characteristics.text: 2024-01-01
characteristics.characteristic: ENA first public
characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: College of Medicine, Health and Life Science, Brunel University London, Center of Genomic Engineering and Maintenance (CenGem)
characteristics.characteristic: INSDC center name
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS18323941
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-13826:PNUTS_IAA_rep1
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.characteristic: broker name
characteristics.text: HCT116
characteristics.characteristic: cell_line
characteristics.text: epithelial cell
characteristics.characteristic: cell_type
characteristics.text: not collected
characteristics.characteristic: collection date
characteristics.text: human
characteristics.characteristic: common name
characteristics.text: Protocols: Cells were treated with 2 μg/ml doxycycline and 0.06 μg/ml nocodazole, 24 and 18 h respectively, before the addition of 1 mM IAA to induce degradation of mAID-tagged proteins. After 4 h treatment with IAA, mitotic cells were manually detached by shake-off, and cells were transferred to new poly-L-lysin coated dishes. Once attached, cells were washed 3x with PBS and released from mitosis into G1 for 18 h in a fresh medium containing 2 mM thymidine.Cells were treated 30min with DNAseI, washed with PBS, detached with TrypLE, counted and pelleted by centrifugation. Cell pellet containing 100 000 cells was sent in dry-ice package to Active Motif S.A. Cells are lysed with a nonionic detergent to yield pure nuclei.  The resulting chromatin is then fragmented and simultaneously tagmented with sequencing adapters using the Tn5 transposase to generate the ATAC-Seq library. After purification, the library can be amplified by PCR using barcoded primers.
characteristics.characteristic: description
characteristics.text: adult
characteristics.characteristic: developmental stage
characteristics.text: colorectal carcinoma
characteristics.characteristic: disease
characteristics.text: AID-degron PNUTS
characteristics.characteristic: genotype
characteristics.text: not collected
characteristics.characteristic: geographic location (country and/or sea)
characteristics.text: not applicable
characteristics.characteristic: isolate
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: colon
characteristics.characteristic: organism part
characteristics.text: Homo sapiens
characteristics.characteristic: scientific_name
characteristics.text: PNUTS_IAA_rep1
characteristics.characteristic: title