Search results for the GEO ID: GSE25179  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM618391 | GPL1261 |
|
rtTA_d7_-Dox_rep_1
|
rtTA day 7 -Dox
|
cell line: rtTA
differentiation: 7 days
treatment: -Dox
|
|
| Sample_geo_accession | GSM618391
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618391/suppl/GSM618391.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618392 | GPL1261 |
|
rtTA_d7_-Dox_rep_2
|
rtTA day 7 -Dox
|
cell line: rtTA
differentiation: 7 days
treatment: -Dox
|
|
| Sample_geo_accession | GSM618392
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618392/suppl/GSM618392.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618393 | GPL1261 |
|
rtTA_d7_+Dox_rep_1
|
rtTA day 7 +Dox
|
cell line: rtTA
differentiation: 7 days
treatment: +Dox
|
|
| Sample_geo_accession | GSM618393
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618393/suppl/GSM618393.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618394 | GPL1261 |
|
rtTA_d7_+Dox_rep_2
|
rtTA day 7 +Dox
|
cell line: rtTA
differentiation: 7 days
treatment: +Dox
|
|
| Sample_geo_accession | GSM618394
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618394/suppl/GSM618394.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618395 | GPL1261 |
|
rtTA-Dmrt5_d7_-Dox_rep_1
|
rtTA-Dmrt5 day 7 -Dox
|
cell line: rtTA-Dmrt5
differentiation: 7 days
treatment: -Dox
|
|
| Sample_geo_accession | GSM618395
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618395/suppl/GSM618395.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618396 | GPL1261 |
|
rtTA-Dmrt5_d7_-Dox_rep_2
|
rtTA-Dmrt5 day 7 -Dox
|
cell line: rtTA-Dmrt5
differentiation: 7 days
treatment: -Dox
|
|
| Sample_geo_accession | GSM618396
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618396/suppl/GSM618396.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618397 | GPL1261 |
|
rtTA-Dmrt5_d7_+Dox_rep_1
|
rtTA-Dmrt5 day 7 +Dox
|
cell line: rtTA-Dmrt5
differentiation: 7 days
treatment: +Dox
|
|
| Sample_geo_accession | GSM618397
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618397/suppl/GSM618397.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618398 | GPL1261 |
|
rtTA-Dmrt5_d7_+Dox_rep_2
|
rtTA-Dmrt5 day 7 +Dox
|
cell line: rtTA-Dmrt5
differentiation: 7 days
treatment: +Dox
|
|
| Sample_geo_accession | GSM618398
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618398/suppl/GSM618398.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618399 | GPL1261 |
|
rtTA-Dmrt5_d9_-Dox_rep_1
|
rtTA-Dmrt5 day 9 -Dox
|
cell line: rtTA-Dmrt5
differentiation: 9 days
treatment: -Dox
|
|
| Sample_geo_accession | GSM618399
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618399/suppl/GSM618399.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618400 | GPL1261 |
|
rtTA-Dmrt5_d9_-Dox_rep_2
|
rtTA-Dmrt5 day 9 -Dox
|
cell line: rtTA-Dmrt5
differentiation: 9 days
treatment: -Dox
|
|
| Sample_geo_accession | GSM618400
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618400/suppl/GSM618400.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
| | |
|
GSM618401 | GPL1261 |
|
rtTA-Dmrt5_d9_+Dox_rep_1
|
rtTA-Dmrt5 day 9 +Dox
|
cell line: rtTA-Dmrt5
differentiation: 9 days
treatment: +Dox
|
|
| Sample_geo_accession | GSM618401
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618401/suppl/GSM618401.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
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GSM618402 | GPL1261 |
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rtTA-Dmrt5_d9_+Dox_rep_2
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rtTA-Dmrt5 day 9 +Dox
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cell line: rtTA-Dmrt5
differentiation: 9 days
treatment: +Dox
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| Sample_geo_accession | GSM618402
| | Sample_status | Public on May 18 2011
| | Sample_submission_date | Nov 06 2010
| | Sample_last_update_date | May 18 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared using the Stratagene MicroRNA kit as per manufacturer’s instructions with the exception that DNase treatment was extended to 30 minutes and RNAs were resuspended in RNase-free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 5ng of total RNA in conjunction with the Nugen Ovation V2 amplification system (www.nugeninc.com) was used for preparation of the biotin-labeled cell extract. The efficacy of conversion of total RNA to labeled cDNA was monitored by the inclusion of Affymetrix polyA controls (www.affymetrix.com).
| | Sample_hyb_protocol | 7 ug of biotin-labeled cell extract was hybridized to Affymetrix Mouse Genome 430_2 GeneChips (representing approximately 39,000 transcripts) for a period of 20 hours. The relative level of hybridization to the GeneChip was assessed using the Affymetrix hybridization controls.
| | Sample_scan_protocol | The hybridized arrays were washed, stained and scanned in accordance with the appropriate Nugen and Affymetrix guide lines.
| | Sample_data_processing | Microarray data in CEL format were analysed using GeneSpring GX11 program. Robust Multi-Array Analysis (RMA) Summarization Algorithm was used for normalisation. Baseline was transformed to Median of all samples. Both 'Raw signal values' and 'Normalized signal values' were exported as text files.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Xinsheng,,Nan
| | Sample_contact_email | xinsheng.nan@csc.mrc.ac.uk
| | Sample_contact_laboratory | Stem Cell Neurogenesis
| | Sample_contact_institute | MRC Clinical Science Centre
| | Sample_contact_address | Hammersmith Hospital
| | Sample_contact_city | London
| | Sample_contact_state | England
| | Sample_contact_zip/postal_code | W12 0NN
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM618nnn/GSM618402/suppl/GSM618402.CEL.gz
| | Sample_series_id | GSE25179
| | Sample_data_row_count | 45101
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