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| Status |
Public on Jul 20, 2023 |
| Title |
MUC13693 |
| Sample type |
SRA |
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| Source name |
Sympathetic ganglion
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| Organism |
Mus musculus |
| Characteristics |
tissue: Sympathetic ganglion
strain: C57Bl/6N
age: 8-12 weeks old
Sex: male
disease state: none
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
After harvest and cleaning, ganglionic tissue was incubated in artificial cerebrospinal fluid (ACSF) oxygenated by Carbogen with a stabile pH of 7.4 at 37°C for 2 hours. SCGs were then dissociated to single cells with collagenase II and proceeded for single cell capture, barcoding and library preparation (10x genomics).
Barcoding and library preparation was done using Chromium single cell 3’ (v3, 10x Genomics).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
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| Description |
10x Genomics
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| Data processing |
bcl2fastq for basecalling, fastq conversion and demultiplexing
cellranger v5.0.0 for alignment, filtering, barcode counting, UMI counting
Assembly: mm10
Supplementary files format and content: Feature-Barcode Matrices from cellranger (10x Genomics)
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| Submission date |
May 05, 2023 |
| Last update date |
Sep 01, 2023 |
| Contact name |
Karin A. Ziegler |
| E-mail(s) |
[email protected]
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| Organization name |
Technical University of Munich
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| Street address |
Biedersteiner Str. 29
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| City |
Munich |
| ZIP/Postal code |
80802 |
| Country |
Germany |
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| Platform ID |
GPL21103 |
| Series (2) |
| GSE231766 |
single-cell RNA-seq of healthy (ctrl) and heart diseased (TAC) SCGs |
| GSE231767 |
heart healthy and heart diseased SCGs |
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| Relations |
| BioSample |
SAMN34663812 |
| SRA |
SRX20232864 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7300193_MUC13693_barcodes.tsv.gz |
114.8 Kb |
(ftp)(http) |
TSV |
| GSM7300193_MUC13693_features.tsv.gz |
512.0 Kb |
(ftp)(http) |
TSV |
| GSM7300193_MUC13693_matrix.mtx.gz |
106.5 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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