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Sample GSM7949446 Query DataSets for GSM7949446
Status Public on Jan 24, 2024
Title UM53-TKO-DMSO-T3-P8
Sample type SRA
Source name UM53
Organism Homo sapiens
Characteristics cell line: UM53
treatment: DMSO
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-03988094_S2
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 Erik Knudsen
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.
BioSample SAMN38699597
SRA SRX22806475

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA

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