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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Feb 19, 2020 |
| Title |
Regulating lineage progression of cortical neural stem cells by extrinsic signaling molecule SHH [single-cell RNA-seq] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose:To asses changes in gene expression profiles of single cell from the E16.5 wild type littermate controls cortex, and ShhN IUE (ShhN palsmid were electroporated to wild type mice cortex at E13.5 and the cortex were dissected at E16.5) mice.
Methords: E16.5 wild type and ShhN-IUE cortices were carefully dissected under a fluorescent stereoscope, and incubated in 4 ml of papain solution for 20 min at 37℃, The cortical tissues were gently triturated, filtered through a 40 mm strainer, and washed with HBSS to obtain the single cell suspension. The Chromium droplet-based sequencing platform (10X Genomics) was used to generate scRNA-seq libraries, following the manufacturer’s instructions. The cDNA libraries were purified, quantified using Agilent 2100 Bioanalyzer, and sequenced on the Illumina Hiseq4000
Results: 7834 cells (2368 median genes per cell) captured for the Control cortex. And 8538 cells with 2422 median genes per cell captured for Shh-IUE mice.
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| Overall design |
scRNA-seq: Individual cells were sampled from mice cortices of E16.5 wild type mice and ShhN IUE mice.
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| Contributor(s) |
Zhang Y, Liu G, Guo T, Liang XG, Du H, Yang L, Bhaduri A, Li X, Xu Z, Zhang Z, Li Z, He M, Tsyporin J, Kriegstein AR, Rubenstein JL, Yang Z, Chen B |
| Citation(s) |
32234482 |
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| Submission date |
Nov 21, 2019 |
| Last update date |
May 20, 2020 |
| Contact name |
Guoping Liu |
| E-mail(s) |
gpliu@fudan.edu.cn
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| Phone |
18521006300
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| Organization name |
Fudan University
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| Street address |
138 Yi Xue Yuan Road
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| City |
Shanghai |
| ZIP/Postal code |
200032 |
| Country |
China |
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| Platforms (1) |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE140817 |
Cortical Neural Stem Cell Lineage Progression Is Regulated by Extrinsic Signaling Molecule Sonic Hedgehog |
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| Relations |
| BioProject |
PRJNA591016 |
| SRA |
SRP231176 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE140816_CTL_barcodes.tsv.gz |
2.2 Mb |
(ftp)(http) |
TSV |
| GSE140816_CTL_genes.tsv.gz |
212.7 Kb |
(ftp)(http) |
TSV |
| GSE140816_CTL_matrix.mtx.gz |
84.2 Mb |
(ftp)(http) |
MTX |
| GSE140816_EXP_barcodes.tsv.gz |
2.2 Mb |
(ftp)(http) |
TSV |
| GSE140816_EXP_genes.tsv.gz |
212.7 Kb |
(ftp)(http) |
TSV |
| GSE140816_EXP_matrix.mtx.gz |
83.7 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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