Search results for the GEO ID: GSE47874 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1161367 | GPL570 |
|
50672Pre
|
skeletal muscle
|
subject: 50672Pre
age: 52
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_1_50672Pre
|
Sample_geo_accession | GSM1161367
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161367/suppl/GSM1161367_1_50672Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161368 | GPL570 |
|
50673Pre
|
skeletal muscle
|
subject: 50673Pre
age: 28
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_3_50673Pre
|
Sample_geo_accession | GSM1161368
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161368/suppl/GSM1161368_3_50673Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161369 | GPL570 |
|
50701Pre
|
skeletal muscle
|
subject: 50701Pre
age: 50
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_5_50701Pre
|
Sample_geo_accession | GSM1161369
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161369/suppl/GSM1161369_5_50701Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161370 | GPL570 |
|
50702Pre
|
skeletal muscle
|
subject: 50702Pre
age: 50
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_7_50702Pre
|
Sample_geo_accession | GSM1161370
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161370/suppl/GSM1161370_7_50702Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161371 | GPL570 |
|
50704Pre
|
skeletal muscle
|
subject: 50704Pre
age: 27
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_8_50704Pre
|
Sample_geo_accession | GSM1161371
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161371/suppl/GSM1161371_8_50704Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161372 | GPL570 |
|
50902Pre
|
skeletal muscle
|
subject: 50902Pre
age: 55
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_10_50902Pre
|
Sample_geo_accession | GSM1161372
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161372/suppl/GSM1161372_10_50902Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161373 | GPL570 |
|
50903Pre
|
skeletal muscle
|
subject: 50903Pre
age: 36
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_30_50903Pre
|
Sample_geo_accession | GSM1161373
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161373/suppl/GSM1161373_30_50903Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161374 | GPL570 |
|
50904Pre
|
skeletal muscle
|
subject: 50904Pre
age: 34
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_12_50904Pre
|
Sample_geo_accession | GSM1161374
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161374/suppl/GSM1161374_12_50904Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161375 | GPL570 |
|
50905Pre
|
skeletal muscle
|
subject: 50905Pre
age: 30
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_14_50905Pre
|
Sample_geo_accession | GSM1161375
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161375/suppl/GSM1161375_14_50905Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161376 | GPL570 |
|
50921Pre
|
skeletal muscle
|
subject: 50921Pre
age: 47
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_16_50921Pre
|
Sample_geo_accession | GSM1161376
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161376/suppl/GSM1161376_16_50921Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161377 | GPL570 |
|
50924Pre
|
skeletal muscle
|
subject: 50924Pre
age: 23
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_18_50924Pre
|
Sample_geo_accession | GSM1161377
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161377/suppl/GSM1161377_18_50924Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161378 | GPL570 |
|
50925Pre
|
skeletal muscle
|
subject: 50925Pre
age: 17
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_20_50925Pre
|
Sample_geo_accession | GSM1161378
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161378/suppl/GSM1161378_20_50925Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161379 | GPL570 |
|
50926Pre
|
skeletal muscle
|
subject: 50926Pre
age: 21
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_22_50926Pre
|
Sample_geo_accession | GSM1161379
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161379/suppl/GSM1161379_22_50926Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161380 | GPL570 |
|
50953Pre
|
skeletal muscle
|
subject: 50953Pre
age: 24
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_32_50953Pre
|
Sample_geo_accession | GSM1161380
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161380/suppl/GSM1161380_32_50953Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161381 | GPL570 |
|
50954Pre
|
skeletal muscle
|
subject: 50954Pre
age: 19
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_34_50954Pre
|
Sample_geo_accession | GSM1161381
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161381/suppl/GSM1161381_34_50954Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161382 | GPL570 |
|
50955Pre
|
skeletal muscle
|
subject: 50955Pre
age: 17
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_36_50955Pre
|
Sample_geo_accession | GSM1161382
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161382/suppl/GSM1161382_36_50955Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161383 | GPL570 |
|
50961Pre
|
skeletal muscle
|
subject: 50961Pre
age: 44
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_24_50961Pre
|
Sample_geo_accession | GSM1161383
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161383/suppl/GSM1161383_24_50961Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161384 | GPL570 |
|
50963Pre
|
skeletal muscle
|
subject: 50963Pre
age: 21
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_26_50963Pre
|
Sample_geo_accession | GSM1161384
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161384/suppl/GSM1161384_26_50963Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161385 | GPL570 |
|
50966Pre
|
skeletal muscle
|
subject: 50966Pre
age: 17
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_29_50966Pre
|
Sample_geo_accession | GSM1161385
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161385/suppl/GSM1161385_29_50966Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161386 | GPL570 |
|
51201Pre
|
skeletal muscle
|
subject: 51201Pre
age: 50
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_38_51201Pre
|
Sample_geo_accession | GSM1161386
