Description: The involvement of specific medium spiny neuro (MSN) subtype and of other striatal cell types remains poorly understood. To gain insight into cell type-specific disease processes, researchers studied the nuclear transcriptomes of 4524 cells from the striatum of a genetically precise knock-in mouse model of the Huntington's Disease (HD) mutation, HttQ175/1. Three 14-month-old and one 15-month-old male mice were used to generate the primary dataset.
Timeframe: 2020
Geographic Coverage: Ethiopia

Subject of Study

Subject Domain

Subject Gender

Male

Keywords

Access via Article
Data tables and figures

Access via Gene Expression Analysis Resource
Gene expression visualization and analysis
Access Restrictions: Unrestricted access
Access Instructions: Access data via article and the Gene Expression Analysis Resources
Associated Publications: Malaiya S, Cortez-Gutierrez M, Herb BR, Coffey SR, Legg SRW, Cantle JP, Colantuoni C, Carroll JB, Ament SA.Single-Nucleus RNA-Seq Reveals Dysregulation of Striatal Cell Identity Due to Huntington’s Disease Mutations. J. Neurosci. 2021 June 23;41(25):5534-5552
Data Type: Genomic
Equipment Used: BioPulverizer
fragments hard frozen tissue samples into tiny pieces

MoxiGo cytometer
rapid multi-parametric analysis of single cells in solution
Software Used: Chromium Single Cell Gene expression 3
sequence samples

GENIE3
inferring gene regulatory networks from expression data

limma
data analysis, linear models and differential expression for microarray data

RRHO
algorithm that allows for the comparison of two gene expression signatures

Seurat v3.0 R
QC, analysis, and exploration of single-cell RNA-seq data

SoupX
removes ambient RNA contamination from droplet-based single-cell RNA sequencing data
Study Type: Observational
Dataset Format(s): Microsoft Excel
Dataset Size: 24MB

UMB Data Catalog

Single-Nucleus RNA-Seq Reveals Dysregulation of Striatal Cell Identity Due to Huntington’s Disease Mutations
UMB Dataset