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Series GSE106678 Query DataSets for GSE106678
Status Public on Dec 07, 2017
Title Dissecting cell-type composition and activity-dependent transcriptional state in mammalian brains by massively parallel single-nucleus RNA-Seq
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Massively parallel single-cell RNA sequencing can precisely resolve cellular diversity in a high-throughput manner at low cost, but unbiased isolation of intact single cells from complex tissues, such as adult mammalian brains, is challenging. Here, we integrate sucrose-gradient assisted nuclei purification with droplet microfluidics to develop a highly scalable single-nucleus RNA-Seq approach (sNucDrop-Seq), which is free of enzymatic dissociation and nuclei sorting. By profiling ~18,000 nuclei isolated from cortical tissues of adult mice, we demonstrate that sNucDrop-Seq not only accurately reveals neuronal and non-neuronal subtype composition with high sensitivity, but also enables in-depth analysis of transient transcriptional states driven by neuronal activity, at single-cell resolution, in vivo.
Overall design Single-nucleus RNA sequencing analysis of adult mouse cerebral cortex
Contributor(s) Hu P, Fabyanic E, Kwon D, Tang S, Zhou Z, Wu H
Citation(s) 29220646
NIH grant(s)
Grant ID Grant title Affiliation Name
DP2 HL142044 Charting oxygen-sensing gene regulatory network in cardiomyocytes through single-cell analysis and epigenome editing UNIVERSITY OF PENNSYLVANIA Hao Wu
R00 HG007982 Genomic and functional analysis of active DNA demethylation in mammalian cells UNIVERSITY OF PENNSYLVANIA Hao Wu
Submission date Nov 08, 2017
Last update date May 15, 2019
Contact name Hao Wu
Phone 215-573-9360
Organization name University of Pennsylvania
Department Genetics
Lab Hao Wu
Street address 415 Curie Boulevard
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (19)
GSM2845359 cell-3T3
GSM2845360 nuclei-3T3
GSM2845361 nuclei-ctx-1
BioProject PRJNA417665
SRA SRP124611

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Supplementary file Size Download File type/resource
GSE106678_RAW.tar 75.3 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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