Search results for the GEO ID: GSE17817  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM444490 | GPL1261 |
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NDFs, 4m, biological repetition 1
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NDFs: Normal dermal fibroblasts
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tissue: normal ear
gender: male
strain: FVBn
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NDFs, 4m, biological repetition 1
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| Sample_geo_accession | GSM444490
| | Sample_status | Public on Sep 02 2009
| | Sample_submission_date | Aug 26 2009
| | Sample_last_update_date | Sep 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | PDGFRα+ fibroblasts were sorted by flow cytometry using BD FACSAria cell sorting system from single cell suspensions prepared from ears of fifteen K14-HPV16 mice with visible dysplastic tissue or from ears of fifteen age matched non transgenic FVB/n mice.
| | Sample_growth_protocol_ch1 | Fibroblasts were FACS sorted from single cell suspensions of 4 months old HPV or FVBn mouse ears.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated by the Qiagen RNAeasy Kit and amplified once by the WT-Ovation RNA Amplification Kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared with the WT-Ovation kit (NuGEN) according to the manufacturer's instructions.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cDNA were hybridized for 16 hr at 45C on 430 2.0 Affymetrix mouse genome arrays. . GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner G3000.
| | Sample_data_processing | The data were analyzed with Affymetrix GeneChip Operating System (GCOS)software using Affymetrix default analysis settings and RMA as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Neta,,Erez
| | Sample_contact_email | nerez@diabetes.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 513 Parnassus Ave.
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM444nnn/GSM444490/suppl/GSM444490.CEL.gz
| | Sample_series_id | GSE17817
| | Sample_data_row_count | 45101
| | |
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GSM444491 | GPL1261 |
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NDFs, 4m, biological repetition 2
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NDFs: Normal dermal fibroblasts
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tissue: normal ear
gender: male
strain: FVBn
|
NDFs, 4m, biological repetition 2
|
| Sample_geo_accession | GSM444491
| | Sample_status | Public on Sep 02 2009
| | Sample_submission_date | Aug 26 2009
| | Sample_last_update_date | Sep 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | PDGFRα+ fibroblasts were sorted by flow cytometry using BD FACSAria cell sorting system from single cell suspensions prepared from ears of fifteen K14-HPV16 mice with visible dysplastic tissue or from ears of fifteen age matched non transgenic FVB/n mice.
| | Sample_growth_protocol_ch1 | Fibroblasts were FACS sorted from single cell suspensions of 4 months old HPV or FVBn mouse ears.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated by the Qiagen RNAeasy Kit and amplified once by the WT-Ovation RNA Amplification Kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared with the WT-Ovation kit (NuGEN) according to the manufacturer's instructions.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cDNA were hybridized for 16 hr at 45C on 430 2.0 Affymetrix mouse genome arrays. . GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner G3000.
| | Sample_data_processing | The data were analyzed with Affymetrix GeneChip Operating System (GCOS)software using Affymetrix default analysis settings and RMA as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Neta,,Erez
| | Sample_contact_email | nerez@diabetes.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 513 Parnassus Ave.
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM444nnn/GSM444491/suppl/GSM444491.CEL.gz
| | Sample_series_id | GSE17817
| | Sample_data_row_count | 45101
| | |
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GSM444492 | GPL1261 |
|
NDFs, 4m, biological repetition 3
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NDFs: Normal dermal fibroblasts
|
tissue: normal ear
gender: male
strain: FVBn
|
NDFs, 4m, biological repetition 3
|
| Sample_geo_accession | GSM444492
| | Sample_status | Public on Sep 02 2009
| | Sample_submission_date | Aug 26 2009
| | Sample_last_update_date | Sep 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | PDGFRα+ fibroblasts were sorted by flow cytometry using BD FACSAria cell sorting system from single cell suspensions prepared from ears of fifteen K14-HPV16 mice with visible dysplastic tissue or from ears of fifteen age matched non transgenic FVB/n mice.
| | Sample_growth_protocol_ch1 | Fibroblasts were FACS sorted from single cell suspensions of 4 months old HPV or FVBn mouse ears.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated by the Qiagen RNAeasy Kit and amplified once by the WT-Ovation RNA Amplification Kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared with the WT-Ovation kit (NuGEN) according to the manufacturer's instructions.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cDNA were hybridized for 16 hr at 45C on 430 2.0 Affymetrix mouse genome arrays. . GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner G3000.
| | Sample_data_processing | The data were analyzed with Affymetrix GeneChip Operating System (GCOS)software using Affymetrix default analysis settings and RMA as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Neta,,Erez
| | Sample_contact_email | nerez@diabetes.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 513 Parnassus Ave.
