|
| Status |
Public on Jan 24, 2024 |
| Title |
UM53-TKO-MRTX-500-P8 |
| Sample type |
SRA |
| |
|
| Source name |
UM53
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: UM53
treatment: MRTX849, 500nM
|
| Treatment protocol |
The positive and negative selections of the guide sequences in ASPC1 cells were carried out using 0.1% DMSO and MRTX1133 (6.25 nM). For the UM53 the selectio was performed using 0.1% DMSO and MRTX849 (500 nM)
|
| Growth protocol |
UM53 and ASPC1 cell lines were grown in RPMI media supplemented with 10% FBS. The cellswere maintained in 37°C with 5% CO2 and tested to be mycoplasma-free.
|
| Extracted molecule |
other |
| Extraction protocol |
Genomic DNA exptration was carried out using the Wizard Genomic DNA purification kit (Promega, A1120) according to the manufacturer's protocol
A two step PCR was performed to enrich guide RNA regions in the genome and to amplify the guide RNAs with Illumina TruSeq adapters with i5 and i7 indices.
|
| |
|
| Library strategy |
OTHER |
| Library source |
other |
| Library selection |
other |
| Instrument model |
NextSeq 2000 |
| |
|
| Description |
RS-03946263_S3
|
| Data processing |
Adapter trimming with trimGalore!, followed by runing mageck(v.5.9) using the Toronto KnockOut (TKO) CRISPR Library - Version 3.
Assembly: NA
Supplementary files format and content: ASPC1-UM53-TKOv3.count.txt, raw count, tab delimited text file.
Supplementary files format and content: ASPC1-UM53-TKOv3.count_normalized.txt, normalized counts, tab delimited text file.
|
| |
|
| Submission date |
Dec 06, 2023 |
| Last update date |
Jan 24, 2024 |
| Contact name |
Jianxin Wang |
| Organization name |
Roswell Park Comprehensive Cancer Center
|
| Department |
Molecular and Cellular Biology
|
| Street address |
665 Elm Street
|
| City |
Buffalo |
| State/province |
NY |
| ZIP/Postal code |
14203 |
| Country |
USA |
| |
|
| Platform ID |
GPL30173 |
| Series (2) |
| GSE249537 |
Extracellular niche and tumor microenvironment enhance the impact of KRAS inhibitors in pancreatic cancer models [CRISPR] |
| GSE249541 |
Extracellular niche and tumor microenvironment enhance the impact of KRAS inhibitors in pancreatic cancer models. |
|
| Relations |
| BioSample |
SAMN38699599 |
| SRA |
SRX22806473 |