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161386/suppl/GSM1161386_38_51201Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161387 | GPL570 |
|
51204Pre
|
skeletal muscle
|
subject: 51204Pre
age: 18
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_40_51204Pre
|
Sample_geo_accession | GSM1161387
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161387/suppl/GSM1161387_40_51204Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161388 | GPL570 |
|
51221Pre
|
skeletal muscle
|
subject: 51221Pre
age: 49
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_41_51221Pre
|
Sample_geo_accession | GSM1161388
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161388/suppl/GSM1161388_41_51221Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161389 | GPL570 |
|
51222Pre
|
skeletal muscle
|
subject: 51222Pre
age: 48
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_43_51222Pre
|
Sample_geo_accession | GSM1161389
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161389/suppl/GSM1161389_43_51222Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161390 | GPL570 |
|
51223Pre
|
skeletal muscle
|
subject: 51223Pre
age: 24
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_45_51223Pre
|
Sample_geo_accession | GSM1161390
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161390/suppl/GSM1161390_45_51223Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161391 | GPL570 |
|
51241Pre
|
skeletal muscle
|
subject: 51241Pre
age: 53
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_51_51241Pre
|
Sample_geo_accession | GSM1161391
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161391/suppl/GSM1161391_51_51241Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161392 | GPL570 |
|
51242Pre
|
skeletal muscle
|
subject: 51242Pre
age: 50
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_53_51242Pre
|
Sample_geo_accession | GSM1161392
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161392/suppl/GSM1161392_53_51242Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161393 | GPL570 |
|
51243Pre
|
skeletal muscle
|
subject: 51243Pre
age: 26
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_55_51243Pre
|
Sample_geo_accession | GSM1161393
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161393/suppl/GSM1161393_55_51243Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161394 | GPL570 |
|
51244Pre
|
skeletal muscle
|
subject: 51244Pre
age: 24
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_56_51244Pre
|
Sample_geo_accession | GSM1161394
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161394/suppl/GSM1161394_56_51244Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161395 | GPL570 |
|
51461Pre
|
skeletal muscle
|
subject: 51461Pre
age: 48
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_47_51461Pre
|
Sample_geo_accession | GSM1161395
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161395/suppl/GSM1161395_47_51461Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161396 | GPL570 |
|
51463Pre
|
skeletal muscle
|
subject: 51463Pre
age: 22
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_60_51463Pre
|
Sample_geo_accession | GSM1161396
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161396/suppl/GSM1161396_60_51463Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161397 | GPL570 |
|
51464Pre
|
skeletal muscle
|
subject: 51464Pre
age: 20
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_49_51464Pre
|
Sample_geo_accession | GSM1161397
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161397/suppl/GSM1161397_49_51464Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161398 | GPL570 |
|
51465Pre
|
skeletal muscle
|
subject: 51465Pre
age: 17
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_62_51465Pre
|
Sample_geo_accession | GSM1161398
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161398/suppl/GSM1161398_62_51465Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161399 | GPL570 |
|
51483Pre
|
skeletal muscle
|
subject: 51483Pre
age: 23
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_66_51483Pre
|
Sample_geo_accession | GSM1161399
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161399/suppl/GSM1161399_66_51483Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161400 | GPL570 |
|
51484Pre
|
skeletal muscle
|
subject: 51484Pre
age: 20
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_68_51484Pre
|
Sample_geo_accession | GSM1161400
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161400/suppl/GSM1161400_68_51484Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161401 | GPL570 |
|
51545Pre
|
skeletal muscle
|
subject: 51545Pre
age: 18
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_75_51545Pre
|
Sample_geo_accession | GSM1161401
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161401/suppl/GSM1161401_75_51545Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161402 | GPL570 |
|
51571Pre
|
skeletal muscle
|
subject: 51571Pre
age: 62
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_97_51571Pre
|
Sample_geo_accession | GSM1161402
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161402/suppl/GSM1161402_97_51571Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161403 | GPL570 |
|
51573Pre
|
skeletal muscle
|
subject: 51573Pre
age: 37
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_99_51573Pre
|
Sample_geo_accession | GSM1161403
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161403/suppl/GSM1161403_99_51573Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161404 | GPL570 |
|
51574Pre
|
skeletal muscle
|
subject: 51574Pre
age: 36
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_101_51574Pre
|
Sample_geo_accession | GSM1161404
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161404/suppl/GSM1161404_101_51574Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161405 | GPL570 |
|
51575Pre
|
skeletal muscle
|
subject: 51575Pre
age: 33
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_103_51575Pre
|
Sample_geo_accession | GSM1161405
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161405/suppl/GSM1161405_103_51575Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161406 | GPL570 |
|
51576Pre
|
skeletal muscle
|
subject: 51576Pre
age: 24
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_104_51576Pre
|
