Result

Search results for the GEO ID: GSE12881

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM322703

GPL1261

Mammary Gland_WT_rep1

Mammary Gland

FVB/N genetic background. 4-month old virgin female mice were used, mice were kept on a 12-hour light/dark cycle with ad libitum access to chow and water

Gene expression data from WT mouse mammary gland compared to mice deficient for Caveolin-3

Sample_geo_accession	GSM322703
Sample_status	Public on Jan 26 2009
Sample_submission_date	Sep 19 2008
Sample_last_update_date	Jan 26 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Michael P. Liasanti
Sample_treatment_protocol_ch1	No treatment
Sample_growth_protocol_ch1	No specific growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA extracted using Trizol reagent (Invitrogen) as per manufacturers' guidelines.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (5µg of RNeasy purified) was reverse transcribed using Superscript III First-Strand Synthesis System (Invitrogen) using a HPLC purified T7-dT24 primer (Sigma Genosys) which contains the T7 polymerase promoter sequence. The single stranded cDNA was converted to double stranded cDNA using DNA polymerase I (promega) and purified by cDNA spin column purification using GeneChip Sample Cleanup Module (Affymetrix). The double stranded cDNA was used as a template to generate biotinylated cRNA using Bioarray HighYield RNA Transcription Labeling Kit (Enzo) and the labeled cRNA purified by GeneChip Sample Cleanup Module (Affymetrix). 15µg of cRNA was fractionated to produce fragments between 35–200 bp using 5x Fragmentation buffer provided in the Cleanup Module.
Sample_hyb_protocol	The hybridization protocol was followed for single probe array 49 format (standard)/64 format array outlined in genechip expression analysis technical manual provided by Affymetrix. This was also true for washing, staining and scanning procedures.
Sample_scan_protocol	Mouse 430 2.0 chips scanned using Gene chip scanner 3000 with autoloader following Affymetrix guidelines. Image aquired using Gene Chip Operating Sofware version 1.4.
Sample_data_processing	The data were analyzed and normalized by Robust Multi-array Average (RMA) algorithm.
Sample_platform_id	GPL1261
Sample_contact_name	Mathew,,Casimiro
Sample_contact_email	Matthew.Casimiro@mail.jci.tju.edu
Sample_contact_laboratory	Pestell Lab
Sample_contact_department	Cancer Biology
Sample_contact_institute	Thomas Jefferson University
Sample_contact_address	1035 BLSB, 233 South 10th street
Sample_contact_city	Philadelphia
Sample_contact_state	PA
Sample_contact_zip/postal_code	19107
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322703/suppl/GSM322703.CEL.gz
Sample_series_id	GSE12881
Sample_data_row_count	45101

GSM322717

GPL1261

Mammary Gland_WT_rep3

Mammary Gland

FVB/N genetic background. 4-month old virgin female mice were used, mice were kept on a 12-hour light/dark cycle with ad libitum access to chow and water

Gene expression data from WT mouse mammary gland compared to mice deficient for Caveolin-3

