|
| Status |
Public on Nov 15, 2019 |
| Title |
First instar larval brain cells, Normal condition (scRNAseq) 1 - sample 1 |
| Sample type |
SRA |
| |
|
| Source name |
Brain cells
|
| Organism |
Drosophila melanogaster |
| Characteristics |
strain: Wild type CS
developmental stage: First instar larval
tissue: brain
stress: control
|
| Growth protocol |
All flies were kept at 25°C in a 12h/12h light-dark cycle in vials containing conventional cornmeal agar medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Dissected brains in PBS were dissociated into single-cell suspensions by an enzimatic treatment with collagenase. mRNAs were obtained by applying 10X Genomics protocol for scRNAseq, Chromium Single Cell 3’ Library & Gel Bead Kit v2.
Libraries were constructed accoring to the manufacturer's guideline, for sequencing on a Illumina NovaSeq 6000
Libraries were prepared using the Chromium Single Cell 3’ Library & Gel Bead Kit v2 (10X Genomics)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Sample 1
|
| Data processing |
Sequenced libraries with processed with cell ranger pipeline (10X Genomics)
Each time, cell ranger count ran with the specific expected number of cells to recover.
Single datasets were later aggregated with cell ranger aggr pipeline.
Genome_build: The reference genome was built based on the 3rd 2018 FlyBase release (D. melanogaster r6.22)
Supplementary_files_format_and_content: Matrix files originated with cell ranger aggr pipeline
|
| |
|
| Submission date |
Jul 23, 2019 |
| Last update date |
May 14, 2020 |
| Contact name |
Simon Sprecher |
| E-mail(s) |
simon.sprecher@unifr.ch
|
| Organization name |
University of Fribourg
|
| Department |
Biology
|
| Lab |
Sprecher Lab
|
| Street address |
Chemin du Musée 10
|
| City |
Fribourg |
| State/province |
Fribourg |
| ZIP/Postal code |
1700 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL25244 |
| Series (1) |
| GSE134722 |
Single cell transcriptome atlas of the Drosophila larval brain |
|
| Relations |
| BioSample |
SAMN12343184 |
| SRA |
SRX6491477 |
