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Sample GSM4516244 Query DataSets for GSM4516244
Status Public on Mar 15, 2022
Title Sample_MUC17745
Sample type SRA
Source name dCAM x GFAP-Cre
Organism Mus musculus
Characteristics tissue: Brain striatal tissue
time: 13 weeks post injection
strain: Rosa26-dCas9-activator mouse (dCAM)
Treatment protocol Cells were dissected from mouse striatum (n=2). Incubation with dissociating enzyme was performed for 90 min.
Growth protocol mouse striatum. Animal housing and handling protocols were approved by the committee for the Care and Use of Laboratory animals of the Government of Upper Bavaria (Germany) and were carried out in accordance with the European Communities' Council Directive 2010/63/EU. During the work, all efforts were made to minimize animal suffering. All mouse lines were kept in a controlled pathogen free (SPF) hygiene standard environment on a 12 h light/dark cycle. The mice had access to ad libitum standard feed and water always. All tests were approved for the ethical treatment of animals by the Government of Upper Bavaria.
Extracted molecule total RNA
Extraction protocol Chromium Single Cell 3´Library & Gel Bead Kit v2 (PN-120237, 10xGenomics) to generate single cell gel beads in emulsion (GEMs).
cDNA synthesis was done according to 10x Genomics guidelines.
Libraries were pooled and sequenced on a NovaSeq6000 (Illumina) according to the Chromium Single Cell v.2 specifications and with an average read depth of 50,000 aligned reads per cell.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
Description mice are injected with GFP containing AAV at the age of 12-16 weeks
Data processing Cell Ranger 3.1.0 against a modified version of the mouse transcriptome GRCm38 (Ensembl Release 99) that included both GFP and Cre sequences.
Genome_build: mm10
Supplementary_files_format_and_content: raw counts for control (MUC17744) and reprogrammed (MUC17745) mice
Submission date May 05, 2020
Last update date Mar 15, 2022
Contact name Wolfgang Wurst
Phone +498931874110
Organization name Helmholtz Zentrum München
Department Institute of Developmental Genetics
Street address Ingolstaedter Landstrasse 1
City Neuherberg
ZIP/Postal code 85764
Country Germany
Platform ID GPL24247
Series (1)
GSE149872 Rescuing voluntary motor behavior in a Parkinson´s disease model by aCRISPR mediated reprogramming of striatal astrocytes into induced GABAergic neurons
BioSample SAMN14833608
SRA SRX8248140

Supplementary file Size Download File type/resource
GSM4516244_MUC17745_filtered_feature_bc_matrix.h5ad.gz 6.5 Mb (ftp)(http) H5AD
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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