characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2023-02-21T10:22:10Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2023-02-21T10:22:10Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA112653958
characteristics.characteristic: External Id
characteristics.text: Faculty of Biology, Medicine and Health, University of Manchester
characteristics.characteristic: INSDC center name
characteristics.text: 2023-02-21T10:22:10Z
characteristics.characteristic: INSDC first public
characteristics.text: 2023-02-21T10:22:10Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS14651669
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-12664:OE19_HiC_rep2
characteristics.characteristic: Submitter Id
characteristics.text: 72
characteristics.unit: year
characteristics.characteristic: age
characteristics.text: ArrayExpress
characteristics.characteristic: broker name
characteristics.text: OE19
characteristics.characteristic: cell_line
characteristics.text: epithelial cell
characteristics.characteristic: cell_type
characteristics.text: human
characteristics.characteristic: common name
characteristics.text: Protocols: OE19 cells were cultured in RPMI 1640 (ThermoFisher Scientific, 52400) supplemented with 10% foetal bovine serum (ThermoFisher Scientific, 10270). For biological replicates, cells were trypsineised and fixed in PBS containing 2% fresh formaldehyde and quenched with stop solution 1 as manufactured described (A510008, ARIMA Genomics). Cell pellets were stored at -80째C. The nuclei were prepared from 3 million cross-linked cell pellets (-80째C) using Nuclei EZ prep kit (NUC101, Sigma-Aldrich), followed by chromatin digestion with a cocktail of restriction enzymes,biotinylation, proximal ligation, proteinase K treatment and reverse crosslink, Ampure XP DNA purification, sonication (COVARIS S220) Ampure XP size selection and biotin T1 beads pull-down as manufactured described (A510008, ARIMA Genomics). HiC libraries were generated using Arima Library Prep module (A303011, ARIMA Genomics) as manufactured described. Briefly, pulled-down DNA was end-repaired and adapters ligated. The material was PCR amplified for 5 cycles.
characteristics.characteristic: description
characteristics.text: adult
characteristics.characteristic: developmental stage
characteristics.text: esophageal adenocarcinoma
characteristics.characteristic: disease
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: esophagus
characteristics.characteristic: organism part
characteristics.text: 2
characteristics.characteristic: replicate
characteristics.text: Homo sapiens
characteristics.characteristic: scientific_name
characteristics.text: male
characteristics.characteristic: sex
characteristics.text: OE19_HiC_rep2
characteristics.characteristic: title