title: Whole Exome-seq of SCCIS: Sample 54212_tum
design: "Following purification of laser microdissected DNA, quantification was carried out using two independent methods: the fluorescence-based Qubit DNA high sensitivity assay (Thermo Fisher Scientific, Waltham, MA) and the PCR-based hg Quant and QC assay (Kapa Biosystems Inc, Wilmington, MA.) that detects a 41 base pair (bp) PCR product.  DNA quality was assessed with the PCR-based hg Quant and QC assay (Kapa Biosystems Inc, Wilmington, MA.).  The concentration (ng/ul) of each sample was determined according to protocol. Samples with a Q value of 0.4 or greater and a minimum total yield of approximately 50 ng of DNA were used used for library construction using the Agilent Haloplex Exome platform according to manufacturer's instructions (Agilent Technologies, Santa Clara, CA). DNA input ranged from 50 ng to 225 ng. Exome libraries were quantified using the PCR-based Library Quant assay (PCR based) from Kapa Biosystems (Wilmington, MA.), and had final concentrations ranging between 1.7 and 77 nM.  Library quality (fragment size distribution) was determined using the Bioanalyzer (Agilent Technologies, Santa Clara, CA). Samples with greater than 10% primer-dimer of total library (by molarity) were treated with an additional purification using Ampure XP beads according to the Agilent Haloplex Exome protocol."
library_name: 54212_tum_FGC1248_5