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM444nnn/GSM444492/suppl/GSM444492.CEL.gz
| | Sample_series_id | GSE17817
| | Sample_data_row_count | 45101
| | |
|
GSM444493 | GPL1261 |
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CAFs, 4m, biological repetition 1
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CAFs: Dysplastic skin fibroblasts from HPV16 mice
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tissue: dysplastic ear
gender: male
strain: HPV16
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CAFs, 4m, biological repetition 1
|
| Sample_geo_accession | GSM444493
| | Sample_status | Public on Sep 02 2009
| | Sample_submission_date | Aug 26 2009
| | Sample_last_update_date | Sep 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | PDGFRα+ fibroblasts were sorted by flow cytometry using BD FACSAria cell sorting system from single cell suspensions prepared from ears of fifteen K14-HPV16 mice with visible dysplastic tissue or from ears of fifteen age matched non transgenic FVB/n mice.
| | Sample_growth_protocol_ch1 | Fibroblasts were FACS sorted from single cell suspensions of 4 months old HPV or FVBn mouse ears.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated by the Qiagen RNAeasy Kit and amplified once by the WT-Ovation RNA Amplification Kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared with the WT-Ovation kit (NuGEN) according to the manufacturer's instructions.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cDNA were hybridized for 16 hr at 45C on 430 2.0 Affymetrix mouse genome arrays. . GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner G3000.
| | Sample_data_processing | The data were analyzed with Affymetrix GeneChip Operating System (GCOS)software using Affymetrix default analysis settings and RMA as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Neta,,Erez
| | Sample_contact_email | nerez@diabetes.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 513 Parnassus Ave.
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM444nnn/GSM444493/suppl/GSM444493.CEL.gz
| | Sample_series_id | GSE17817
| | Sample_data_row_count | 45101
| | |
|
GSM444494 | GPL1261 |
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CAFs, 4m, biological repetition 2
|
CAFs: Dysplastic skin fibroblasts from HPV16 mice
|
tissue: dysplastic ear
gender: male
strain: HPV16
|
CAFs, 4m, biological repetition 2
|
| Sample_geo_accession | GSM444494
| | Sample_status | Public on Sep 02 2009
| | Sample_submission_date | Aug 26 2009
| | Sample_last_update_date | Sep 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | PDGFRα+ fibroblasts were sorted by flow cytometry using BD FACSAria cell sorting system from single cell suspensions prepared from ears of fifteen K14-HPV16 mice with visible dysplastic tissue or from ears of fifteen age matched non transgenic FVB/n mice.
| | Sample_growth_protocol_ch1 | Fibroblasts were FACS sorted from single cell suspensions of 4 months old HPV or FVBn mouse ears.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated by the Qiagen RNAeasy Kit and amplified once by the WT-Ovation RNA Amplification Kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared with the WT-Ovation kit (NuGEN) according to the manufacturer's instructions.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cDNA were hybridized for 16 hr at 45C on 430 2.0 Affymetrix mouse genome arrays. . GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner G3000.
| | Sample_data_processing | The data were analyzed with Affymetrix GeneChip Operating System (GCOS)software using Affymetrix default analysis settings and RMA as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Neta,,Erez
| | Sample_contact_email | nerez@diabetes.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 513 Parnassus Ave.
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM444nnn/GSM444494/suppl/GSM444494.CEL.gz
| | Sample_series_id | GSE17817
| | Sample_data_row_count | 45101
| | |
|
GSM444495 | GPL1261 |
|
CAFs, 4m, biological repetition 3
|
CAFs: Dysplastic skin fibroblasts from HPV16 mice
|
tissue: dysplastic ear
gender: male
strain: HPV16
|
CAFs, 4m, biological repetition 3
|
| Sample_geo_accession | GSM444495
| | Sample_status | Public on Sep 02 2009
| | Sample_submission_date | Aug 26 2009
| | Sample_last_update_date | Sep 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | PDGFRα+ fibroblasts were sorted by flow cytometry using BD FACSAria cell sorting system from single cell suspensions prepared from ears of fifteen K14-HPV16 mice with visible dysplastic tissue or from ears of fifteen age matched non transgenic FVB/n mice.
| | Sample_growth_protocol_ch1 | Fibroblasts were FACS sorted from single cell suspensions of 4 months old HPV or FVBn mouse ears.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was isolated by the Qiagen RNAeasy Kit and amplified once by the WT-Ovation RNA Amplification Kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared with the WT-Ovation kit (NuGEN) according to the manufacturer's instructions.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cDNA were hybridized for 16 hr at 45C on 430 2.0 Affymetrix mouse genome arrays. . GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneArray Scanner G3000.
| | Sample_data_processing | The data were analyzed with Affymetrix GeneChip Operating System (GCOS)software using Affymetrix default analysis settings and RMA as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Neta,,Erez
| | Sample_contact_email | nerez@diabetes.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 513 Parnassus Ave.
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM444nnn/GSM444495/suppl/GSM444495.CEL.gz
| | Sample_series_id | GSE17817
| | Sample_data_row_count | 45101
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