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Series GSE97930 Query DataSets for GSE97930
Status Public on Dec 11, 2017
Title Integrative single-cell analysis of transcriptional and epigenetic states in the human adult brain [snDrop-seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Detailed characterization of the cell types in the human brain requires scalable experimental approaches to examine multiple aspects of the molecular state of individual cells, as well as computational integration of the data to produce unified cell-state annotations. Here we report improved high-throughput methods for single-nucleus droplet-based sequencing (snDrop-seq) and single-cell transposome hypersensitive site sequencing (scTHS-seq). We used each method to acquire nuclear transcriptomic and DNA accessibility maps for >60,000 single cells from human adult visual cortex, frontal cortex, and cerebellum. Integration of these data revealed regulatory elements and transcription factors that underlie cell-type distinctions, providing a basis for the study of complex processes in the brain, such as genetic programs that coordinate adult remyelination. We also mapped disease-associated risk variants to specific cellular populations, which provided insights into normal and pathogenic cellular processes in the human brain. This integrative multi-omics approach permits more detailed single-cell interrogation of complex organs and tissues.
Overall design Single DAPI+ nuclei (according to the Samples list) were isolated from the visual cortex (BA17), frontal cortex (BA6 or BA10), and cerebellar hemisphere from 6 different postmortem adult human brains and were processed for single-nucleus Drop-seq (snDrop-seq).

This series contains data only for snDrop-Seq.
Contributor(s) Lake BB, Chen S, Sos BC, Fan J, Yung YC, Chun J, Kharchenko PV, Zhang K
Citation(s) 29227469
Submission date Apr 18, 2017
Last update date Mar 18, 2022
Contact name Kun Zhang
Organization name UCSD
Street address 9500 Gilman Drive
City La Jolla
State/province California
ZIP/Postal code 92093
Country USA
Platforms (2)
GPL15520 Illumina MiSeq (Homo sapiens)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (46)
GSM2581267 Occ1
GSM2581268 Occ4
GSM2581269 Occ5
This SubSeries is part of SuperSeries:
GSE97942 Integrative single-cell analysis of transcriptional and epigenetic states in the human adult brain
BioProject PRJNA383372
SRA SRP104166

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE97930_CerebellarHem_snDrop-seq_UMI_Count_Matrix_08-01-2017.txt.gz 6.0 Mb (ftp)(http) TXT
GSE97930_FrontalCortex_snDrop-seq_UMI_Count_Matrix_08-01-2017.txt.gz 12.0 Mb (ftp)(http) TXT
GSE97930_README.txt 3.0 Kb (ftp)(http) TXT
GSE97930_VisualCortex_snDrop-seq_UMI_Count_Matrix_08-01-2017.txt.gz 27.0 Mb (ftp)(http) TXT
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Processed data are available on Series record

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