2024-10-16
ENA first public
ERC000011
ENA-CHECKLIST
Institute of Molecular Oncology, Philipps-University Marburg
INSDC center name
public
INSDC status
ERS18417577
SRA accession
E-MTAB-13904:HCT116-SPLINTR-DMSO
Submitter Id
ArrayExpress
broker name
HCT116
cell_line
colorectal cancer cell
cell_type
not collected
collection date
human
common name
Protocols: Ten individually generated single cell clones of different HCT116 mut/Δ cell lines were labeled by lentiviral transduction with a specific combination of expressed SPLINTR barcodes (gift from Mark Dawson, Addgene #179774 and #179775). TP53 variants were encoded by GFP-coupled barcodes, clone IDs by mCherry-coupled barcodes.  All barcoded cell clones were pooled and split into two aliquots. One aliquot was treated with 10 µM N3a, the other with the corresponding volume DMSO for 24 h.   The Evercode WT v2 kit (Parse Biosciences) uses the fixed cells itself as reaction vessel for the reserve transcription so there is no nucleic acid extraction as such. Fixation and permeabilization was performed using the Evercode Cell Fixation v3 product according to manufacturer's instructions. Single-cell RNA sequencing libraries were prepared from both pools using the Evercode WT v2 kit (Parse Biosciences) according to manufacturer’s protocol. Quality of sequencing libraries was controlled on a Bioanalyzer using the Agilent High Sensitivity DNA Kit (Agilent) and quantified with the Qubit dsDNA-HS-Assay-Kit (Thermo Fisher Scientific).
description
adult
developmental stage
colorectal carcinoma
disease
mixed
genotype
not collected
geographic location (country and/or sea)
not applicable
isolate
Homo sapiens
organism
Homo sapiens
organism
colorectum
organism part
Homo sapiens
scientific_name
HCT116-SPLINTR-DMSO
title