characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2022-09-01T00:14:27Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2022-09-01T00:14:27Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA110684776
characteristics.characteristic: External Id
characteristics.text: ETH Zurich, DBSSE
characteristics.characteristic: INSDC center name
characteristics.text: 2022-09-01T00:14:27Z
characteristics.characteristic: INSDC first public
characteristics.text: 2022-09-01T00:14:27Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS12782336
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-12003:A4_SHH
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: human
characteristics.characteristic: common name
characteristics.text: Protocols: Brain organoids were harvested on day 19 to perform 10x multiome scRNA- and scATAC-seq. Single cell suspensions were acquired by dissociation of the organoids with a papain-based dissociation (Miltenyi Biotec, 130-092-628). The induced pluripotent stem cell line 409B2 was used for this experiment. The wild type GLI3-mediated cell line with inducible Cas9 nickase were generated through editing process. GLI3 WT cerebral organoids were generated using the protocol by Lancaster 2014 (https://doi.org/10.1038/nprot.2014.158 ), and were treated with or without 200 ng/mL Sonic Hedgehog (SHH, R&D systems, 1845-SH-025/CF) daily starting three days prior to the experiment on day 19. After dissociation, cell viability was checked, cells were counted and 7000 cells were targeted per lane of the 10x microfluidic chip. Combined scRNA-seq and scATAC-seq were generated with the Chromium Single Cell Multiome ATAC + Gene Expression kit.
characteristics.characteristic: description
characteristics.text: adult
characteristics.characteristic: developmental stage
characteristics.text: normal
characteristics.characteristic: disease
characteristics.text: inducible Cas9 nickase
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: A4_SHH
characteristics.characteristic: title