NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE169386 Query DataSets for GSE169386
Status Public on Apr 01, 2021
Title Transcriptional profiling of brain tissues from a Q130 Long Evans Knock-in rat model of Huntington’s disease at 10-, 19- and 24-months of age
Organism Rattus norvegicus
Experiment type Expression profiling by high throughput sequencing
Summary Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder that is characterized by motor, cognitive, and psychiatric alterations. The mutation responsible for this disease is an abnormally expanded and unstable CAG repeat within the coding region of the gene encoding huntingtin (Htt). A collaboration between the CHDI Foundation and Dr. H.P. Nguyen (huu.nguyen-r7w@ruhr-uni-bochum.de) at Universitat Bochum focused on generating a knock-in rat model of HD that contains expanded CAG repeats inserted within the rat huntingtin gene (Hdh) in order to provide a genetic reconstruction of the human causative mutation within the rat model. The goal of this study is RNA expression profiling by RNA sequencing (RNA-seq) in brain tissues of 10-, 19- and 24-month-old heterozygous knock-in rats with uninterrupted CAG length approaching 130 along with littermate control wild-type animals.
 
Overall design Transcriptomic analysis (RNASeq) was performed on samples from striatum, cortex and cerebellum collected from wild type and heterozygous Q130KI rats at 10, 19, and 24 months; at 10 and 19 months, the number of replicates is 5 males/5 females for age/genotype/tissue combinations and at 24 months, the number of replicates is 2-4 males/2-3 females. Twelve samples from GSE152443 (striatum samples from 2 and 6 months animals, male only, 3 animals for each timepoint/genotype) were added as pipeline controls to monitor for reproducibility and batch effect.
 
Contributor(s) Aaronson J, Rosinski J
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Mar 22, 2021
Last update date Apr 02, 2021
Contact name Jeff Aaronson
E-mail(s) jeff.aaronson@chdifoundation.org
Phone (609) 945-9616
Organization name CHDI
Department Discovery & Systems Biology
Street address 155 Village Boulevard, Suite 200
City Princeton
State/province New Jersey
ZIP/Postal code 08540
Country USA
 
Platforms (1)
GPL25947 Illumina NovaSeq 6000 (Rattus norvegicus)
Samples (145)
GSM5201401 Q130 KI Cortex 10 months female mRNA rep1 [10_19_24_mo]
GSM5201402 Q130 KI Cortex 10 months female mRNA rep2 [10_19_24_mo]
GSM5201403 Q130 KI Cortex 10 months female mRNA rep3 [10_19_24_mo]
This SubSeries is part of SuperSeries:
GSE169388 Transcriptional profiling of brain tissues from a Q130 Long Evans Knock-in rat model of Huntington’s disease at 2-, 6-, 10-, 12-, 19- and 24-months of age
Relations
BioProject PRJNA716364
SRA SRP311713

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE169386_HDGSE260_Genes.Count.txt.gz 5.6 Mb (ftp)(http) TXT
GSE169386_HDGSE260_Genes.FPKM.txt.gz 8.9 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap
External link. Please review our privacy policy.