Search results for the GEO ID: GSE13033 |
(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 |
GSM326524 | GPL1261 |
|
cortex_WT_rep1
|
WT mouse cortex, P29
|
Genotype: HtrA2 wild type
|
Gene expression data from WT mouse cortex tissue at post-natal day 29
|
Sample_geo_accession | GSM326524
| Sample_status | Public on Dec 01 2008
| Sample_submission_date | Oct 03 2008
| Sample_last_update_date | Oct 09 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice at post-natal day 29 (P29).
| Sample_growth_protocol_ch1 | Wild type and HtrA2 knockout littermate mice.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer’s instructions, whereby 600 μl RLT buffer / 30 μg of tissue were first homogenized by pipetting or using a glass dounce homogenizer, before further disruption in a QIAshredder column (Qiagen).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA. A complete description of all procedures is available online at http://www.affymetrix.com/support/technical/manual/expression_manual.affx and at http://bioinformatics.picr.man.ac.uk/mbcf/One_Cycle_Target_Prep_Protocol_PICR_v1-0.pdf
| Sample_hyb_protocol | The standard PICR hybridisation protocol was followed for hybridisation RNA labelled using the 1-cycle protocol to standard GeneChips with 11mciron featrue sizes (http://bioinformatics.picr.man.ac.uk/mbcf/downloads/_HYBRIDISATION_PROTOCOLS/PICR%20One%20Cycle%2011uM%20feature.pdf). This is derived from the Affymetrix Standard Eukaryote Sample Preparation Protocol (section 2, chapter 3) of the GeneChip Expression Analysis Technical Manual (version April 2004) (http://www.affymetrix.com/support/technical/manual/expression_manual.affx).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip scanner 3000 running GCOS software.
| Sample_data_processing | Probe signals were quantile normalized and probeset signal intensity estimates generated using RMA.
| Sample_platform_id | GPL1261
| Sample_contact_name | Kristina,,Klupsch
| Sample_contact_laboratory | Signal Transduction Laboratory
| Sample_contact_department | London Research Institute
| Sample_contact_institute | Cancer Research UK
| Sample_contact_address | 44 Lincoln's Inn Fields
| Sample_contact_city | London
| Sample_contact_zip/postal_code | WC2A 3PX
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM326nnn/GSM326524/suppl/GSM326524.CEL.gz
| Sample_series_id | GSE13033
| Sample_series_id | GSE13035
| Sample_data_row_count | 45101
| |
|
GSM326525 | GPL1261 |
|
cortex_WT_rep2
|
WT mouse cortex, P29
|
Genotype: HtrA2 wild type
|
Gene expression data from WT mouse cortex tissue at post-natal day 29
|
Sample_geo_accession | GSM326525
| Sample_status | Public on Dec 01 2008
| Sample_submission_date | Oct 03 2008
| Sample_last_update_date | Oct 09 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice at post-natal day 29 (P29).
| Sample_growth_protocol_ch1 | Wild type and HtrA2 knockout littermate mice.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer’s instructions, whereby 600 μl RLT buffer / 30 μg of tissue were first homogenized by pipetting or using a glass dounce homogenizer, before further disruption in a QIAshredder column (Qiagen).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA. A complete description of all procedures is available online at http://www.affymetrix.com/support/technical/manual/expression_manual.affx and at http://bioinformatics.picr.man.ac.uk/mbcf/One_Cycle_Target_Prep_Protocol_PICR_v1-0.pdf
| Sample_hyb_protocol | The standard PICR hybridisation protocol was followed for hybridisation RNA labelled using the 1-cycle protocol to standard GeneChips with 11mciron featrue sizes (http://bioinformatics.picr.man.ac.uk/mbcf/downloads/_HYBRIDISATION_PROTOCOLS/PICR%20One%20Cycle%2011uM%20feature.pdf). This is derived from the Affymetrix Standard Eukaryote Sample Preparation Protocol (section 2, chapter 3) of the GeneChip Expression Analysis Technical Manual (version April 2004) (http://www.affymetrix.com/support/technical/manual/expression_manual.affx).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip scanner 3000 running GCOS software.
| Sample_data_processing | Probe signals were quantile normalized and probeset signal intensity estimates generated using RMA.
| Sample_platform_id | GPL1261
| Sample_contact_name | Kristina,,Klupsch
| Sample_contact_laboratory | Signal Transduction Laboratory
| Sample_contact_department | London Research Institute
| Sample_contact_institute | Cancer Research UK
| Sample_contact_address | 44 Lincoln's Inn Fields
| Sample_contact_city | London
| Sample_contact_zip/postal_code | WC2A 3PX
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM326nnn/GSM326525/suppl/GSM326525.CEL.gz
| Sample_series_id | GSE13033
| Sample_series_id | GSE13035
| Sample_data_row_count | 45101
| |
|
GSM326526 | GPL1261 |
|
cortex_WT_rep3
|
WT mouse cortex, P29
|
Genotype: HtrA2 wild type
|
Gene expression data from WT mouse cortex tissue at post-natal day 29
|
Sample_geo_accession | GSM326526
| Sample_status | Public on Dec 01 2008
| Sample_submission_date | Oct 03 2008
| Sample_last_update_date | Oct 09 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice at post-natal day 29 (P29).
