2024-06-01
ENA first public
ERC000011
ENA-CHECKLIST
SAMEA113581143
External Id
Center for Omics Sciences IRCCS Ospedale San Raffaele
INSDC center name
2023-06-09T09:35:58Z
INSDC last update
public
INSDC status
ERS15576052
SRA accession
E-MTAB-13051:19829-EPI
Submitter Id
ArrayExpress
broker name
tumor-derived primary cell line
cell_line
not provided
collection date
house mouse
common name
Protocols: Tumor-explant-derived cell lines were collected from GEM model primary pancreatic tumors using mechanical and chemical dissociation with 2mg/mL Dispase and 2mg/mL Collagenase IV. After 1h incubation at 37C 5%CO2, cells were centrifuged at 200 g for 5 minutes. Single cell suspensions were plated in a sufficient amount of medium. Short-term cultures were obtained; epithelial (EPI) and mesenchymal (MS) populations from the same tumor were derived with ganciclovir (GCV) treatment (5uM) in vitro. After stabilization of EPI and MS populations, cells were collected with trypsinization, centrifuged at 200g for 5 minutes, resuspended in Bambanker and stored in liquid nitrogen for downstream processing Nucleic acids were directly processed on intact cells following standard Chromium Single Cell 3' Reagent v3 chemistry protocol (10X Genomics) using Chromium platform (10x Genomics). Target cell recovery was 5'000. Libraries were prepared using Chromium Single Cell 3' Reagent v3 chemistry protocol (10X Genomics). Library quality was assessed using TapeStation (Agilent Technologies). Libraries were sequenced on NovaSeq 6000 platform (Illumina) aiming at 50'000 clusters/cell.
description
pancreatic cancer
disease
not provided
geographic location (country and/or sea)
not applicable
isolate
Mus musculus
organism
Mus musculus
organism
pancreas
organism part
epithelial
phenotype
tumor
sampling site
Mus musculus
scientific_name
19829-EPI
title