DNA was then processed as previously described (41 (link),42 (link)). DNA libraries were validated and processed with Illumina cBot for cluster generation on the flowcell, following the manufacturer's instructions. The libraries were sequenced on single-end 50 bp mode on HiSeq2500 (Illumina) at a depth of ∼30–50 million sequences per sample. CASAVA 1.8.2 version (Illumina pipeline) was used to processed raw data for both format conversion and de-multiplexing.
Protocol detail
Single-end DNA Sequencing on HiSeq2500
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Dna libraries
Corresponding Organization : Tumour Institute of Tuscany
Other organizations : University of Padua, Istituto Superiore di Sanità, Fondazione IRCCS Istituto Nazionale dei Tumori
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Variable analysis
independent variables
- DNA processing as previously described (41, 42)
- DNA library validation
- DNA library processing with Illumina cBot for cluster generation on the flowcell
- DNA library sequencing on single-end 50 bp mode on HiSeq2500 (Illumina) at a depth of ∼30–50 million sequences per sample
- Manufacturer's instructions for Illumina cBot and sequencing
- CASAVA 1.8.2 version (Illumina pipeline) for raw data processing, format conversion, and de-multiplexing
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