|
| Status |
Public on Feb 27, 2024 |
| Title |
LymphNode ATG5 KO |
| Sample type |
SRA |
| |
|
| Source name |
Lymph node
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Lymph node
genotype: ATG5 KO
|
| Extracted molecule |
total RNA |
| Extraction protocol |
tumor draining lymph nodes (inguinal) were isolated and processed following the protocol described in (https://doi.org/10.1016/j.xpro.2022.101267). Single cell suspensions were stained with a Viability dye, CD45, CD31 and Ter119 antibodies for further sorting.
Library was performed according to the manufacter’s instructions (23-24117(02)).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
FASTQ files were mapped to the reference genome (mm10-2020-A) using the BD Rhapsody Sequence Analysis Pipeline v1.11
Assembly: mm10
Supplementary files format and content: .st.gz files with counts for each sample
|
| |
|
| Submission date |
Jun 06, 2023 |
| Last update date |
Feb 27, 2024 |
| Contact name |
Jana Roels |
| E-mail(s) |
jana.roels@vib.be, niels.vandamme@vib.be
|
| Organization name |
VIB
|
| Department |
VIB Single cell core
|
| Street address |
Technologiepark-Zwijnaarde 71
|
| City |
Zwijnaarde |
| ZIP/Postal code |
9052 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE234250 |
Gene expression profile at single level in tumor draining lymph nodes in wild type (DHO001) versus ATG5LEC-KO mice (DHO002) |
|
| Relations |
| BioSample |
SAMN35642067 |
| SRA |
SRX20601768 |