| Sample_growth_protocol_ch1 | Wild type and HtrA2 knockout littermate mice.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer’s instructions, whereby 600 μl RLT buffer / 30 μg of tissue were first homogenized by pipetting or using a glass dounce homogenizer, before further disruption in a QIAshredder column (Qiagen).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA. A complete description of all procedures is available online at http://www.affymetrix.com/support/technical/manual/expression_manual.affx and at http://bioinformatics.picr.man.ac.uk/mbcf/One_Cycle_Target_Prep_Protocol_PICR_v1-0.pdf
| Sample_hyb_protocol | The standard PICR hybridisation protocol was followed for hybridisation RNA labelled using the 1-cycle protocol to standard GeneChips with 11mciron featrue sizes (http://bioinformatics.picr.man.ac.uk/mbcf/downloads/_HYBRIDISATION_PROTOCOLS/PICR%20One%20Cycle%2011uM%20feature.pdf). This is derived from the Affymetrix Standard Eukaryote Sample Preparation Protocol (section 2, chapter 3) of the GeneChip Expression Analysis Technical Manual (version April 2004) (http://www.affymetrix.com/support/technical/manual/expression_manual.affx).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip scanner 3000 running GCOS software.
| Sample_data_processing | Probe signals were quantile normalized and probeset signal intensity estimates generated using RMA.
| Sample_platform_id | GPL1261
| Sample_contact_name | Kristina,,Klupsch
| Sample_contact_laboratory | Signal Transduction Laboratory
| Sample_contact_department | London Research Institute
| Sample_contact_institute | Cancer Research UK
| Sample_contact_address | 44 Lincoln's Inn Fields
| Sample_contact_city | London
| Sample_contact_zip/postal_code | WC2A 3PX
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM326nnn/GSM326526/suppl/GSM326526.CEL.gz
| Sample_series_id | GSE13033
| Sample_series_id | GSE13035
| Sample_data_row_count | 45101
| |
|
GSM326527 | GPL1261 |
|
cortex_HtrA2_KO_rep1
|
HtrA2 KO mouse cortex, P29
|
Genotype: HtrA2 knockout
|
Gene expression data from HtrA2 KO mouse cortex tissue at post-natal day 29
|
Sample_geo_accession | GSM326527
| Sample_status | Public on Dec 01 2008
| Sample_submission_date | Oct 03 2008
| Sample_last_update_date | Oct 09 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice at post-natal day 29 (P29).
| Sample_growth_protocol_ch1 | Wild type and HtrA2 knockout littermate mice.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer’s instructions, whereby 600 μl RLT buffer / 30 μg of tissue were first homogenized by pipetting or using a glass dounce homogenizer, before further disruption in a QIAshredder column (Qiagen).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA. A complete description of all procedures is available online at http://www.affymetrix.com/support/technical/manual/expression_manual.affx and at http://bioinformatics.picr.man.ac.uk/mbcf/One_Cycle_Target_Prep_Protocol_PICR_v1-0.pdf
| Sample_hyb_protocol | The standard PICR hybridisation protocol was followed for hybridisation RNA labelled using the 1-cycle protocol to standard GeneChips with 11mciron featrue sizes (http://bioinformatics.picr.man.ac.uk/mbcf/downloads/_HYBRIDISATION_PROTOCOLS/PICR%20One%20Cycle%2011uM%20feature.pdf). This is derived from the Affymetrix Standard Eukaryote Sample Preparation Protocol (section 2, chapter 3) of the GeneChip Expression Analysis Technical Manual (version April 2004) (http://www.affymetrix.com/support/technical/manual/expression_manual.affx).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip scanner 3000 running GCOS software.
| Sample_data_processing | Probe signals were quantile normalized and probeset signal intensity estimates generated using RMA.
| Sample_platform_id | GPL1261
| Sample_contact_name | Kristina,,Klupsch
| Sample_contact_laboratory | Signal Transduction Laboratory
| Sample_contact_department | London Research Institute
| Sample_contact_institute | Cancer Research UK
| Sample_contact_address | 44 Lincoln's Inn Fields
| Sample_contact_city | London
| Sample_contact_zip/postal_code | WC2A 3PX
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM326nnn/GSM326527/suppl/GSM326527.CEL.gz
| Sample_series_id | GSE13033
| Sample_series_id | GSE13035
| Sample_data_row_count | 45101
| |
|
GSM326528 | GPL1261 |
|
cortex_HtrA2_KO_rep2
|
HtrA2 KO mouse cortex, P29
|
Genotype: HtrA2 knockout
|
Gene expression data from HtrA2 KO mouse cortex tissue at post-natal day 29
|
Sample_geo_accession | GSM326528
| Sample_status | Public on Dec 01 2008
| Sample_submission_date | Oct 03 2008
| Sample_last_update_date | Oct 09 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice at post-natal day 29 (P29).
