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Series GSE112846 Query DataSets for GSE112846
Status Public on Jul 13, 2018
Title scRNA-seq of a suite of transgenic driver and reporter mouse lines with enhanced brain cell type targeting and functionality
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Modern genetic approaches are powerful in providing access to diverse types of neurons within the mammalian brain and greatly facilitating the study of their function. We describe the TIGRE2.0 transgenic platform and introduce Cre-dependent reporter lines that enable optical physiology, optogenetics, and sparse labeling of genetically-defined cell populations. TIGRE2.0 reporters broke the barrier in transgene expression level of single-copy targeted-insertion transgenesis in a wide range of neuronal types, along with additional advantage of a simplified breeding strategy compared to our first-generation TIGRE lines. These novel transgenic lines greatly expand the repertoire of high-precision genetic tools available to effectively identify, monitor, and manipulate distinct cell types in the mouse brain. Here, we characterize the transcriptome of a subset of these new lines by scRNA-seq.
 
Overall design scRNA-seq of 4,776 cells from primary visual cortex (VISp) and anterior lateral motor cortex (ALM) in the mouse brain.
 
Contributor(s) Daigle TL, Madisen L, Hage TA, Valley MT, Knoblich U, Larsen RS, Takeno MM, Huang L, Gu H, Larsen R, Mills M, Bosma-Moody A, Siverts L, Walker M, Graybuck LT, Yao Z, Fong O, Nguyen TN, Garren E, Lenz G, Chavarha M, Pendergraft J, Harrington J, Hirokawa KE, Harris JA, Nicovich R, McGraw M, Ollerenshaw DR, Smith K, Baker CA, Ting JT, Sunkin SM, Lecoq J, Lin MZ, Boyden ES, Murphy GJ, da Costa N, Waters J, Li L, Tasic B, Zeng H
Citation(s) 30007418
Submission date Apr 09, 2018
Last update date Mar 21, 2019
Contact name Lucas T Gray
E-mail(s) lucasg@alleninstitute.org
Organization name Allen Institute for Brain Science
Department Molecular Genetics
Lab Tasic
Street address 615 Westlake Ave N
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
 
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (4776)
GSM3084944 US-1250273_E1_S01
GSM3084945 US-1250273_E1_S02
GSM3084946 US-1250273_E1_S03
Relations
BioProject PRJNA449300
SRA SRP139086

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
GSE112846_star_exon_counts.csv.gz 86.7 Mb (ftp)(http) CSV
GSE112846_star_intron_counts.csv.gz 41.8 Mb (ftp)(http) CSV
GSE112846_star_synthetic_counts.csv.gz 566.9 Kb (ftp)(http) CSV
GSE112846_synthetic_constructs.fasta.gz 29.6 Kb (ftp)(http) FASTA
GSE112846_synthetic_constructs.gtf.gz 2.7 Kb (ftp)(http) GTF
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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