|
| Status |
Public on Feb 26, 2024 |
| Title |
tau P251L KI, replicate 2, scRNAseq |
| Sample type |
SRA |
| |
|
| Source name |
Brain
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: Brain
cell type: Brain cells
genotype: elav-tau P251L KI
treatment: Tau P251L mutant
|
| Extracted molecule |
total RNA |
| Extraction protocol |
20 male and 20 female Drosophila brain of the appropriate geneotype were dissected were dissected on ice cold Schneider’s medium. After a brief wash with PBS, the brains were incubated with 0.05% trypsin-EDTA (Fisher scientific) for 30 minutes, with continuous pipetting every 5 minutes. The dissociated tissue were filtered through a 10um cell strainer to get a single cell suspension.
10x libraries were constructed according to the manufacter’s instructions (Chromium Next GEM Single Cell 3' Kit v3.1).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10 X genomics
|
| Data processing |
The demultiplexing, barcoded processing, gene counting and aggregation were made using Cellranger, version 6.0, 10x Genomics.(https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
For Control 1, Control 3 and tauP251L KI 3 libraries were sequenced once with enough sequencing depth. For control 2, tau P251L KI 1 and tau P251L KI 2, the libraries were sequenced twice to get enough sequencing depth.
Assembly: Drosophila Melanogaster
Supplementary files format and content: Tab-separated values files and matrix files
|
| |
|
| Submission date |
Jan 20, 2023 |
| Last update date |
Feb 26, 2024 |
| Contact name |
Hassan Bukhari |
| E-mail(s) |
shbukhari@bwh.harvard.edu
|
| Phone |
2175520802
|
| Organization name |
Brigham and Womens hospital
|
| Department |
Pathology
|
| Lab |
Feany lab
|
| Street address |
77, Avenue Louise Pasteur
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL25244 |
| Series (1) |
| GSE223345 |
Gene expression profile at single cell levels of the cells from the controls and tau P251L Drosophila brain. |
|
| Relations |
| BioSample |
SAMN32812353 |
| SRA |
SRX19103947 |