Sample_geo_accession	GSM322717
Sample_status	Public on Jan 26 2009
Sample_submission_date	Sep 19 2008
Sample_last_update_date	Jan 26 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Michael P. Liasanti
Sample_treatment_protocol_ch1	No treatment
Sample_growth_protocol_ch1	No specific growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA extracted using Trizol reagent (Invitrogen) as per manufacturers' guidelines.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (5µg of RNeasy purified) was reverse transcribed using Superscript III First-Strand Synthesis System (Invitrogen) using a HPLC purified T7-dT24 primer (Sigma Genosys) which contains the T7 polymerase promoter sequence. The single stranded cDNA was converted to double stranded cDNA using DNA polymerase I (promega) and purified by cDNA spin column purification using GeneChip Sample Cleanup Module (Affymetrix). The double stranded cDNA was used as a template to generate biotinylated cRNA using Bioarray HighYield RNA Transcription Labeling Kit (Enzo) and the labeled cRNA purified by GeneChip Sample Cleanup Module (Affymetrix). 15µg of cRNA was fractionated to produce fragments between 35–200 bp using 5x Fragmentation buffer provided in the Cleanup Module.
Sample_hyb_protocol	The hybridization protocol was followed for single probe array 49 format (standard)/64 format array outlined in genechip expression analysis technical manual provided by Affymetrix. This was also true for washing, staining and scanning procedures.
Sample_scan_protocol	Mouse 430 2.0 chips scanned using Gene chip scanner 3000 with autoloader following Affymetrix guidelines. Image aquired using Gene Chip Operating Sofware version 1.4.
Sample_data_processing	The data were analyzed and normalized by Robust Multi-array Average (RMA) algorithm.
Sample_platform_id	GPL1261
Sample_contact_name	Mathew,,Casimiro
Sample_contact_email	Matthew.Casimiro@mail.jci.tju.edu
Sample_contact_laboratory	Pestell Lab
Sample_contact_department	Cancer Biology
Sample_contact_institute	Thomas Jefferson University
Sample_contact_address	1035 BLSB, 233 South 10th street
Sample_contact_city	Philadelphia
Sample_contact_state	PA
Sample_contact_zip/postal_code	19107
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322717/suppl/GSM322717.CEL.gz
Sample_series_id	GSE12881
Sample_data_row_count	45101

GSM322718

GPL1261

Mammary Gland_WT_rep2

Mammary Gland

FVB/N genetic background. 4-month old virgin female mice were used, mice were kept on a 12-hour light/dark cycle with ad libitum access to chow and water

Gene expression data from WT mouse mammary gland compared to mice deficient for Caveolin-3

Sample_geo_accession	GSM322718
Sample_status	Public on Jan 26 2009
Sample_submission_date	Sep 19 2008
Sample_last_update_date	Jan 26 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Michael P. Liasanti
Sample_treatment_protocol_ch1	No treatment
Sample_growth_protocol_ch1	No specific growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA extracted using Trizol reagent (Invitrogen) as per manufacturers' guidelines.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (5µg of RNeasy purified) was reverse transcribed using Superscript III First-Strand Synthesis System (Invitrogen) using a HPLC purified T7-dT24 primer (Sigma Genosys) which contains the T7 polymerase promoter sequence. The single stranded cDNA was converted to double stranded cDNA using DNA polymerase I (promega) and purified by cDNA spin column purification using GeneChip Sample Cleanup Module (Affymetrix). The double stranded cDNA was used as a template to generate biotinylated cRNA using Bioarray HighYield RNA Transcription Labeling Kit (Enzo) and the labeled cRNA purified by GeneChip Sample Cleanup Module (Affymetrix). 15µg of cRNA was fractionated to produce fragments between 35–200 bp using 5x Fragmentation buffer provided in the Cleanup Module.
Sample_hyb_protocol	The hybridization protocol was followed for single probe array 49 format (standard)/64 format array outlined in genechip expression analysis technical manual provided by Affymetrix. This was also true for washing, staining and scanning procedures.
Sample_scan_protocol	Mouse 430 2.0 chips scanned using Gene chip scanner 3000 with autoloader following Affymetrix guidelines. Image aquired using Gene Chip Operating Sofware version 1.4.
Sample_data_processing	The data were analyzed and normalized by Robust Multi-array Average (RMA) algorithm.
Sample_platform_id	GPL1261
Sample_contact_name	Mathew,,Casimiro
Sample_contact_email	Matthew.Casimiro@mail.jci.tju.edu
Sample_contact_laboratory	Pestell Lab
Sample_contact_department	Cancer Biology
Sample_contact_institute	Thomas Jefferson University
Sample_contact_address	1035 BLSB, 233 South 10th street
Sample_contact_city	Philadelphia
Sample_contact_state	PA
Sample_contact_zip/postal_code	19107
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322718/suppl/GSM322718.CEL.gz
Sample_series_id	GSE12881
Sample_data_row_count	45101

