GSM4878895: SK-N-Be2C WT, Clone 2, Batch 1 [BeC2_1]; Homo sapiens; RNA-Seq
Total RNA from cell lines and tumors was extracted using RNeasy or miRNeasy mini kit (Qiagen, Hilden, Germany), respectively according to manufacturer instructions. RNA was quantified using Qubit Fluorometer (Life Technologies, Carlsbad, CA, USA) and RNA integrity was verified using the Agilent 2100 Bioanalyzer system (Agilent Technologies). RNAseq was performed at the iGE3 Genomics platform (University of Geneva). The total RNA ribo-zero gold kit from Illumina was used for the library preparation with 1 µg or 500 ng of total RNA as input for cells (n=3 biological replicates/group) and tumors (n=4/group), respectively. Library molarity and quality were assessed with the Qubit and Tapestation using a DNA High sensitivity chip (Agilent Technologies). Libraries were pooled at 2 nM and loaded for clustering on 1.5 lanes for cells and 1.5 lanes for tumors of a Single-read Illumina Flow cell. Reads of 100 bases were generated using the TruSeq SBS chemistry on an Illumina HiSeq 4000 sequencer.