Search results for the GEO ID: GSE46092  |
(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 |
GSM1123182 | GPL1261 |
|
Ikf/f CD4-Cre- sample 1 (mouse 52)
|
Ikf/f CD4-Cre- sample 1 (mouse 52)
|
genotype: Ikf/f CD4-Cre-
|
|
| Sample_geo_accession | GSM1123182
| | Sample_status | Public on Apr 17 2013
| | Sample_submission_date | Apr 16 2013
| | Sample_last_update_date | Apr 17 2013
| | 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 RNA was extracted with the Qiagen RNAeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA targets were prepared according to Affymetrix recommendations in GeneChip Expression Analysis Technical Manual (P/N 702232 Rev.2) starting from [100 ng (A810) ; 50 ng (A1052) ; 15-100 ng (A1031)] of total RNA in a two cycle target labeling assay.
| | Sample_hyb_protocol | 10 μg of cRNAs were hybridized for 16 hours at 45oC on GeneChip® Mouse 430 2.0 arrays (Affymetrix).
| | Sample_scan_protocol | The chips were washed and stained in the GeneChip® Fluidics Station 450 (Affymetrix) and scanned with the GeneChip® Scanner 3000 7G (Affymetrix) at a resolution of 1.56 µm.
| | Sample_data_processing | CEL files were processed using Robust Multi-array Average (RMA) algorithms from Bioconductor with default settings to calculate probe set signal intensities .
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Susan,,Chan
| | Sample_contact_email | scpk@igbmc.fr
| | Sample_contact_phone | 33 3 88 65 34 72
| | Sample_contact_fax | 33 3 88 65 32 01
| | Sample_contact_institute | IGBMC
| | Sample_contact_address | 1, rue Laurent Fries
| | Sample_contact_city | Illkirch
| | Sample_contact_zip/postal_code | 67404
| | Sample_contact_country | France
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1123nnn/GSM1123182/suppl/GSM1123182_DP52_Cre-.CEL.gz
| | Sample_series_id | GSE46092
| | Sample_data_row_count | 45037
| | |
|
GSM1123183 | GPL1261 |
|
Ikf/f CD4-Cre- sample 2 (mouse 57)
|
Ikf/f CD4-Cre- sample 2 (mouse 57)
|
genotype: Ikf/f CD4-Cre-
|
|
| Sample_geo_accession | GSM1123183
| | Sample_status | Public on Apr 17 2013
| | Sample_submission_date | Apr 16 2013
| | Sample_last_update_date | Apr 17 2013
| | 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 RNA was extracted with the Qiagen RNAeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA targets were prepared according to Affymetrix recommendations in GeneChip Expression Analysis Technical Manual (P/N 702232 Rev.2) starting from [100 ng (A810) ; 50 ng (A1052) ; 15-100 ng (A1031)] of total RNA in a two cycle target labeling assay.
| | Sample_hyb_protocol | 10 μg of cRNAs were hybridized for 16 hours at 45oC on GeneChip® Mouse 430 2.0 arrays (Affymetrix).
| | Sample_scan_protocol | The chips were washed and stained in the GeneChip® Fluidics Station 450 (Affymetrix) and scanned with the GeneChip® Scanner 3000 7G (Affymetrix) at a resolution of 1.56 µm.
| | Sample_data_processing | CEL files were processed using Robust Multi-array Average (RMA) algorithms from Bioconductor with default settings to calculate probe set signal intensities .
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Susan,,Chan
| | Sample_contact_email | scpk@igbmc.fr
| | Sample_contact_phone | 33 3 88 65 34 72
| | Sample_contact_fax | 33 3 88 65 32 01
| | Sample_contact_institute | IGBMC
| | Sample_contact_address | 1, rue Laurent Fries
| | Sample_contact_city | Illkirch
| | Sample_contact_zip/postal_code | 67404
| | Sample_contact_country | France
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1123nnn/GSM1123183/suppl/GSM1123183_DP57-Cre-.CEL.gz
| | Sample_series_id | GSE46092
| | Sample_data_row_count | 45037
| | |
|
GSM1123184 | GPL1261 |
|
Ikf/f CD4-Cre+ sample 1 (mouse 53)
|
Ikf/f CD4-Cre+ sample 1 (mouse 53)
|
genotype: Ikf/f CD4-Cre+
|
|
| Sample_geo_accession | GSM1123184
| | Sample_status | Public on Apr 17 2013
| | Sample_submission_date | Apr 16 2013
| | Sample_last_update_date | Apr 17 2013
| | 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 RNA was extracted with the Qiagen RNAeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA targets were prepared according to Affymetrix recommendations in GeneChip Expression Analysis Technical Manual (P/N 702232 Rev.2) starting from [100 ng (A810) ; 50 ng (A1052) ; 15-100 ng (A1031)] of total RNA in a two cycle target labeling assay.
