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| 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.
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| Overall design |
Single-nucleus RNA sequencing analysis of adult mouse cerebral cortex
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| |
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| 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 |
| E-mail(s) |
haowu2@pennmedicine.upenn.edu
|
| 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 |
| |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (19)
|
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| Relations |
| BioProject |
PRJNA417665 |
| SRA |
SRP124611 |
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