|
| Status |
Public on May 21, 2024 |
| Title |
vehicle |
| Sample type |
SRA |
| |
|
| Source name |
colorectal cancer AKPS organoid
|
| Organism |
Mus musculus |
| Characteristics |
cell line: colorectal cancer AKPS organoid
genotype: Villin-CreERT2;APCfl/fl;Tp53fl/fl;KrasG12D;Smad4KO
treatment: vehicle
|
| Treatment protocol |
AKPS organoids were dissociated into single cells and incubated with 2μg/mL rmPlexin B2 or vehicle in culture medium for 2 hours at 37°C.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Cells were filtered, counted and loaded onto a GemCode Single-cell Instrument (10X Genomics).
Libraries were generated following the manufacturer’s instructions from Chromium Next GEM Single Cell 3’end Reagent Kits v1.1 protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10x Genomics
|
| Data processing |
BCL files were demultiplexed using Bcl2fastq v2.20.0.422 from Illumina, then single cell count matrices were generated using Cell Ranger (v5.0.0, 10X Genomics) with GRCm38 v2020-A gene code.
Assembly: GRCm38
Supplementary files format and content: mm10
Supplementary files format and content: Tab-separated values files and matrix files.
|
| |
|
| Submission date |
May 21, 2024 |
| Last update date |
May 21, 2024 |
| Contact name |
Costanza Borrelli |
| E-mail(s) |
costanza.borrelli@bsse.ethz.ch
|
| Organization name |
ETH Zurich
|
| Street address |
Mattenstrasse 26
|
| City |
Basel |
| ZIP/Postal code |
4028 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE267981 |
In vivo interaction screening reveals liver-derived constraints to metastasis [scRNA-Seq] |
|
| Relations |
| BioSample |
SAMN41474838 |
| SRA |
SRX24622465 |
