Search results for the GEO ID: GSE33056  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM818876 | GPL1355 |
|
Kidney_PCK_30dayold_technical rep1
|
Kidney_30 day old PCK
|
organ: Kidney
strain: PCK
age: 30 days
|
|
| Sample_geo_accession | GSM818876
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818876/suppl/GSM818876.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818877 | GPL1355 |
|
Kidney_PCK_30dayold_technical rep2
|
Kidney_30 day old PCK
|
organ: Kidney
strain: PCK
age: 30 days
|
|
| Sample_geo_accession | GSM818877
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818877/suppl/GSM818877.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818878 | GPL1355 |
|
Kidney_PCK_30dayold_technical rep3
|
Kidney_30 day old PCK
|
organ: Kidney
strain: PCK
age: 30 days
|
|
| Sample_geo_accession | GSM818878
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818878/suppl/GSM818878.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818879 | GPL1355 |
|
Kidney_SD_30dayold_technical rep1
|
Kidney_30 day old SD
|
organ: Kidney
strain: SD
age: 30 days
|
|
| Sample_geo_accession | GSM818879
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818879/suppl/GSM818879.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818880 | GPL1355 |
|
Kidney_SD_30dayold_technical rep2
|
Kidney_30 day old SD
|
organ: Kidney
strain: SD
age: 30 days
|
|
| Sample_geo_accession | GSM818880
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818880/suppl/GSM818880.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818881 | GPL1355 |
|
Kidney_SD_30dayold_technical rep3
|
Kidney_30 day old SD
|
organ: Kidney
strain: SD
age: 30 days
|
|
| Sample_geo_accession | GSM818881
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818881/suppl/GSM818881.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818882 | GPL1355 |
|
Kidney_FHH_30dayold_technical rep1
|
Kidney_30 day old FHH
|
organ: Kidney
strain: FHH
age: 30 days
|
|
| Sample_geo_accession | GSM818882
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818882/suppl/GSM818882.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818883 | GPL1355 |
|
Kidney_FHH_30dayold_technical rep2
|
Kidney_30 day old FHH
|
organ: Kidney
strain: FHH
age: 30 days
|
|
| Sample_geo_accession | GSM818883
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818883/suppl/GSM818883.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818884 | GPL1355 |
|
Kidney_FHH_30dayold_technical rep3
|
Kidney_30 day old FHH
|
organ: Kidney
strain: FHH
age: 30 days
|
|
| Sample_geo_accession | GSM818884
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818884/suppl/GSM818884.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818885 | GPL1355 |
|
Kidney_FHH.Pkhd1_30dayold_technical rep1
|
Kidney_30 day old FHH.Pkhd1
|
organ: Kidney
strain: FHH.Pkhd1
age: 30 days
|
|
| Sample_geo_accession | GSM818885
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818885/suppl/GSM818885.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818886 | GPL1355 |
|
Kidney_FHH.Pkhd1_30dayold_technical rep2
|
Kidney_30 day old FHH.Pkhd1
|
organ: Kidney
strain: FHH.Pkhd1
age: 30 days
|
|
| Sample_geo_accession | GSM818886
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818886/suppl/GSM818886.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
GSM818887 | GPL1355 |
|
Kidney_FHH.Pkhd1_30dayold_technical rep3
|
Kidney_30 day old FHH.Pkhd1
|
organ: Kidney
strain: FHH.Pkhd1
age: 30 days
|
|
| Sample_geo_accession | GSM818887
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Oct 18 2011
| | Sample_last_update_date | Jan 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | All rats were fed 5LOD diet (Purina, Jefferson, WI) for the duration of the experiments.
| | Sample_growth_protocol_ch1 | SD, FHH, PCK, FHH.Pkhd1 animals sacrificed at 30 days of age, and kidneys removed and stored in RNAleter (Ambion).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using the Trizol (Invitrogen, Carlsbad, CA) method according to manufacturer’s instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | biotinylated cRNA were prepared from 100ng starting material, using Affymetrix protocol and Affymetrix 3' IVT Express Kit (GeneChip Expression Analysis Technical Manual, 2005-2009, Affymetrix)
| | Sample_hyb_protocol | following fragmentation, 10ug of cRNA were hybridized for 16hr at 45oC on Affymetrix Rat Genome 230 2.0 arrays.
| | Sample_scan_protocol | GeneChips were washed and stained in the Affymetrix Fluidics station 450, and scanned using a 7G GeneChip Scanner 3000. Image data were quantified with Affymetrix Expression Console Software.
| | Sample_data_processing | The quantified raw signal intensites were normalized with Robust Multichip Analysis (RMA; www.bioconductor.org/) to determine signal log ratios. Analysis of variation (ANOVA) was conducted using Partek Genomics Suite 6.2 (Partek Incorporated). Differentially expressed probe sets were defined as those possessing ANOVA p<0.05, and a log2 ratio >0.5 between the compared groups. Biological network analysis was performed with the Ingenuity Pathway Analysis (IPA; http://www.ingenuity.com/).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Caitlin,C,OMeara
| | Sample_contact_email | comeara@mcw.edu
| | Sample_contact_laboratory | Carol Moreno
| | Sample_contact_department | Physiology
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Rd
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM818nnn/GSM818887/suppl/GSM818887.CEL.gz
| | Sample_series_id | GSE33056
| | Sample_data_row_count | 31099
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
