Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 102
Release date: Dec 8 2017
Last update date: Oct 22 2018
Access: Public
Genes: CA1, CA3, CA2
Taxon: Rattus norvegicus
Computational protocol: TopHat, Bowtie2, Partek Flow, Subread, BCL2FASTQ Conversion Software, cutadapt, FastQC, QualiMap, DESeq2, gplots, Complex heatmaps, Ggplot2, ToppGene Suite, GEO, KEGG, Reactome
Dataset link Next-Generation sequencing of the hippocampus transcriptome in aged and cognitive impaired rats

Experimental Protocol


Male Fisher 344 rats of two ages, young (5-6 months, total n = 10; n = 5 AZ, n = 5 FL) and aged (17-22 months, total n = 24; n = 11 AZ, n = 13 FL) were obtained from National Institute on Aging's colonies (Taconic, FL; Charles River, AZ). Animals were maintained on a 12:12 hour light/dark schedule, and provided ad libitum access to food and water prior to the set shifting task. The Morris Water Maze test was conducted, and behavioural data were acquired with either Noldus EthoVision computer tracking software (Noldus Information Technology, (Leesburg, VA) in FL or AnyMaze (Wood Dale, IL) in AZ) and included path-length and time in the goal and opposite quadrants. Two weeks following water maze testing, rats were anesthetized with isoflurane (Piramal Healthcare), decapitated and the brain was rapidly removed. The hippocampus was isolated, a 1-2 mm slice was removed from the dorsal hippocampus, and the CA1, CA3 and dentate gyrus (DG) regions were dissected [1, 8]. The collected tissue was immediately frozen in liquid nitrogen and stored in -80ÂșC until processed.

Repositories


GEO

GSE101798

ENA

SRP113452

BioProject

PRJNA395547

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