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| Status |
Public on Aug 22, 2016 |
| Title |
im_S_XCR1+_LT_WT_SetE_2 |
| Sample type |
RNA |
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| Source name |
MDD_C36_430_2
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| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: CD8a+ dendritic cells (DC)
genotype/variation: wildtype
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| Extracted molecule |
total RNA |
| Extraction protocol |
see original GSM record
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| Label |
biotin
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| Label protocol |
see original GSM record
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| Hybridization protocol |
see original GSM record
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| Scan protocol |
see original GSM record
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| Description |
GSM971645_MDD_C36_430_2
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| Data processing |
GeneChip Mouse Gene 1.0 ST (GPL6246) and GeneChip Mouse Genome 430 2.0 (GPL1261) DAT files were processed using Affymetrix Gene Chip Operating System to generate .CEL files. Normalization of the raw Affymetrix expression data with Robust Multi-chip Analysis were performed through Bioconductor in the R statistical environment (version 3.0.2) using the oligo package (GPL6246) and the affy, affyPLM and yaqcaffy packages (GPL1261). For genes symbol with several probeSets , the most variant probSet has been selected. The two platforms weere merged by the unique genes symbols. Quantile Normalization was applied on the merged expression arrays to generate Matrix 1. PCA analysis revealed a strong platform effect. Partial Least Square (PLS) was performed to remove the platform effect and yield Matrix2 which was used for subsequent analyses. These matrices contain the normalized data for these reanalyzed samples and can be found on the SuperSeries record. The data matrices contain the Log2 values.
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| Submission date |
Jul 21, 2015 |
| Last update date |
Aug 22, 2016 |
| Contact name |
Marc DALOD |
| E-mail(s) |
dalod@ciml.univ-mrs.fr
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| Organization name |
CIML
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| Street address |
Parc Scientifique et Technologique de Luminy, 163 avenue de Luminy, Case 906, 13288 Marseille cedex 9
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| City |
MARSEILLE |
| ZIP/Postal code |
13009 |
| Country |
France |
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| Platform ID |
GPL1261 |
| Series (2) |
| GSE71170 |
Broad and largely overlapping molecular changes arise in thymic and peripheral XCR1+ dendritic cells upon tolerogenic and immunogenic maturation [reanalyzed samples] |
| GSE71171 |
Broad and largely overlapping molecular changes arise in thymic and peripheral XCR1+ dendritic cells upon tolerogenic and immunogenic maturation |
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| Relations |
| Reanalysis of |
GSM971645 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM1828806_GSM971645_MDD_C36_430_2.CEL.gz |
3.4 Mb |
(ftp)(http) |
CEL |
| Processed data are available on Series record |
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