Search results for the GEO ID: GSE16219  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM407316 | GPL570 |
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Control-1 (HuT-102 cells + vector only)
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Human cutaneous T cell lymphoma HuT-102 cells, vector control
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cell line: HuT-102
cell type: human cutaneous T cell lymphoma cells
transfection vector: shRNA expression vector against Luc
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HuT-102 cells, a human cutaneous T cell lymphoma, were stably transfected with shRNA expression vectors against human MAP3K7 (TAK1) or firefly luciferase (Luc). HuT-102 cells stably transfected with pSUPER-gfp+neo (firefly luciferase) served as a control. HuT-102 cells stably transfected with pSUPER-gfp+neo (human MAP3K7) were server as shRNA-TAK1. The cells were maintained in media containing 0.5 mg/ml G418. For the experiment, the cells were incubated in media without G418 for 36 h at 37°C.
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| Sample_geo_accession | GSM407316
| | Sample_status | Public on Aug 18 2009
| | Sample_submission_date | May 24 2009
| | Sample_last_update_date | Aug 17 2009
| | 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 | Total RNA was extracted from the cells using an RNeasy Total RNA Extraction Kit (Qiagen K. K., Tokyo, Japan). Then, RNA samples were treated with RNase-free DNase.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg of total RNA was used to synthesize double-strand cDNA with a GeneChip® Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (Affymetrix). Biotin-labeled cRNA was then synthesized from the cDNA using GeneChip® Expression 3’-Amplification Reagents for IVT Labeling (Affymetrix).
| | Sample_hyb_protocol | After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed, and stained with streptavidin-phycoerythrin.
| | Sample_scan_protocol | The arrays were scanned with a probe array scanner (Affymetrix).
| | Sample_data_processing | GeneChip Analysis Suite
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yoshiaki,,Tabuchi
| | Sample_contact_email | ytabu@cts.u-toyama.ac.jp
| | Sample_contact_laboratory | Division of Molecular Genetics Research
| | Sample_contact_department | Life Science Research Center
| | Sample_contact_institute | University of Toyama
| | Sample_contact_address | 2630 Sugitani
| | Sample_contact_city | Toyama
| | Sample_contact_state | Toyama
| | Sample_contact_zip/postal_code | 930-0194
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM407nnn/GSM407316/suppl/GSM407316.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM407nnn/GSM407316/suppl/GSM407316.CHP.gz
| | Sample_series_id | GSE16219
| | Sample_data_row_count | 54675
| | |
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GSM407317 | GPL570 |
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Control-2 (HuT-102 cells + vector only)
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Human cutaneous T cell lymphoma HuT-102 cells, vector control
|
cell line: HuT-102
cell type: human cutaneous T cell lymphoma cells
transfection vector: shRNA expression vector against Luc
|
HuT-102 cells, a human cutaneous T cell lymphoma, were stably transfected with shRNA expression vectors against human MAP3K7 (TAK1) or firefly luciferase (Luc). HuT-102 cells stably transfected with pSUPER-gfp+neo (firefly luciferase) served as a control. HuT-102 cells stably transfected with pSUPER-gfp+neo (human MAP3K7) were server as shRNA-TAK1. The cells were maintained in media containing 0.5 mg/ml G418. For the experiment, the cells were incubated in media without G418 for 36 h at 37°C.
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| Sample_geo_accession | GSM407317
| | Sample_status | Public on Aug 18 2009
| | Sample_submission_date | May 24 2009
| | Sample_last_update_date | Aug 17 2009
| | 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 | Total RNA was extracted from the cells using an RNeasy Total RNA Extraction Kit (Qiagen K. K., Tokyo, Japan). Then, RNA samples were treated with RNase-free DNase.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg of total RNA was used to synthesize double-strand cDNA with a GeneChip® Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (Affymetrix). Biotin-labeled cRNA was then synthesized from the cDNA using GeneChip® Expression 3’-Amplification Reagents for IVT Labeling (Affymetrix).
| | Sample_hyb_protocol | After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed, and stained with streptavidin-phycoerythrin.
| | Sample_scan_protocol | The arrays were scanned with a probe array scanner (Affymetrix).
