Search results for the GEO ID: GSE41932  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1027652 | GPL1261 |
|
Wild type casein pool1
|
abdominal fat pads
|
treatment: Casein
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: wild type
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027652
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027652/suppl/GSM1027652_Wt_Cas1.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027653 | GPL1261 |
|
Wild type casein pool2
|
abdominal fat pads
|
treatment: Casein
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: wild type
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027653
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027653/suppl/GSM1027653_Wt_Cas2.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027654 | GPL1261 |
|
Wild type casein pool3
|
abdominal fat pads
|
treatment: Casein
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: wild type
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027654
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027654/suppl/GSM1027654_Wt_Cas3.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027655 | GPL1261 |
|
P47KO casein pool1
|
abdominal fat pads
|
treatment: Casein
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: p47phox null
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027655
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027655/suppl/GSM1027655_Phox_Cas1.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027656 | GPL1261 |
|
P47KO casein pool2
|
abdominal fat pads
|
treatment: Casein
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: p47phox null
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027656
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027656/suppl/GSM1027656_Phox_Cas2.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027657 | GPL1261 |
|
P47KO casein pool3
|
abdominal fat pads
|
treatment: Casein
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: p47phox null
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027657
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027657/suppl/GSM1027657_Phox_Cas3.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027658 | GPL1261 |
|
Wild type hfd pool1
|
abdominal fat pads
|
treatment: High fat diet
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: wild type
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027658
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027658/suppl/GSM1027658_Wt_HFHC1.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027659 | GPL1261 |
|
Wild type hfd pool2
|
abdominal fat pads
|
treatment: High fat diet
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: wild type
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027659
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027659/suppl/GSM1027659_Wt_HFHC2.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027660 | GPL1261 |
|
Wild type hfd pool3
|
abdominal fat pads
|
treatment: High fat diet
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: wild type
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027660
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027660/suppl/GSM1027660_Wt_HFHC3.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027661 | GPL1261 |
|
P47KO hfd pool1
|
abdominal fat pads
|
treatment: High fat diet
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: p47phox null
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027661
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027661/suppl/GSM1027661_Phox_HFHC1.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027662 | GPL1261 |
|
P47KO hfd pool2
|
abdominal fat pads
|
treatment: High fat diet
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: p47phox null
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027662
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027662/suppl/GSM1027662_Phox_HFHC2.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
|
GSM1027663 | GPL1261 |
|
P47KO hfd pool3
|
abdominal fat pads
|
treatment: High fat diet
gender: female
tissue: abdominal fat pads
genetic background: C57BL/6
genotype: p47phox null
|
abdominal fat gene expression
Groups of C57BL/6 and P47KO female mice were fed casein or high fat diet starting at post-natal day (PND) 28. After 13 weeks the mice were sacrifized and abdominal fat pads were collected and fresh frozen in liquid nitrogen.
Abdominal fat pads were collected and fresh frozen in liquid nitrogen
|
| Sample_geo_accession | GSM1027663
| | Sample_status | Public on Nov 01 2012
| | Sample_submission_date | Oct 31 2012
| | Sample_last_update_date | Nov 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total fat pads RNA was isolated from the rats using TRI reagent and purified using RNeasy mini columns including on-column Dnase digestion
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | First- and second- strand cDNA synthesis (from 8 ug total RNA), biotin-labeled aRNA synthesis, fragmentation of cRNA reactions were performed using Affymetrix protocols. aRNA was synthesized from cDNA using a GeneChip IVT labeling kit (Affymetrix) according to the manufacturer’s instructions
| | Sample_hyb_protocol = Twenty microgram aRNA was then fragmented in 5X fragmentation buffer for 35 min at 94 °C. aRNAs were hybridized to an individual Affymetrix GeneChip Rat arrays (N | 3/treatment) for 16 h at 45ºC in the hybridization oven set at 60 rpm.
| | Sample_scan_protocol | The probe array was washed and stained using GeneChip fluidics station 450 and scanned using GeneChip Scanner 3000.
| | Sample_data_processing | Cel files were generated using GCOS and utilized for analysis using GeneSpring v 11.5.1
| | Sample_data_processing | RMA normalization was utilized to generated values using GeneSpring v 11.5.1
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Horacio,,Gomez-Acevedo
| | Sample_contact_email | gomezacevedohoracio@uams.edu
| | Sample_contact_institute | Arkansas Children's Nutrition Center
| | Sample_contact_address | 15 Children's Way
| | Sample_contact_city | Little Rock
| | Sample_contact_state | Arkansas
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1027nnn/GSM1027663/suppl/GSM1027663_Phox_HFHC3.CEL.gz
| | Sample_series_id | GSE41932
| | Sample_data_row_count | 45101
| | |
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