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| Status |
Public on Aug 10, 2021 |
| Title |
Acute, chronic, normobaric and hypobaric hypoxia elicit differential responses in the mouse retina on the genomic level |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: Bulk RNA-Seq of wild-type mice retina after different hypoxic exposures, to evaluate the influence on retinal pathologies.
Methods: Retinal mRNA profiles of C57BL/6J mice after 6 different hypoxic exposures were generated by deep sequencing (n=6) using paired-end high output sequencing (Illumina Novaseq 6000).
Results: Longitudinal studies over 11 weeks in normobaric hypoxia revealed four classes of genes that adapted differentially to the long-term hypoxic condition. Many differentially expressed genes were involved in the regulation of gene expression. Seventeen genes were specifically regulated in hypobaric hypoxia. Some of these genes may affect the structural integrity of the retina or individual cells, resulting in the slight shortening of photoreceptor segment length detected in various hypoxic groups.
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| Overall design |
Besides the normoxic control group (Normoxia), hypoxic goups are defined as such: "Oxygen saturationt- time spend in hypoxia- location of experiment (ZH: Zürich (400masl); JFJ: Jungfraujoch (3450masl).
Please note that the raw data has been updated on Dec 14, 2023, as the initially-submitted files do not represent the full dataset and were not used for the publication.
The analysis was carried out on the original, fastq files, which are included in the 12-14-2023 update.
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| Contributor(s) |
Ebner LJ, Grimm C, Samardzija M, Storti F, Todorova V, Karademir D, Behr J, Simpson F, Thiersch M |
| Citation(s) |
34404875 |
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| Submission date |
Apr 23, 2021 |
| Last update date |
Dec 13, 2023 |
| Contact name |
Lynn Jenny Alix Ebner |
| Organization name |
Universität Zürich
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| Department |
Department of Ophthalmology
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| Lab |
Lab for Retinal Cell Biology
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| Street address |
Wagistrasse 14
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| City |
Schlieren |
| State/province |
Zürich |
| ZIP/Postal code |
8952 |
| Country |
Switzerland |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (42)
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| Relations |
| BioProject |
PRJNA724735 |
| SRA |
SRP316119 |
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