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Series GSE85721 Query DataSets for GSE85721
Status Public on Aug 16, 2016
Title Single nuclei RNA-seq from adult mouse Hippocampus
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We report RNA-seq of single nuclei isolated from the adult C57BL/6 male mouse Hippocampus region. Majority of the nuclei were isolated from 12 weeks old mice (4 different animal), with an additional set of nuclei from 3 months and 2 years old animals. In addition a set of GFP labeled nuclei driven by a VGAT promoter .
 
Overall design Microdissections of dentate gyrus, CA1 and CA2/3 regions of the Hippocampus were placed into ice-cold RNA-later for fixation and stored at 4∘c overnight, then stored in -80∘c. Nuclei were isolated by sucrose gradient centrifugation and kept on ice until sorting using Fluorescence Activated Cell Sorting (FACS) into 96 well plates containing RNA lysis buffer. Single nucleus RNA was first purified then derived cDNA libraries were generated following a modified Smart-seq2 protocol. For VGAT nuclei: high titer AAV1/2 of pAAV-EF1a-DIO-EYFP-KASH-WPRE-hGH-polyA was injected into dorsal and/or ventral Hippocampus, animals were sacrificed two weeks after injections, and GFP labeled nuclei were sorted into plates and processed as described above.
 
Contributor(s) Habib N
Citation(s) 27471252
Submission date Aug 16, 2016
Last update date May 15, 2019
Contact name Naomi Habib
Organization name Broad Institute
Department Zhang
Lab Zhang
Street address 75 Ames st
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (924)
GSM2282271 Nucleus from Hippocampus brain region A1-P1-DG_S100_L001_R1
GSM2282272 Nucleus from Hippocampus brain region A1-P1-DG_S101_L001_R1
GSM2282273 Nucleus from Hippocampus brain region A1-P1-DG_S102_L001_R1
This SubSeries is part of SuperSeries:
GSE84371 Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons
Relations
BioProject PRJNA339170
SRA SRP082327

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Supplementary file Size Download File type/resource
GSE85721_PROCESSED_data.sNuc-Seq_Data_RSEM_log_TPM.for_GEO.txt.gz 15.0 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record
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