| Sample_growth_protocol_ch1 | Wild type and HtrA2 knockout littermate mice.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer’s instructions, whereby 600 μl RLT buffer / 30 μg of tissue were first homogenized by pipetting or using a glass dounce homogenizer, before further disruption in a QIAshredder column (Qiagen).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA. A complete description of all procedures is available online at http://www.affymetrix.com/support/technical/manual/expression_manual.affx and at http://bioinformatics.picr.man.ac.uk/mbcf/One_Cycle_Target_Prep_Protocol_PICR_v1-0.pdf
| Sample_hyb_protocol | The standard PICR hybridisation protocol was followed for hybridisation RNA labelled using the 1-cycle protocol to standard GeneChips with 11mciron featrue sizes (http://bioinformatics.picr.man.ac.uk/mbcf/downloads/_HYBRIDISATION_PROTOCOLS/PICR%20One%20Cycle%2011uM%20feature.pdf). This is derived from the Affymetrix Standard Eukaryote Sample Preparation Protocol (section 2, chapter 3) of the GeneChip Expression Analysis Technical Manual (version April 2004) (http://www.affymetrix.com/support/technical/manual/expression_manual.affx).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip scanner 3000 running GCOS software.
| Sample_data_processing | Probe signals were quantile normalized and probeset signal intensity estimates generated using RMA.
| Sample_platform_id | GPL1261
| Sample_contact_name | Kristina,,Klupsch
| Sample_contact_laboratory | Signal Transduction Laboratory
| Sample_contact_department | London Research Institute
| Sample_contact_institute | Cancer Research UK
| Sample_contact_address | 44 Lincoln's Inn Fields
| Sample_contact_city | London
| Sample_contact_zip/postal_code | WC2A 3PX
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM326nnn/GSM326528/suppl/GSM326528.CEL.gz
| Sample_series_id | GSE13033
| Sample_series_id | GSE13035
| Sample_data_row_count | 45101
| |
|
GSM326529 | GPL1261 |
|
cortex_HtrA2_KO_rep3
|
HtrA2 KO mouse cortex, P29
|
Genotype: HtrA2 knockout
|
Gene expression data from HtrA2 KO mouse cortex tissue at post-natal day 29
|
Sample_geo_accession | GSM326529
| Sample_status | Public on Dec 01 2008
| Sample_submission_date | Oct 03 2008
| Sample_last_update_date | Oct 09 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice at post-natal day 29 (P29).
| Sample_growth_protocol_ch1 | Wild type and HtrA2 knockout littermate mice.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer’s instructions, whereby 600 μl RLT buffer / 30 μg of tissue were first homogenized by pipetting or using a glass dounce homogenizer, before further disruption in a QIAshredder column (Qiagen).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA. A complete description of all procedures is available online at http://www.affymetrix.com/support/technical/manual/expression_manual.affx and at http://bioinformatics.picr.man.ac.uk/mbcf/One_Cycle_Target_Prep_Protocol_PICR_v1-0.pdf
| Sample_hyb_protocol | The standard PICR hybridisation protocol was followed for hybridisation RNA labelled using the 1-cycle protocol to standard GeneChips with 11mciron featrue sizes (http://bioinformatics.picr.man.ac.uk/mbcf/downloads/_HYBRIDISATION_PROTOCOLS/PICR%20One%20Cycle%2011uM%20feature.pdf). This is derived from the Affymetrix Standard Eukaryote Sample Preparation Protocol (section 2, chapter 3) of the GeneChip Expression Analysis Technical Manual (version April 2004) (http://www.affymetrix.com/support/technical/manual/expression_manual.affx).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip scanner 3000 running GCOS software.
| Sample_data_processing | Probe signals were quantile normalized and probeset signal intensity estimates generated using RMA.
| Sample_platform_id | GPL1261
| Sample_contact_name | Kristina,,Klupsch
| Sample_contact_laboratory | Signal Transduction Laboratory
| Sample_contact_department | London Research Institute
| Sample_contact_institute | Cancer Research UK
| Sample_contact_address | 44 Lincoln's Inn Fields
| Sample_contact_city | London
| Sample_contact_zip/postal_code | WC2A 3PX
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM326nnn/GSM326529/suppl/GSM326529.CEL.gz
| Sample_series_id | GSE13033
| Sample_series_id | GSE13035
| Sample_data_row_count | 45101
| |
|
|
|
Make groups for comparisons |
(2 groups will be compared at a time) |
|
Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|