Search results for the GEO ID: GSE7836  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM190145 | GPL85 |
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REF52neo, bio rep 1
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REF52neo1, 2 day post-confluence
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REF52 cells stably expressing neo gene (Clone 1)
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Center for Applied Genomics (Newark, NJ)
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| Sample_geo_accession | GSM190145
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 17 2007
| | Sample_last_update_date | May 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Cells were grown to confluence and fed with fresh medium. After two days, cells were harvested with trypsin, washed 3X with PBS-EDTA and cell pellet was frozen until RNA isolation.
| | Sample_growth_protocol_ch1 | MEM + 10% Fetal Bovine Serum + 400ug/ml G418 + Penn/Strep
| | Sample_molecule_ch1 | polyA RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Ultraspec II RNA reagent (Biotex). Poly-A+ RNA was isolated from the total RNA using the Oligotex kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix labeling protocol done by a Core Facility
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol done by a Core Facility
| | Sample_scan_protocol | Standard Affymetrix scan protocol done by a Core Facility
| | Sample_data_processing = Microarray Suite Version 5.0 (MAS 5.0) generated .CEL files were converted into RMA expression values using the BRB-Array Tools software (an Excel plug-in developed by Richard Simon at NCI - http://linus.nci.nih.gov/BRB-ArrayTools.html). Affymetrix Present/Absent calls and intensity values were calculated with MAS 5.0 using Affymetrix default analysis settings and global scaling with target signal | 500 as the normalization method.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Paul,,Cantalupo
| | Sample_contact_email | pcantalupo@gmail.com
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 559 Crawford Hall
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15260
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM190nnn/GSM190145/suppl/GSM190145.CEL.gz
| | Sample_series_id | GSE7836
| | Sample_series_id | GSE7906
| | Sample_data_row_count | 8799
| | |
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GSM190146 | GPL85 |
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REF52neo, bio rep 2
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REF52neo2, 2 day post-confluence
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REF52 cells stably expressing neo gene (Clone 2)
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Center for Applied Genomics (Newark, NJ)
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| Sample_geo_accession | GSM190146
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 17 2007
| | Sample_last_update_date | May 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Cells were grown to confluence and fed with fresh medium. After two days, cells were harvested with trypsin, washed 3X with PBS-EDTA and cell pellet was frozen until RNA isolation.
| | Sample_growth_protocol_ch1 | MEM + 10% Fetal Bovine Serum + 400ug/ml G418 + Penn/Strep
| | Sample_molecule_ch1 | polyA RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Ultraspec II RNA reagent (Biotex). Poly-A+ RNA was isolated from the total RNA using the Oligotex kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix labeling protocol done by a Core Facility
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol done by a Core Facility
| | Sample_scan_protocol | Standard Affymetrix scan protocol done by a Core Facility
| | Sample_data_processing = Microarray Suite Version 5.0 (MAS 5.0) generated .CEL files were converted into RMA expression values using the BRB-Array Tools software (an Excel plug-in developed by Richard Simon at NCI - http://linus.nci.nih.gov/BRB-ArrayTools.html). Affymetrix Present/Absent calls and intensity values were calculated with MAS 5.0 using Affymetrix default analysis settings and global scaling with target signal | 500 as the normalization method.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Paul,,Cantalupo
| | Sample_contact_email | pcantalupo@gmail.com
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 559 Crawford Hall
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15260
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM190nnn/GSM190146/suppl/GSM190146.CEL.gz
| | Sample_series_id | GSE7836
| | Sample_series_id | GSE7906
| | Sample_data_row_count | 8799
| | |
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GSM190147 | GPL85 |
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REF52neoTAg, bio rep 1
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REF52neoTAg2, 2 day post-confluence
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REF52neo cells stably expressing SV40 Large T antigen gene (Clone 2)
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Center for Applied Genomics (Newark, NJ)
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| Sample_geo_accession | GSM190147
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 17 2007
| | Sample_last_update_date | May 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Cells were grown to confluence and fed with fresh medium. After two days, cells were harvested with trypsin, washed 3X with PBS-EDTA and cell pellet was frozen until RNA isolation.
