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In order to develop a comprehensive approach for the detection of mutations and to eventually identify other genes responsible for resistance to anti-EGFR moAbs, we investigated a panel of 21 genes by parallel sequencing on the Ion Torrent Personal Genome Machine platform.
The genomes of these four strains were obtained by massive parallel sequencing on an Illumina Hiseq 2000.
Genomic DNA was captured using Agilent in-solution enrichment methodology with their biotinylated oligonucleotides probes library (SureSelect Human All Exon v5 – 50 Mb, Agilent), according to the manufacturer's instructions, followed by paired-end 75 bases massively parallel sequencing on Illumina HiSeq 2500.
Reliable expression profiling by massively parallel sequencing depends crucially on the accuracy to which the reads could be mapped to the corresponding genes.
The sequence tags generated by massively parallel sequencing were aligned on the human genome (hg18) with the software ELAND, allowing up to 2 mismatches.
Chromatin immunoprecipitation followed by massively parallel sequencing (ChIP-Seq) was performed on bursal tissues obtained from MD-resistant line L63 and MD-susceptible line L72 chickens.
This was achieved by using multiplex PCR on bisulfite converted DNA followed by massively parallel sequencing using an Illumina MiSeq Sequencing platform with v3 chemistry.
Hi-C and 5C rely on the identification by massive parallel sequencing of ligation products between distant genomic loci that have come into close physical proximity in 3D.
This technique relies on multiplexed sample preparation followed by massive parallel sequencing and requires a significant informatics component for analysis [ 6].
In this study, we evaluated the downstream effects of extended processing times on the reliability of aneuploidy detection by massively parallel sequencing (MPS).
