Search results for the GEO ID: GSE6699  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM154551 | GPL341 |
|
Perirenal young 1
|
isolated preadipocytes from perirenal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 3 months
preadipocyte source: perirenal fat depot
animal number: young rat 1
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154551
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154551/suppl/GSM154551.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154552 | GPL341 |
|
Perirenal young 2
|
isolated preadipocytes from perirenal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 3 months
preadipocyte source: perirenal fat depot
animal number: young rat 2
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154552
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154552/suppl/GSM154552.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154553 | GPL341 |
|
Perirenal young 3
|
isolated preadipocytes from perirenal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 3 months
preadipocyte source: perirenal fat depot
animal number: young rat 3
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154553
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154553/suppl/GSM154553.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154554 | GPL341 |
|
Perirenal old 1
|
isolated preadipocytes from perirenal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 30 months
preadipocyte source: perirenal fat depot
animal number: old rat 1
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154554
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154554/suppl/GSM154554.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154555 | GPL341 |
|
Perirenal old 2
|
isolated preadipocytes from perirenal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 30 months
preadipocyte source: perirenal fat depot
animal number: old rat 2
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154555
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154555/suppl/GSM154555.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154556 | GPL341 |
|
Perirenal old 3
|
isolated preadipocytes from perirenal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 30 months
preadipocyte source: perirenal fat depot
animal number: old rat 3
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154556
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154556/suppl/GSM154556.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154557 | GPL341 |
|
Epididymal old 1
|
isolated preadipocytes from epididymal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 30 months
preadipocyte source: epididymal fat depot
animal number: old rat 1
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154557
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154557/suppl/GSM154557.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154558 | GPL341 |
|
Epididymal old 2
|
isolated preadipocytes from epididymal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 30 months
preadipocyte source: epididymal fat depot
animal number: old rat 2
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154558
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154558/suppl/GSM154558.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154559 | GPL341 |
|
Epididymal old 3
|
isolated preadipocytes from epididymal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 30 months
preadipocyte source: epididymal fat depot
animal number: old rat 3
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154559
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154559/suppl/GSM154559.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154560 | GPL341 |
|
Epididymal young 1
|
isolated preadipocytes from epididymal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 3 months
preadipocyte source: epididymal fat depot
animal number: young rat 1
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154560
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154560/suppl/GSM154560.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154561 | GPL341 |
|
Epididymal young 2
|
isolated preadipocytes from epididymal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 3 months
preadipocyte source: epididymal fat depot
animal number: young rat 2
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154561
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154561/suppl/GSM154561.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
|
GSM154562 | GPL341 |
|
Epididymal young 3
|
isolated preadipocytes from epididymal fat depot
|
Strain: Brown Norway Rats, barrier reared, specific pathogen free
Gender: male
age of rat: 3 months
preadipocyte source: epididymal fat depot
animal number: young rat 3
|
Separate groups of animals were used for each experiment. All experiments were conducted in parallel and animals were autopsied to exclude gross pathology. Macrophage markers in the preadipocyte cultures did not differ with aging or among depots.
|
| Sample_geo_accession | GSM154562
| | Sample_status | Public on Jan 09 2008
| | Sample_submission_date | Jan 10 2007
| | Sample_last_update_date | Jan 10 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_growth_protocol_ch1 | Fat depots were minced, digested in collagenase solution (1mg/ml HBSS per 3ml/g of tissue), filtered and centrifuged (10 minutes @ 12,000 rpm). Pellet was resuspended in alphaMEM-10%FBS and plated for 20 hours. Cells were trypsinized until 90% of cells lifted, replated at 4X10^4 cells/cm2 and cultured to confluence for RNA extraction.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from preadipocytes by the TRIzol method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Using a poly-dT primer incorporating a T7 promoter, double-stranded cDNA was synthesized from 10 micrograms total RNA using a cDNA synthesis kit (SuperScript double-stranded cDNA synthesis kit; Invitrogen, Carlsbad, CA). Biotin-labeled cRNA was generated from the double-stranded cDNA template through in-vitro transcription with T7 polymerase using an RNA transcript labeling kit (Enzo Diagnostics, Farmingdale, NY). The biotinylated cRNA was purified using RNeasy affinity columns (Qiagen, Valencia, MD).
| | Sample_hyb_protocol | For each GeneChip, 20 micrograms of the labeled product was fragmented in 40 mM Tris-acetate, pH 8.1, 100mM KOAc, 30mM MgOAc, for 35 minutes at 94 degrees-Celsius, to an average size of 35 to 200 bases. 10 micrograms of this fragmented, biotinylated cRNA, along with hybridization controls supplied by the manufacturer (Affymetrix), were hybridized to the arrays for 16 hours at 45 degrees-Celsius and 60 rpm. Arrays were washed and stained according to the standard Antibody Amplification for Eukaryotic Targets protocol (Affymetrix).
| | Sample_scan_protocol | The stained GeneChip arrays were scanned at 488 nm using an Affymetrix Gene Chip Scanner 3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing = MAS5.0, target intensity | 500
| | Sample_platform_id | GPL341
| | Sample_contact_name | Marc,E.,Lenburg
| | Sample_contact_email | mlenburg@bu.edu
| | Sample_contact_phone | 617-414-1375
| | Sample_contact_fax | 617-414-1646
| | Sample_contact_department | Genetics and Genomics
| | Sample_contact_institute | Boston University School of Medicine
| | Sample_contact_address | 715 Albany Street, E613B
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02130
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://gg.bu.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM154nnn/GSM154562/suppl/GSM154562.CEL.gz
| | Sample_series_id | GSE6699
| | Sample_data_row_count | 15923
| | |
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Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
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