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| Status |
Public on Jul 16, 2024 |
| Title |
Transcriptomic analysis of the spinal cords of knock-in adult mice carrying the ATXN2/TDP-43 human transgenes |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Intermediate-length repeat expansions in ATAXIN-2 (ATXN2) are a strong genetic risk factor for amyotrophic lateral sclerosis (ALS). At the molecular level, ATXN2 intermediate expansions enhance TDP-43 toxicity and pathology. However, whether this triggers ALS pathogenesis at the cellular and functional level remains unknown. To investigate gene expression changes and deregulated pathways caused by ataxin-2 intermediate repeat expansions in presence/absence of mutant TDP-43, we performed RNA sequencing of whole spinal cords from knock-in mice harboring ATXN2 and TDP-43 human transgenes as well as non-transgenic mice (NTg)
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| Overall design |
10-months-old spinal cord samples were obtained from each mouse line (n = 3 mice per genotype). Total RNA was isolated and processed for downstream RNA sequencing analysis (details provided below).
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| Contributor(s) |
Vieira de Sá R, Sudria-Lopez E, Cañizares Luna M, Veno M, Seeler S, Kjems J, Pasterkamp RJ |
| Citation(s) |
39209824 |
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| Submission date |
Feb 06, 2023 |
| Last update date |
Sep 30, 2024 |
| Contact name |
R. Jeroen Pasterkamp |
| Organization name |
University Medical Center Utrecht
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| Department |
Translational Neuroscience
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| Street address |
Universiteitsweg 100
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| City |
Utrecht |
| ZIP/Postal code |
3584CG |
| Country |
Netherlands |
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| Platforms (1) |
| GPL21493 |
Illumina HiSeq 3000 (Mus musculus) |
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| Samples (18)
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| GSM7026639 |
Spinal cord, Q22 animal (4712) |
| GSM7026640 |
Spinal cord, Q22 animal (5079) |
| GSM7026641 |
Spinal cord, Q22 animal (5178) |
| GSM7026642 |
Spinal cord, Q33 animal (8610) |
| GSM7026643 |
Spinal cord, Q33 animal (8620) |
| GSM7026644 |
Spinal cord, Q33 animal (8695) |
| GSM7026645 |
Spinal cord, TDP-43 animal (8859) |
| GSM7026646 |
Spinal cord, TDP-43 animal (9285) |
| GSM7026647 |
Spinal cord, TDP-43 animal (9413) |
| GSM7026648 |
Spinal cord, Q22;TDP-43 animal (4221) |
| GSM7026649 |
Spinal cord, Q22;TDP-43 animal (4230) |
| GSM7026650 |
Spinal cord, Q22;TDP-43 animal (4307) |
| GSM7026651 |
Spinal cord, Q33;TDP-43 animal (4539) |
| GSM7026652 |
Spinal cord, Q33;TDP-43 animal (4577) |
| GSM7026653 |
Spinal cord, Q33;TDP-43 animal (4578) |
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| This SubSeries is part of SuperSeries: |
| GSE224585 |
ATAXIN-2 Intermediate-length Polyglutamine Expansions Elicit ALS-associated Metabolic and Immune Phenotypes |
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| Relations |
| BioProject |
PRJNA934448 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE224580_ALS_TDP43_and_ATXN2_KI.featureCounts.txt.gz |
4.5 Mb |
(ftp)(http) |
TXT |
| GSE224580_DESeq_spinal_cord.xlsx |
61.0 Mb |
(ftp)(http) |
XLSX |
| GSE224580_DEXSeq_spinal_cord.xlsx |
290.8 Kb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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