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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Nov 18, 2019 |
| Title |
P60MTtx3 |
| Sample type |
SRA |
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| Source name |
Thoracic aortic tissue
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| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
genotype: Fbn1 mgR/mgR
treatment: baclofen
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| Extracted molecule |
total RNA |
| Extraction protocol |
none provided by the submitter
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
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| Description |
Fbn1 mgR/mgR mice - age P60 - treated with baclofen since P16
Mice_cuffdiff_results, Mice_cuffdiff_DEGs
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| Data processing |
Random read removal from all samples of the same age to correct for read imbalances (after the read removal all samples of the same age have the read count of that sample of that age with the lowest read count)
custom C# script
Alignement to Reference genome
Tophat 2.0.8, samtools-0.1.7, bowtie 2.1.0
Identification of differentially expressed genes
Cufflinks 1.3.0
Genome_build: mm9
Supplementary_files_format_and_content: mouse and human ensemble refernce annotation
Supplementary_files_format_and_content: Mice_cuffdiff_results: cuffdiff output including average gene expression values in whole aortic wall from P16 MFS vs WT mice, baclofen treated P60 WT vs untreated WT mice and baclofen treated P60 MFS vs untreated MFS mice
Supplementary_files_format_and_content: Mice_cuffdiff_DEGs: List of differentially expressed genes in whole aortic wall from P16 MFS vs WT mice, baclofen treated P60 WT vs untreated WT mice and baclofen treated P60 MFS vs untreated MFS mice
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| Submission date |
Mar 15, 2019 |
| Last update date |
Nov 18, 2019 |
| Contact name |
Pauline ARNAUD |
| Organization name |
AP-HP - Hôpital Bichat
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| Street address |
46, rue Henri Huchard
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| City |
PARIS |
| ZIP/Postal code |
75018 |
| Country |
France |
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| Platform ID |
GPL21103 |
| Series (1) |
| GSE128101 |
Subcellular pathways shared by afflicted patients and mutant mice identify a new drug treatment for aortic aneurysm in Marfan syndrome |
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| Relations |
| BioSample |
SAMN11149051 |
| SRA |
SRX5527676 |
| 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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