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For statistical analysis of differential miRNA expression between the heart and embryo the single and multiplex sequencing runs were treated as technical replicates in the Limma based statistical analysis for differential expression.
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The multiplex MiSeq sequencing run provided sufficient sequencing reads to map [ 12] between 554,953 and 30,584 CAGE tags to the rat reference genome after discarding reads matching to rRNA sequences or resembling oligonucleotide artifacts ("tag dust", [ 13]).
Additionally, techniques such as multiplex sequencing allow one run to contain hundreds of different samples.
No evidence of interspecific recombination was detected, consistent with the rarity of recombination in plant plastomes [ 25]. "/" indicates accession was multiplex sequenced in two sequencing runs.
Amplicon libraries of V6 were generated from the 454 cDNA libraries of MD 257, MD 80228, and MD OCT-pool and subjected to multiplex pyrosequencing on a Roche GS FLX sequencer (for properties of amplicon sequencing runs, see Table S1).
Representative purified long-range PCR amplicons from the four loci of one sample are shown in Additional file 5. We used a novel method, MIT-NGS that combined long-range PCR and Illumina MiSeq-based multiplex sequencing for HLA typing of four loci of 96 individuals in a single run.
Samples in this study were individually barcoded to enable multiplex sequencing.
Newly-evolved multiplex sequencing technology has been bringing transcriptome sequencing into an unprecedented depth.
During assay validation, we performed two GS Junior sequencing runs to determine the accuracy of the HLA class I amplicons and DRB amplicon at different levels of multiplexing.
Therefore, each sample was tagged with multiplex sequencing barcodes.
For multiplex sequencing, oligonucleotides listed in Supplementary Information were used.
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