DNA and RNA from iPSC lines were extracted using Qiagen Chemistry on a QIAcube automated extraction platform. Sample volume was checked using a BioMicroLab automated volume check system. The PicoGreen assay was used to measure the concentration of the samples, using both Beckman FX liquid handling platforms and Molecular Devices plate readers. Invitrogen E-Gels were run to check sample integrity; the loading of these gels was automated using Beckman FX/NX liquid handling platforms. A standard Fluidigm genotyping assay containing 24 SNPs (22 autosomal and 2 gender markers) was performed to produce a fingerprint of the samples, which was used to confirm sample identity after sequencing or genotyping. The gender markers also allowed for sample swaps and plate orientation issues to be identified prior to downstream analysis. Samples that passed quality control were quantified to 50 ng/µl by the onsite sample management team prior to submission for sequencing.
