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| Status |
Public on Apr 08, 2014 |
| Title |
T2N Rep0 |
| Sample type |
SRA |
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| Source name |
twin 2_euploid_fetal primary fibroblasts
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| Organism |
Homo sapiens |
| Characteristics |
disease/status: Euploid
tissue: Fetal primary fibroblasts
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| Extracted molecule |
total RNA |
| Extraction protocol |
Illumina mRNA-Seq Sample Preparation kit
Total RNA was collected using the TRIzol® reagent (Life Technologies) following the manufacturer’s instructions.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Description |
processed data file: final_QN_4rep_file.sorted.txt
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| Data processing |
Basecalling performed with CASAVA version 1.8
Mapping using GEM, default parameters
Genome_build: hg19 and mm9
Supplementary_files_format_and_content: final_mouse_QN_file.txt: text file, chromosome, start, end, gene symbol, rpkm values, rpkm values after quantile normalization, log2 fold change (TsT1/TsN1)
Supplementary_files_format_and_content: final_QN_4rep_file.sorted.txt: text file, chromosome, start, end, gene type, gene symbol, rpkm values, rpkm values after quantile normalization, log2 fold change
Supplementary_files_format_and_content: final_unr_QN_file.txt: text file, chromosome, start, end, ensembl gene ID, gene symbol, rpkm values, rpkm values after quantile normalization, log2 fold change
Supplementary_files_format_and_content: Expression_iPS_cells.txt: text file, chromosome, start, end, strand, ensembl gene ID, gene symbol, rpkm values
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| Submission date |
Mar 03, 2014 |
| Last update date |
Apr 27, 2020 |
| Contact name |
Audrey Letourneau |
| E-mail(s) |
audrey.letourneau@unige.ch
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| Organization name |
University of Geneva Medical School
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| Department |
Genetic Medicine and Development
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| Street address |
Rue Michel-Servet 1
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| City |
Geneva |
| ZIP/Postal code |
1211 |
| Country |
Switzerland |
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| Platform ID |
GPL11154 |
| Series (2) |
| GSE55426 |
Domains of genomewide gene expression dysregulation in Down syndrome |
| GSE55504 |
Domains of genomewide gene expression dysregulation in Down syndrome [RNA-seq] |
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| Relations |
| Reanalyzed by |
GSE149469 |
| BioSample |
SAMN02671027 |
| SRA |
SRX480650 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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