Search results for the GEO ID: GSE20540  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM516933 | GPL570 |
|
MM1S (cultured alone)_replicate1
|
MM1S cells cultured alone
|
cell line: multiple myeloma (MM) cell line MM.1S
culture conditions of tumor cells (growth protocol): cultured alone
|
n/a
|
| Sample_geo_accession | GSM516933
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516933/suppl/GSM516933.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516934 | GPL570 |
|
MM1S (cultured alone)_replicate2
|
MM1S cells cultured alone
|
cell line: multiple myeloma (MM) cell line MM.1S
culture conditions of tumor cells (growth protocol): cultured alone
|
n/a
|
| Sample_geo_accession | GSM516934
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516934/suppl/GSM516934.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516935 | GPL570 |
|
MM1S (after Co-Culture with BMSCs)_replicate1
|
MM1S cells after co-culture with HS-5 BMSCs
|
cell line: multiple myeloma (MM) cell line MM.1S
culture conditions of tumor cells (growth protocol): co-cultured with BMSCs
|
n/a
|
| Sample_geo_accession | GSM516935
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516935/suppl/GSM516935.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516936 | GPL570 |
|
MM1S (after Co-Culture with BMSCs)_replicate2
|
MM1S cells after co-culture with HS-5 BMSCs
|
cell line: multiple myeloma (MM) cell line MM.1S
culture conditions of tumor cells (growth protocol): co-cultured with BMSCs
|
n/a
|
| Sample_geo_accession | GSM516936
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516936/suppl/GSM516936.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516937 | GPL570 |
|
MM1R (cultured alone)_replicate1
|
MM1R cells cultured alone
|
cell line: multiple myeloma (MM) cell line MM.1R
culture conditions of tumor cells (growth protocol): cultured alone
|
n/a
|
| Sample_geo_accession | GSM516937
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516937/suppl/GSM516937.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516938 | GPL570 |
|
MM1R (cultured alone)_replicate2
|
MM1R cells cultured alone
|
cell line: multiple myeloma (MM) cell line MM.1R
culture conditions of tumor cells (growth protocol): cultured alone
|
n/a
|
| Sample_geo_accession | GSM516938
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516938/suppl/GSM516938.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516939 | GPL570 |
|
MM1R (after Co-Culture with BMSCs)_replicate1
|
MM1R cells after co-culture with HS-5 BMSCs
|
cell line: multiple myeloma (MM) cell line MM.1R
culture conditions of tumor cells (growth protocol): co-cultured with BMSCs
|
n/a
|
| Sample_geo_accession | GSM516939
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516939/suppl/GSM516939.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516940 | GPL570 |
|
MM1R (after Co-Culture with BMSCs)_replicate2
|
MM1R cells after co-culture with HS-5 BMSCs
|
cell line: multiple myeloma (MM) cell line MM.1R
culture conditions of tumor cells (growth protocol): co-cultured with BMSCs
|
n/a
|
| Sample_geo_accession | GSM516940
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516940/suppl/GSM516940.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516941 | GPL570 |
|
INA-6 (cultured alone)_replicate1
|
INA-6 cells cultured alone
|
cell line: multiple myeloma (MM) cell line INA-6
culture conditions of tumor cells (growth protocol): cultured alone
|
n/a
|
| Sample_geo_accession | GSM516941
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516941/suppl/GSM516941.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516942 | GPL570 |
|
INA-6 (cultured alone)_replicate2
|
INA-6 cells cultured alone
|
cell line: multiple myeloma (MM) cell line INA-6
culture conditions of tumor cells (growth protocol): cultured alone
|
n/a
|
| Sample_geo_accession | GSM516942
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516942/suppl/GSM516942.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516943 | GPL570 |
|
INA-6 (after Co-Culture with BMSCs)_replicate1
|
INA-6 cells after co-culture with HS-5 BMSCs
|
cell line: multiple myeloma (MM) cell line INA-6
culture conditions of tumor cells (growth protocol): co-cultured with BMSCs
|
n/a
|
| Sample_geo_accession | GSM516943
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516943/suppl/GSM516943.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
|
GSM516944 | GPL570 |
|
INA-6 (after Co-Culture with BMSCs)_replicate2
|
INA-6 cells after co-culture with HS-5 BMSCs
|
cell line: multiple myeloma (MM) cell line INA-6
culture conditions of tumor cells (growth protocol): co-cultured with BMSCs
|
n/a
|
| Sample_geo_accession | GSM516944
| | Sample_status | Public on Mar 14 2010
| | Sample_submission_date | Mar 01 2010
| | Sample_last_update_date | Mar 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Human multiple myeloma (MM) cell lines (MM.1S, MM.1R, INA-6) stably expressing green fluorescent protein (GFP) were cultured in vitro either alone or in the presence of the human bone marrow stromal cell line HS-5 (ie, BMSCs) for 24hrs. Fluorescence activated cell sorting was used to separate the GFP+ MM cells from GFP- stromal cells. The gene expression profiles of MM cells after their co-culture with stromal cells were compared with the profiles of MM cells cultured alone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, ~5 microg of cRNA were hybridized for 16 hr at 45C on Human Genome 133 plus2 Array. GeneChips were washed and stained in an Affymetrix Fluidics Station.
| | Sample_scan_protocol | Standard Affymetrix Scanner protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings; CEL files were generated. CEL files processed/normalized using DNA-Chip Analyzer (dChip) to generate probeset-level signal intensity data..
| | Sample_platform_id | GPL570
| | Sample_contact_name | Constantine,S.,Mitsiades
| | Sample_contact_email | Constantine_Mitsiades@dfci.harvard.edu
| | Sample_contact_phone | 617-632-1962
| | Sample_contact_fax | 617-812-7701
| | Sample_contact_department | Medical Oncology
| | Sample_contact_institute | Dana-Farber Cancer Institute
| | Sample_contact_address | 44 Binney Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02115
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516944/suppl/GSM516944.CEL.gz
| | Sample_series_id | GSE20540
| | Sample_data_row_count | 54675
| | |
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