| | Sample_hyb_protocol | 10 μg of cRNAs were hybridized for 16 hours at 45oC on GeneChip® Mouse 430 2.0 arrays (Affymetrix).
| | Sample_scan_protocol | The chips were washed and stained in the GeneChip® Fluidics Station 450 (Affymetrix) and scanned with the GeneChip® Scanner 3000 7G (Affymetrix) at a resolution of 1.56 µm.
| | Sample_data_processing | CEL files were processed using Robust Multi-array Average (RMA) algorithms from Bioconductor with default settings to calculate probe set signal intensities .
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Susan,,Chan
| | Sample_contact_email | scpk@igbmc.fr
| | Sample_contact_phone | 33 3 88 65 34 72
| | Sample_contact_fax | 33 3 88 65 32 01
| | Sample_contact_institute | IGBMC
| | Sample_contact_address | 1, rue Laurent Fries
| | Sample_contact_city | Illkirch
| | Sample_contact_zip/postal_code | 67404
| | Sample_contact_country | France
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1123nnn/GSM1123184/suppl/GSM1123184_DP53_Cre+.CEL.gz
| | Sample_series_id | GSE46092
| | Sample_data_row_count | 45037
| | |
|
GSM1123185 | GPL1261 |
|
Ikf/f CD4-Cre+ sample 2 (mouse 69)
|
Ikf/f CD4-Cre+ sample 2 (mouse 69)
|
genotype: Ikf/f CD4-Cre+
|
|
| Sample_geo_accession | GSM1123185
| | Sample_status | Public on Apr 17 2013
| | Sample_submission_date | Apr 16 2013
| | Sample_last_update_date | Apr 17 2013
| | 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 RNA was extracted with the Qiagen RNAeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA targets were prepared according to Affymetrix recommendations in GeneChip Expression Analysis Technical Manual (P/N 702232 Rev.2) starting from [100 ng (A810) ; 50 ng (A1052) ; 15-100 ng (A1031)] of total RNA in a two cycle target labeling assay.
| | Sample_hyb_protocol | 10 μg of cRNAs were hybridized for 16 hours at 45oC on GeneChip® Mouse 430 2.0 arrays (Affymetrix).
| | Sample_scan_protocol | The chips were washed and stained in the GeneChip® Fluidics Station 450 (Affymetrix) and scanned with the GeneChip® Scanner 3000 7G (Affymetrix) at a resolution of 1.56 µm.
| | Sample_data_processing | CEL files were processed using Robust Multi-array Average (RMA) algorithms from Bioconductor with default settings to calculate probe set signal intensities .
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Susan,,Chan
| | Sample_contact_email | scpk@igbmc.fr
| | Sample_contact_phone | 33 3 88 65 34 72
| | Sample_contact_fax | 33 3 88 65 32 01
| | Sample_contact_institute | IGBMC
| | Sample_contact_address | 1, rue Laurent Fries
| | Sample_contact_city | Illkirch
| | Sample_contact_zip/postal_code | 67404
| | Sample_contact_country | France
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1123nnn/GSM1123185/suppl/GSM1123185_DP69_Cre+.CEL.gz
| | Sample_series_id | GSE46092
| | Sample_data_row_count | 45037
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
Select expression type |
| Transcripts profile based on; |
A. Differential status (Up/Down regulation) |
|
|
Regulation type |
|
Fold change |
|
p-value |
|
|
|
B. Absolute calls (Transcribed/Not-detected) |
|
|
| Derive calls within/across groups |
Within groups |
|
|
Detection status |
|
Percentage detection |
|
|
Across groups |
|
|
Detection status |
First group: |
- |
Second group:
|
Percentage detection |
First group: |
- |
Second group:
|
|
|
| |
Filter results by number of probes |
|
|
