characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2023-09-03T00:29:42Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2023-09-03T00:29:42Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA112849068
characteristics.characteristic: External Id
characteristics.text: Maastricht University, Maastricht, The Netherlands
characteristics.characteristic: INSDC center name
characteristics.text: 2023-09-03T00:29:42Z
characteristics.characteristic: INSDC first public
characteristics.text: 2023-09-03T00:29:42Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS14855689
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-12830:ATACSeq_DINP_6
characteristics.characteristic: Submitter Id
characteristics.text: 35
characteristics.unit: year
characteristics.characteristic: age
characteristics.text: ArrayExpress
characteristics.characteristic: broker name
characteristics.text: Nthy-ori 3-1
characteristics.characteristic: cell_line
characteristics.text: thyroid follicular cell
characteristics.characteristic: cell_type
characteristics.text: human
characteristics.characteristic: common name
characteristics.text: Protocols: The human epithelial thyroid cell line Nthy-ori 3-1 was plated at a density of 10,000 cells/cm2 on 6-well plates and cultured in RPMI 1640 Medium with GlutaMAX™ Supplement (61870036, Gibco), 10% FBS and Penicillin-Streptomycin (15140122, Gibco) and incubated at 37 ºC, 5% pCO2 and >95% humidity. Cells were left one day to adhere, and the following day the media was changed to culture media with DEHP (n=6) or DINP (n=6) at 1 uM in 0.5% DMSO. As solvent control, the culture media was additioned with just 0.5% DMSO (n=6). Cells were incubated for 5 days refreshing the media with the compound or DMSO only at day 3. At the end of the incubation period, cells were collected and counted manually. 50,000 cells per sample were used to prepare ATAC-Seq libraries. Libraries were prepared following the Omni-Atac protocol of Corces et al. 2017 [45] with the replacement of NP40 from the original protocol with IGEPAL (Merck, I8896-50ml). The tagmentase kit used was Illumina Tagment DNA Enzyme and Buffer Small Kit (Illumina, 20034197) and the indexes IDT® for Illumina® DNA/RNA UD Indexes Set A, Tagmentation (96 Indexes, 96 samples) (Illumina, 20027213). Seven PCR cycles were used for all samples. ATAC-Seq libraries were quantified on a Qubit 2.0 Fluorometer (ThermoFisher) and quality control checked on the 2200 TapeStation System (Agilent) or BioAnalyzer 2100 expert (Agilent).
characteristics.characteristic: description
characteristics.text: adult
characteristics.characteristic: developmental stage
characteristics.text: normal
characteristics.characteristic: disease
characteristics.text: wild type genotype
characteristics.characteristic: genotype
characteristics.text: human thyroid cell culture
characteristics.characteristic: growth condition
characteristics.text: not applicable
characteristics.characteristic: isolate
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: thyroid gland
characteristics.characteristic: organism part
characteristics.characteristic: progenitor cell type
characteristics.text: Homo sapiens
characteristics.characteristic: scientific_name
characteristics.text: female
characteristics.characteristic: sex
characteristics.text: ATACSeq_DINP_6
characteristics.characteristic: title