title: GSM4555612: D1914583; Homo sapiens; OTHER
library_construction_protocol: Genomic DNA extraction  Cell pellets were dissolved in 150µl PBS. Genomic DNA was subsequently extracted by QIAcube (Qiagen) using the QiaAmp Blood mini kit (250, Qiagen) consisting of AL, AE, AW1 and AW2 buffers, Qiagen protease, QIAmp mini spin columns and collection tubes. DNA extraction was conducted according to the manufacturer's instructions. DNA concentrations were measured by using the Dropquant software of the Dropsense. Samples were diluted appropriately and used for exome sequencing, sWGS and ddPCR. Shallow Whole Genome Sequencing (sWGS)  For shallow depth WGS (sWGS), 312ng of extracted gDNA was first diluted in TE buffer (12090-015, Invitrogen) to a total volume of 50µl. Next the gDNA was sheared with the help of a Covaris LE220+ focused-ultrasonicator (200bp). The sheared gDNA was subsequently transferred to the Hamilton Star® for automated library preparation where after library con-centration measurements were conducted using the Qubit fluorometer HS kit. Finally, the li-brary pools were sequenced using the HiSeq3000. Each genome profile (line view and chro-mosome view) was manually checked for aberrations. All profiles were visualized using the online tool Vivar (http://cmgg.be/vivar/)(Sante et al., 2014).
attributes.tag: GEO Accession
attributes.value: GSM4555612