characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2021-09-19T00:25:04Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2021-09-19T00:25:04Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA10111031
characteristics.characteristic: External Id
characteristics.text: Medical College of Wisconsin
characteristics.characteristic: INSDC center name
characteristics.text: 2021-09-19T00:25:04Z
characteristics.characteristic: INSDC first public
characteristics.text: 2021-09-19T00:25:04Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS7767589
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-10909:Hour 24 rep3
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: iKras 4292
characteristics.characteristic: cell line
characteristics.text: pancreatic cell
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0002966
characteristics.characteristic: cell type
characteristics.text: house mouse
characteristics.characteristic: common name
characteristics.text: Protocols: iKras-p53* cell line 4292 was maintained in complete media (RPMI, Gibco 11875 with 10% fetal bovine serum and 1ug/mL doxycycline) to continually express constitutively active KrasG12D. To initiate the time course, cells were counted and split to 5E5 cells per 100mm dish and allowed to attach overnight. The following morning, 0 hour was collected per RNA/DNA/ChIP/ protocols and doxycycline (1ug/mL) was added to media and allowed to incubate for 12, 24, and 48 hours prior to harvest. For ATAC-seq, iKras-p53* 4292 pellets of 5x103 cells were collected at 0 and 24h ours and resuspended in ATAC buffer and processed as described by Volk et al (A CHAF1B-Dependent Molecular Switch in Hematopoiesis and Leukemia Pathogenesis. 2018. Cancer cell 34, 707-723.e707). Briefly, the genome was fragmented by tagmentation, DNA fragments purified, and sequencing and indexing primers added by PCR. Additional cycles of amplification, ranging from 10-14 cycles, was completed to minimally increase library content. Libraries were recovered with the MinElute PCR Cleanup kit (Qiagen, 28004) and size selected for fragment sizes of 100-500 bp with AMPure XP beads (Beckman Coulter, A63881).
characteristics.characteristic: description
characteristics.text: pancreatic adenocarcinoma
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_1000044
characteristics.characteristic: disease
characteristics.text: inducible Kras*p53*
characteristics.characteristic: genotype
characteristics.text: complete medium with doxycycline
characteristics.characteristic: growth condition
characteristics.text: Mus musculus
characteristics.characteristic: organism
characteristics.text: Mus musculus
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_10090
characteristics.characteristic: organism
characteristics.text: pancreas
characteristics.characteristic: organism part
characteristics.text: expression of constitutively active KrasG12D
characteristics.characteristic: phenotype
characteristics.text: Mus musculus
characteristics.characteristic: scientific_name
characteristics.text: Hour 24 rep3
characteristics.characteristic: title