| | Sample_growth_protocol_ch1 | MEM + 10% Fetal Bovine Serum + 400ug/ml G418 + Penn/Strep
| | Sample_molecule_ch1 | polyA RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Ultraspec II RNA reagent (Biotex). Poly-A+ RNA was isolated from the total RNA using the Oligotex kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix labeling protocol done by a Core Facility
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol done by a Core Facility
| | Sample_scan_protocol | Standard Affymetrix scan protocol done by a Core Facility
| | Sample_data_processing = Microarray Suite Version 5.0 (MAS 5.0) generated .CEL files were converted into RMA expression values using the BRB-Array Tools software (an Excel plug-in developed by Richard Simon at NCI - http://linus.nci.nih.gov/BRB-ArrayTools.html). Affymetrix Present/Absent calls and intensity values were calculated with MAS 5.0 using Affymetrix default analysis settings and global scaling with target signal | 500 as the normalization method.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Paul,,Cantalupo
| | Sample_contact_email | pcantalupo@gmail.com
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 559 Crawford Hall
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15260
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM190nnn/GSM190147/suppl/GSM190147.CEL.gz
| | Sample_series_id | GSE7836
| | Sample_series_id | GSE7906
| | Sample_data_row_count | 8799
| | |
|
GSM190157 | GPL85 |
|
REF52neoTAg, bio rep 2
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REF52neoTAg3, 2 day post-confluence
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REF52neo cells stably expressing SV40 Large T antigen gene (Clone 3)
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Center for Applied Genomics (Newark, NJ)
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| Sample_geo_accession | GSM190157
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 17 2007
| | Sample_last_update_date | May 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Cells were grown to confluence and fed with fresh medium. After two days, cells were harvested with trypsin, washed 3X with PBS-EDTA and cell pellet was frozen until RNA isolation.
| | Sample_growth_protocol_ch1 | MEM + 10% Fetal Bovine Serum + 400ug/ml G418 + Penn/Strep
| | Sample_molecule_ch1 | polyA RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Ultraspec II RNA reagent (Biotex). Poly-A+ RNA was isolated from the total RNA using the Oligotex kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix labeling protocol done by a Core Facility
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol done by a Core Facility
| | Sample_scan_protocol | Standard Affymetrix scan protocol done by a Core Facility
| | Sample_data_processing = Microarray Suite Version 5.0 (MAS 5.0) generated .CEL files were converted into RMA expression values using the BRB-Array Tools software (an Excel plug-in developed by Richard Simon at NCI - http://linus.nci.nih.gov/BRB-ArrayTools.html). Affymetrix Present/Absent calls and intensity values were calculated with MAS 5.0 using Affymetrix default analysis settings and global scaling with target signal | 500 as the normalization method.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Paul,,Cantalupo
| | Sample_contact_email | pcantalupo@gmail.com
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 559 Crawford Hall
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15260
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM190nnn/GSM190157/suppl/GSM190157.CEL.gz
| | Sample_series_id | GSE7836
| | Sample_series_id | GSE7906
| | Sample_data_row_count | 8799
| | |
|
GSM190158 | GPL85 |
|
REF52neoTAg, bio rep 3
|
REF52neoTAg8, 2 day post-confluence
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REF52neo cells stably expressing SV40 Large T antigen gene (Clone 8)
|
Genomics and Proteomics Core Laboratories (University of Pittsburgh)
|
| Sample_geo_accession | GSM190158
| | Sample_status | Public on Sep 01 2009
| | Sample_submission_date | May 17 2007
| | Sample_last_update_date | May 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Cells were grown to confluence and fed with fresh medium. After two days, cells were harvested with trypsin, washed 3X with PBS-EDTA and cell pellet was frozen until RNA isolation.
| | Sample_growth_protocol_ch1 | MEM + 10% Fetal Bovine Serum + 400ug/ml G418 + Penn/Strep
| | Sample_molecule_ch1 | polyA RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Ultraspec II RNA reagent (Biotex). Poly-A+ RNA was isolated from the total RNA using the Oligotex kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix labeling protocol done by a Core Facility
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol done by a Core Facility
| | Sample_scan_protocol | Standard Affymetrix scan protocol done by a Core Facility
| | Sample_data_processing = Microarray Suite Version 5.0 (MAS 5.0) generated .CEL files were converted into RMA expression values using the BRB-Array Tools software (an Excel plug-in developed by Richard Simon at NCI - http://linus.nci.nih.gov/BRB-ArrayTools.html). Affymetrix Present/Absent calls and intensity values were calculated with MAS 5.0 using Affymetrix default analysis settings and global scaling with target signal | 500 as the normalization method.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Paul,,Cantalupo
| | Sample_contact_email | pcantalupo@gmail.com
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 559 Crawford Hall
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15260
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM190nnn/GSM190158/suppl/GSM190158.CEL.gz
| | Sample_series_id | GSE7836
| | Sample_series_id | GSE7906
| | Sample_data_row_count | 8799
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