characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2022-08-28T00:13:20Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2022-08-28T00:13:20Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA110670096
characteristics.characteristic: External Id
characteristics.text: ETH Zurich, DBSSE
characteristics.characteristic: INSDC center name
characteristics.text: 2022-08-28T00:13:20Z
characteristics.characteristic: INSDC first public
characteristics.text: 2022-08-28T00:13:20Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS12767674
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-12006:GLI3_native
characteristics.characteristic: Submitter Id
characteristics.text: 36
characteristics.unit: year
characteristics.characteristic: age
characteristics.text: ArrayExpress
characteristics.characteristic: broker name
characteristics.text: 409B2
characteristics.characteristic: cell_line
characteristics.text: neuron
characteristics.characteristic: cell_type
characteristics.text: human
characteristics.characteristic: common name
characteristics.text: Protocols: WT 23 day old cerebral organoids from human induced pluripotent stem cell line cell 409B2 were generated with the following protocol (Lancaster et al. 2014, https://doi.org/10.1038/nprot.2014.158 ). Single cell suspensions of 23 days old cerebral organoids were prepared using the Miltenyi Neural Tissue Dissociation Kit (P) (Miltenyi Biotec, 130-092-628) following the manufacturer’s guidelines. There were three different ways of treating the sample prior to processing. Cells were counted and directly transferred (native), fixed for 15 min in 1% PFA (PFA) or snap frozen in liquid nitrogen (snap) before transferring into Cut&Tag Wash buffer supplemented 0.01% Digitonin (20 mM HEPES pH 7.5; 150 mM NaCl; 0.5 mM Spermidine; 1× Roche Protease inhibitor cocktail). In each subexperiment, 1.5 Mio cells were used and incubated with 1.5 μg GLI3 antibody (AF3690 R&D systems). All following steps were performed as described. The proteinA-Tn5 was purified in house following Kaya-Okur, H. S. et al. 2019 (https://www.nature.com/articles/s41467-019-09982-5). Cells were counted and directly transferred into Cut&Tag Wash buffer supplemented 0.01% Digitonin (20 mM HEPES pH 7.5; 150 mM NaCl; 0.5 mM Spermidine; 1× Roche Protease inhibitor cocktail). Per experiment, 1.5 Mio cells were used and incubated with 1.5 µg GLI3 antibody (R&D systems, AF3690) . All following steps were performed as described by Kaya-Okur et al. 2019 (https://doi.org/10.1038/s41467-019-09982-5). The proteinA-Tn5 was purified in house following Kaya-Okur et al. 2019. Libraries were generated as described by Kaya-Okur et al. 2019 (https://doi.org/10.1038/s41467-019-09982-5).
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: cerebral organoid culture
characteristics.characteristic: growth condition
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: dermis
characteristics.characteristic: organism part
characteristics.text: induced pluripotent stem cell
characteristics.characteristic: progenitor cell type
characteristics.text: Homo sapiens
characteristics.characteristic: scientific_name
characteristics.text: female
characteristics.characteristic: sex
characteristics.text: GLI3_native
characteristics.characteristic: title