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Series GSE152443 Query DataSets for GSE152443
Status Public on Jul 14, 2020
Title Transcriptional profiling of brain tissues from a Q130 Long Evans Knock-in rat model of Huntington’s disease at 2-, 6- and 12-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 2-, 6- and 12-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, cerebellum, and hippocampus collected from wild type and heterozygous Q130KI rats at 2, 6, and 12 months; number of replicates 5 males/5 females for each timepoint/genotype/tissue combination. Twelve samples from batch1 were added to batch2 as pipeline controls to monitor for reproducibility and batch effect.
 
Contributor(s) Aaronson J, Rosinski J
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Submission date Jun 14, 2020
Last update date Mar 22, 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)
GPL14844 Illumina HiSeq 2000 (Rattus norvegicus)
Samples (252)
GSM4615710 Q130 KI Cerebellum 2 months female mRNA rep1 [2_6_12_mo]
GSM4615711 Q130 KI Cerebellum 2 months female mRNA rep2 [2_6_12_mo]
GSM4615712 Q130 KI Cerebellum 2 months female mRNA rep3 [2_6_12_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 PRJNA639370
SRA SRP267254

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
GSE152443_WTxQ130_Rat_brain_tissues_2_6_12_mo_Gene_Counts.txt.gz 9.6 Mb (ftp)(http) TXT
GSE152443_WTxQ130_Rat_brain_tissues_2_6_12_mo_Gene_FPKM.txt.gz 15.1 Mb (ftp)(http) TXT
GSE152443_WTxQ130_Rat_brain_tissues_2_6_12_mo_Transcript_Counts.txt.gz 17.3 Mb (ftp)(http) TXT
GSE152443_WTxQ130_Rat_brain_tissues_2_6_12_mo_Transcript_FPKM.txt.gz 19.0 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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