| | Sample_data_processing | GeneChip Analysis Suite
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yoshiaki,,Tabuchi
| | Sample_contact_email | ytabu@cts.u-toyama.ac.jp
| | Sample_contact_laboratory | Division of Molecular Genetics Research
| | Sample_contact_department | Life Science Research Center
| | Sample_contact_institute | University of Toyama
| | Sample_contact_address | 2630 Sugitani
| | Sample_contact_city | Toyama
| | Sample_contact_state | Toyama
| | Sample_contact_zip/postal_code | 930-0194
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM407nnn/GSM407317/suppl/GSM407317.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM407nnn/GSM407317/suppl/GSM407317.CHP.gz
| | Sample_series_id | GSE16219
| | Sample_data_row_count | 54675
| | |
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GSM407318 | GPL570 |
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shRNA-TAK1-1 (HuT-102 cells + shRNA-TAK1)
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Human cutaneous T cell lymphoma HuT-102 cells, shRNA-TAK1
|
cell line: HuT-102
cell type: human cutaneous T cell lymphoma cells
transfection vector: shRNA expression vector against TAK1
|
HuT-102 cells, a human cutaneous T cell lymphoma, were stably transfected with shRNA expression vectors against human MAP3K7 (TAK1) or firefly luciferase (Luc). HuT-102 cells stably transfected with pSUPER-gfp+neo (firefly luciferase) served as a control. HuT-102 cells stably transfected with pSUPER-gfp+neo (human MAP3K7) were server as shRNA-TAK1. The cells were maintained in media containing 0.5 mg/ml G418. For the experiment, the cells were incubated in media without G418 for 36 h at 37°C.
|
| Sample_geo_accession | GSM407318
| | Sample_status | Public on Aug 18 2009
| | Sample_submission_date | May 24 2009
| | Sample_last_update_date | Aug 17 2009
| | 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 | Total RNA was extracted from the cells using an RNeasy Total RNA Extraction Kit (Qiagen K. K., Tokyo, Japan). Then, RNA samples were treated with RNase-free DNase.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg of total RNA was used to synthesize double-strand cDNA with a GeneChip® Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (Affymetrix). Biotin-labeled cRNA was then synthesized from the cDNA using GeneChip® Expression 3’-Amplification Reagents for IVT Labeling (Affymetrix).
| | Sample_hyb_protocol | After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed, and stained with streptavidin-phycoerythrin.
| | Sample_scan_protocol | The arrays were scanned with a probe array scanner (Affymetrix).
| | Sample_data_processing | GeneChip Analysis Suite
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yoshiaki,,Tabuchi
| | Sample_contact_email | ytabu@cts.u-toyama.ac.jp
| | Sample_contact_laboratory | Division of Molecular Genetics Research
| | Sample_contact_department | Life Science Research Center
| | Sample_contact_institute | University of Toyama
| | Sample_contact_address | 2630 Sugitani
| | Sample_contact_city | Toyama
| | Sample_contact_state | Toyama
| | Sample_contact_zip/postal_code | 930-0194
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM407nnn/GSM407318/suppl/GSM407318.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM407nnn/GSM407318/suppl/GSM407318.CHP.gz
| | Sample_series_id | GSE16219
| | Sample_data_row_count | 54675
| | |
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GSM407319 | GPL570 |
|
shRNA-TAK1-2 (HuT-102 cells + shRNA-TAK1)
|
Human cutaneous T cell lymphoma HuT-102 cells, shRNA-TAK1
|
cell line: HuT-102
cell type: human cutaneous T cell lymphoma cells
transfection vector: shRNA expression vector against TAK1
|
HuT-102 cells, a human cutaneous T cell lymphoma, were stably transfected with shRNA expression vectors against human MAP3K7 (TAK1) or firefly luciferase (Luc). HuT-102 cells stably transfected with pSUPER-gfp+neo (firefly luciferase) served as a control. HuT-102 cells stably transfected with pSUPER-gfp+neo (human MAP3K7) were server as shRNA-TAK1. The cells were maintained in media containing 0.5 mg/ml G418. For the experiment, the cells were incubated in media without G418 for 36 h at 37°C.
|
| Sample_geo_accession | GSM407319
| | Sample_status | Public on Aug 18 2009
| | Sample_submission_date | May 24 2009
| | Sample_last_update_date | Aug 17 2009
| | 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 | Total RNA was extracted from the cells using an RNeasy Total RNA Extraction Kit (Qiagen K. K., Tokyo, Japan). Then, RNA samples were treated with RNase-free DNase.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5 μg of total RNA was used to synthesize double-strand cDNA with a GeneChip® Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (Affymetrix). Biotin-labeled cRNA was then synthesized from the cDNA using GeneChip® Expression 3’-Amplification Reagents for IVT Labeling (Affymetrix).
| | Sample_hyb_protocol | After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed, and stained with streptavidin-phycoerythrin.
| | Sample_scan_protocol | The arrays were scanned with a probe array scanner (Affymetrix).
| | Sample_data_processing | GeneChip Analysis Suite
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yoshiaki,,Tabuchi
| | Sample_contact_email | ytabu@cts.u-toyama.ac.jp
| | Sample_contact_laboratory | Division of Molecular Genetics Research
| | Sample_contact_department | Life Science Research Center
| | Sample_contact_institute | University of Toyama
| | Sample_contact_address | 2630 Sugitani
| | Sample_contact_city | Toyama
| | Sample_contact_state | Toyama
| | Sample_contact_zip/postal_code | 930-0194
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM407nnn/GSM407319/suppl/GSM407319.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM407nnn/GSM407319/suppl/GSM407319.CHP.gz
| | Sample_series_id | GSE16219
| | Sample_data_row_count | 54675
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