GSM322719

GPL1261

Mammary Gland_Cav-3KO_rep1

Mammary Gland

FVB/N genetic background. 4-month old virgin female mice were used, mice were kept on a 12-hour light/dark cycle with ad libitum access to chow and water

Gene expression data from WT mouse mammary gland compared to mice deficient for Caveolin-3

Sample_geo_accession	GSM322719
Sample_status	Public on Jan 26 2009
Sample_submission_date	Sep 19 2008
Sample_last_update_date	Jan 26 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Michael P. Liasanti
Sample_treatment_protocol_ch1	No treatment
Sample_growth_protocol_ch1	No specific growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA extracted using Trizol reagent (Invitrogen) as per manufacturers' guidelines.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (5µg of RNeasy purified) was reverse transcribed using Superscript III First-Strand Synthesis System (Invitrogen) using a HPLC purified T7-dT24 primer (Sigma Genosys) which contains the T7 polymerase promoter sequence. The single stranded cDNA was converted to double stranded cDNA using DNA polymerase I (promega) and purified by cDNA spin column purification using GeneChip Sample Cleanup Module (Affymetrix). The double stranded cDNA was used as a template to generate biotinylated cRNA using Bioarray HighYield RNA Transcription Labeling Kit (Enzo) and the labeled cRNA purified by GeneChip Sample Cleanup Module (Affymetrix). 15µg of cRNA was fractionated to produce fragments between 35–200 bp using 5x Fragmentation buffer provided in the Cleanup Module.
Sample_hyb_protocol	The hybridization protocol was followed for single probe array 49 format (standard)/64 format array outlined in genechip expression analysis technical manual provided by Affymetrix. This was also true for washing, staining and scanning procedures.
Sample_scan_protocol	Mouse 430 2.0 chips scanned using Gene chip scanner 3000 with autoloader following Affymetrix guidelines. Image aquired using Gene Chip Operating Sofware version 1.4.
Sample_data_processing	The data were analyzed and normalized by Robust Multi-array Average (RMA) algorithm.
Sample_platform_id	GPL1261
Sample_contact_name	Mathew,,Casimiro
Sample_contact_email	Matthew.Casimiro@mail.jci.tju.edu
Sample_contact_laboratory	Pestell Lab
Sample_contact_department	Cancer Biology
Sample_contact_institute	Thomas Jefferson University
Sample_contact_address	1035 BLSB, 233 South 10th street
Sample_contact_city	Philadelphia
Sample_contact_state	PA
Sample_contact_zip/postal_code	19107
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322719/suppl/GSM322719.CEL.gz
Sample_series_id	GSE12881
Sample_data_row_count	45101

GSM322721

GPL1261

Mammary Gland_Cav-3KO_rep2

Mammary Gland

FVB/N genetic background. 4-month old virgin female mice were used, mice were kept on a 12-hour light/dark cycle with ad libitum access to chow and water

Gene expression data from WT mouse mammary gland compared to mice deficient for Caveolin-3