Sample_geo_accession | GSM1161406
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161406/suppl/GSM1161406_104_51576Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161407 | GPL570 |
|
51681Pre
|
skeletal muscle
|
subject: 51681Pre
age: 50
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_79_51681Pre
|
Sample_geo_accession | GSM1161407
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161407/suppl/GSM1161407_79_51681Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161408 | GPL570 |
|
51684Pre
|
skeletal muscle
|
subject: 51684Pre
age: 19
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_81_51684Pre
|
Sample_geo_accession | GSM1161408
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161408/suppl/GSM1161408_81_51684Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161409 | GPL570 |
|
51685Pre
|
skeletal muscle
|
subject: 51685Pre
age: 18
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_83_51685Pre
|
Sample_geo_accession | GSM1161409
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161409/suppl/GSM1161409_83_51685Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161410 | GPL570 |
|
51686Pre
|
skeletal muscle
|
subject: 51686Pre
age: 18
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_85_51686Pre
|
Sample_geo_accession | GSM1161410
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161410/suppl/GSM1161410_85_51686Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161411 | GPL570 |
|
51721Pre
|
skeletal muscle
|
subject: 51721Pre
age: 52
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_87_51721Pre
|
Sample_geo_accession | GSM1161411
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161411/suppl/GSM1161411_87_51721Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161412 | GPL570 |
|
51725Pre
|
skeletal muscle
|
subject: 51725Pre
age: 20
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_110_51725Pre
|
Sample_geo_accession | GSM1161412
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161412/suppl/GSM1161412_110_51725Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161413 | GPL570 |
|
51745Pre
|
skeletal muscle
|
subject: 51745Pre
age: 20
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_106_51745Pre
|
Sample_geo_accession | GSM1161413
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161413/suppl/GSM1161413_106_51745Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161414 | GPL570 |
|
51746Pre
|
skeletal muscle
|
subject: 51746Pre
age: 19
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_108_51746Pre
|
Sample_geo_accession | GSM1161414
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161414/suppl/GSM1161414_108_51746Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161415 | GPL570 |
|
51761Pre
|
skeletal muscle
|
subject: 51761Pre
age: 52
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_89_51761Pre
|
Sample_geo_accession | GSM1161415
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161415/suppl/GSM1161415_89_51761Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161416 | GPL570 |
|
51762Pre
|
skeletal muscle
|
subject: 51762Pre
age: 49
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_91_51762Pre
|
Sample_geo_accession | GSM1161416
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161416/suppl/GSM1161416_91_51762Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161417 | GPL570 |
|
51764Pre
|
skeletal muscle
|
subject: 51764Pre
age: 20
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_93_51764Pre
|
Sample_geo_accession | GSM1161417
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161417/suppl/GSM1161417_93_51764Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
|
GSM1161418 | GPL570 |
|
51765Pre
|
skeletal muscle
|
subject: 51765Pre
age: 18
time: prior to exercise training
tissue: skeletal muscle biopsy
|
gene expression prior to exercise training
HER_95_51765Pre
|
Sample_geo_accession | GSM1161418
| Sample_status | Public on Jun 12 2013
| Sample_submission_date | Jun 12 2013
| Sample_last_update_date | Jun 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Subjects were physiologically assessed at baseline
| Sample_growth_protocol_ch1 | Not applicable
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Paired tissue samples (obtained before and after exercise training) of ~20 mg each were processed simultaneously in 1 mL TRIzol (Invitrogen) using a Mini-Beadbeater-8 (Biospec Inc.) for 15 sec on the homogenize setting. After 5 min of incubation at room temperature, 200 µL of chloroform (Sigma-Aldrich) was added and samples shaken vigorously by hand. Samples were briefly incubated on ice prior to centrifugation at 12,000 g for 15 min. The supernatant was removed and mixed with isopropanol (Sigma-Aldrich) and spun once more at 12,000 g for 10 min, after 10 min of incubation. After a single washing step with 75% EtOH RNA pellets were re-suspended in 40 µL DEPC-treated water (Ambion) and quantified using a NanoDrop Spectrophotometer (NanoDrop Technologies).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Reverse transcription of RNA was carried out using the Affymetrix 3′ IVT express kit. 100 ng of total RNA was reverse transcribed as per manufacturer's protocol, and quantified using a Nanodrop ND-1000 instrument. aRNA was fragmented and labeled as per manufacturers protocol and hybridized to Affymetrix U133+2 arrays (Affymetrix, USA).
| Sample_hyb_protocol | Arrays were washed, stained and scanned following Affymetrix standard procedures, using an Affymetrix 3000 7G scanner and Affymetrix 450 wash station. A visual inspection of each array was carried out.
| Sample_scan_protocol | Affymetrix Gene ChIP Scanner 3000 7G
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
| Sample_platform_id | GPL570
| Sample_contact_name | Jamie,,Timmons
| Sample_contact_email | J.Timmons@lboro.ac.uk
| Sample_contact_institute | Loughborough university
| Sample_contact_address | Loughborough University
| Sample_contact_city | Loughborough
| Sample_contact_state | Leicestershire
| Sample_contact_zip/postal_code | LE11 3TU
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1161nnn/GSM1161418/suppl/GSM1161418_95_51765Pre.CEL.gz
| Sample_series_id | GSE47874
| Sample_data_row_count | 54675
| |
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