | The data were analyzed with GeneChip operating system (GCOS) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Myriam,,Alcalay
| | Sample_contact_email | myriam.alcalay@ifom-ieo-campus.it
| | Sample_contact_laboratory | Functional Genomics
| | Sample_contact_department | Experimental Oncology
| | Sample_contact_institute | European Institute of Oncology
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20139
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM421nnn/GSM421935/suppl/GSM421935.CEL.gz
| | Sample_series_id | GSE16798
| | Sample_data_row_count | 54675
| | |
|
GSM421936 | GPL570 |
|
U937 cells infected with empty pSICO-R vector - Replica 2
|
U937 myelomonocytic cell line, control
|
cell line: U937
pir knock-down: no
|
U937 is a human cell line established from a diffuse histiocytic lymphoma and displaying monocytic characteristics.
|
| Sample_geo_accession | GSM421936
| | Sample_status | Public on Dec 10 2009
| | Sample_submission_date | Jun 24 2009
| | Sample_last_update_date | Dec 10 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | U937 cell lines were maintained in RPMI-1640 supplemented with 10% FCS and 2mM glutamine at 37°C in a humidified atmosphere containing 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol Reagent (Gibco), followed by clean up on RNeasy mini/midi columns (RNeasy Mini/Midi Kit, Qiagen). For each sample, an RNA pool was obtained by mixing equal quantities of total RNA from each of the three independent RNA extractions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA The size and the accuracy of quantitation of targets were checked by agarose gel electrophoresis of 2ug aliquots, prior to and after fragmentation. After fragmentation, targets were diluted in hybridisation buffer at a concentration of 150ug/ml.
| | Sample_hyb_protocol | Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on GeneChip GeneChip HG-U133 Plus v.2 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station. Two copies of the GeneChip HG-U133 Plus v.2 were hybridized with each biotin-labeled target.
| | Sample_scan_protocol | Images were scanned using an Affymetrix GeneArray Scanner, using default parameters.
| | Sample_data_processing | The data were analyzed with GeneChip operating system (GCOS) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Myriam,,Alcalay
| | Sample_contact_email | myriam.alcalay@ifom-ieo-campus.it
| | Sample_contact_laboratory | Functional Genomics
| | Sample_contact_department | Experimental Oncology
| | Sample_contact_institute | European Institute of Oncology
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20139
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM421nnn/GSM421936/suppl/GSM421936.CEL.gz
| | Sample_series_id | GSE16798
| | Sample_data_row_count | 54675
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