Sample_geo_accession	GSM322721
Sample_status	Public on Jan 26 2009
Sample_submission_date	Sep 19 2008
Sample_last_update_date	Jan 26 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Michael P. Liasanti
Sample_treatment_protocol_ch1	No treatment
Sample_growth_protocol_ch1	No specific growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA extracted using Trizol reagent (Invitrogen) as per manufacturers' guidelines.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (5µg of RNeasy purified) was reverse transcribed using Superscript III First-Strand Synthesis System (Invitrogen) using a HPLC purified T7-dT24 primer (Sigma Genosys) which contains the T7 polymerase promoter sequence. The single stranded cDNA was converted to double stranded cDNA using DNA polymerase I (promega) and purified by cDNA spin column purification using GeneChip Sample Cleanup Module (Affymetrix). The double stranded cDNA was used as a template to generate biotinylated cRNA using Bioarray HighYield RNA Transcription Labeling Kit (Enzo) and the labeled cRNA purified by GeneChip Sample Cleanup Module (Affymetrix). 15µg of cRNA was fractionated to produce fragments between 35–200 bp using 5x Fragmentation buffer provided in the Cleanup Module.
Sample_hyb_protocol	The hybridization protocol was followed for single probe array 49 format (standard)/64 format array outlined in genechip expression analysis technical manual provided by Affymetrix. This was also true for washing, staining and scanning procedures.
Sample_scan_protocol	Mouse 430 2.0 chips scanned using Gene chip scanner 3000 with autoloader following Affymetrix guidelines. Image aquired using Gene Chip Operating Sofware version 1.4.
Sample_data_processing	The data were analyzed and normalized by Robust Multi-array Average (RMA) algorithm.
Sample_platform_id	GPL1261
Sample_contact_name	Mathew,,Casimiro
Sample_contact_email	Matthew.Casimiro@mail.jci.tju.edu
Sample_contact_laboratory	Pestell Lab
Sample_contact_department	Cancer Biology
Sample_contact_institute	Thomas Jefferson University
Sample_contact_address	1035 BLSB, 233 South 10th street
Sample_contact_city	Philadelphia
Sample_contact_state	PA
Sample_contact_zip/postal_code	19107
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322721/suppl/GSM322721.CEL.gz
Sample_series_id	GSE12881
Sample_data_row_count	45101

GSM322722

GPL1261

Mammary Gland_Cav-3KO_rep3

Mammary Gland

FVB/N genetic background. 4-month old virgin female mice were used, mice were kept on a 12-hour light/dark cycle with ad libitum access to chow and water

Gene expression data from WT mouse mammary gland compared to mice deficient for Caveolin-3

Sample_geo_accession	GSM322722
Sample_status	Public on Jan 26 2009
Sample_submission_date	Sep 19 2008
Sample_last_update_date	Jan 26 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Michael P. Liasanti
Sample_treatment_protocol_ch1	No treatment
Sample_growth_protocol_ch1	No specific growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA extracted using Trizol reagent (Invitrogen) as per manufacturers' guidelines.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (5µg of RNeasy purified) was reverse transcribed using Superscript III First-Strand Synthesis System (Invitrogen) using a HPLC purified T7-dT24 primer (Sigma Genosys) which contains the T7 polymerase promoter sequence. The single stranded cDNA was converted to double stranded cDNA using DNA polymerase I (promega) and purified by cDNA spin column purification using GeneChip Sample Cleanup Module (Affymetrix). The double stranded cDNA was used as a template to generate biotinylated cRNA using Bioarray HighYield RNA Transcription Labeling Kit (Enzo) and the labeled cRNA purified by GeneChip Sample Cleanup Module (Affymetrix). 15µg of cRNA was fractionated to produce fragments between 35–200 bp using 5x Fragmentation buffer provided in the Cleanup Module.
Sample_hyb_protocol	The hybridization protocol was followed for single probe array 49 format (standard)/64 format array outlined in genechip expression analysis technical manual provided by Affymetrix. This was also true for washing, staining and scanning procedures.
Sample_scan_protocol	Mouse 430 2.0 chips scanned using Gene chip scanner 3000 with autoloader following Affymetrix guidelines. Image aquired using Gene Chip Operating Sofware version 1.4.
Sample_data_processing	The data were analyzed and normalized by Robust Multi-array Average (RMA) algorithm.
Sample_platform_id	GPL1261
Sample_contact_name	Mathew,,Casimiro
Sample_contact_email	Matthew.Casimiro@mail.jci.tju.edu
Sample_contact_laboratory	Pestell Lab
Sample_contact_department	Cancer Biology
Sample_contact_institute	Thomas Jefferson University
Sample_contact_address	1035 BLSB, 233 South 10th street
Sample_contact_city	Philadelphia
Sample_contact_state	PA
Sample_contact_zip/postal_code	19107
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322722/suppl/GSM322722.CEL.gz
Sample_series_id	GSE12881
Sample_data_row_count	45101

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