WES_Homo-sapiens_ECD/LCH_Tumor: Sample MSKLCH38-T
"Approximately 250 ng of DNA from each sample was sheared to an average of 150 bp in a Covaris instrument for 360 seconds (duty cycle, 10%; intensity, 5; cycles/burst, 200). Bar-coded libraries were prepared using the Kapa Low-Throughput Library Preparation Kit Standard (Kapa Biosystems), amplified using the KAPA HiFi Library Amplifi cation Kit (Kapa Biosystems; 8 cycles), and quantified using Qubit Fluorimetric Quantitation (Invitrogen) and Agilent Bioanalyzer. An equimolar pool of the 4 bar-coded libraries (300 ng each) was used as input to capture the exome using one reaction tube of the Nimblegen SeqCap EZ Human Exome Library v3.0 (Roche; cat no. 06465684001), according to the manufacturer's protocol. The pooled capture library was quantified by Qubit (Invitrogen) and Bioanalyzer (Agilent) and sequenced on an Illumina HiSeq 2500 using a paired end, 100 nucleotide in length run mode, to achieve an average of 100x coverage."
alignment_software
bwa