Illumina HiSeq
Ultrahigh-Throughput Multiplexing and Sequencing of >500-Base-Pair Amplicon Regions on the Illumina HiSeq 2500 Platform
... between Illumina HiSeq ...and HiSeq sequencing methods were within the same variations as those observed by Zymo Research, we statistically compared the distributions of Jensen-Shannon distances ...
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A novel ultra high-throughput 16S rRNA gene amplicon sequencing library preparation method for the Illumina HiSeq platform
... and Illumina sequencing were carried out as described above, and the samples were sequenced as part of two separate HiSeq sequencing runs (26 samples in one, 28 in the ...
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Guidelines for whole genome bisulphite sequencing of intact and FFPET DNA on the Illumina HiSeq X Ten
... two Illumina sequencing platforms and resulting genome-wide coverage per lane of sequencing, there is a remarkable correlation between the methylation calls obtained from the HiSeq 2500 and HiSeq X ...
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An Escherichia coli ST131 pangenome atlas reveals population structure and evolution across 4,071 isolates
... Escherichia coli ST131 is a major cause of infection with extensive antimicrobial resistance (AMR) facilitated by widespread beta-lactam antibiotic use. This drug pressure has driven extended-spectrum beta-lactamase ...
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Non-contiguous finished genome sequence and description of Salmonella enterica subsp. houtenae str. RKS3027
... the Illumina se- quencing platform by the paired-end strategy ...the Illumina web site ...from Illumina HiSeq 2000 were assembled with SOAPdenovo ...
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Rapid, large-scale species discovery in hyperdiverse taxa using 1D MinION sequencing
... and Illumina sequencing ...(e.g., Illumina, Nanopore, PacBio: [4, 8, ...of Illumina HiSeq with the total cost of a barcode being as low as ...with Illumina are < 400 bp and new ...
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PROBIOTIC GENOMES: SEQUENCING AND ANNOTATION IN THE PAST DECADE
... The following year also had several probiotic genomes including those of Lactobacillus rhamnosus 26 , Lactobacillus vini 42 , Lactobacillus curvatus 32 , Lactobacillus fructivorans 43 , and Lactobacillus helveticus 44 ...
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Detecting somatic point mutations in cancer genome sequencing data: a comparison of mutation callers
... an Illumina HiSeq 2000 platform using Nimblegen SeqCap Ez Exome Library kit v2 ...an Illumina HiSeq 2000 platform using the Agilent SureSelect 38 Mb kit for whole-exome ...
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cPAS-based sequencing on the BGISEQ-500 to explore small non-coding RNAs
... using Illumina HiSeq sequencing) had expression levels differing several orders of magnitude between the miRBase microarrays and using HiSeq ...
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MARPLE, a point-of-care, strain-level disease diagnostics and surveillance tool for complex fungal pathogens
... Capturing the global diversity of the Pst population To reduce the complexity of the genomic data generated from Pst -infected wheat samples, we aimed to define re- gions of the Pst genome showing high variability be- ...
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Exome sequencing resolves apparent incidental findings and reveals further complexity of SH3TC2 variant alleles causing Charcot-Marie-Tooth neuropathy
... The ES data recovered a larger number of variants in the coding regions than was seen by WGS (Figure 2), suggesting a higher sensitivity, but also raising the possi- bility of a higher false positive rate. The number of ...
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Genome-wide 5-hydroxymethylcytosine modification pattern is a novel epigenetic feature of globozoospermia
... by Illumina HiSeq sequencing, we showed that (i) 6664, 9029 and 6318 genes contain 5hmC in normal, abnormal, and globozoospermia sperm, respectively; (ii) some 5hmC-containing genes significantly involves ...
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Endophytic fungal community in grape is correlated to foliar age and domestication
... Methods: The regions of internally transcribed spacer (ITS) were sequenced using the Illumina HiSeq to determine the diversity of fungal endophytes associated with European grape ( Vitis[r] ...
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Investigating variation in associations with belowground micro-organisms of historic and current white clover germplasm
... Figure 3.5 Community structure of endophytic bacteria in the roots of the three different paired groups of white clover as shown by metabarcoding with Illumina HiSeq of the 16S rRNA a[r] ...
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Identification of Dirofilaria immitis miRNA using illumina deep sequencing
... Nematodes, one of the most divergent phyla, have adapted to all environments. Over 23 000 species out of an estimated 100 000 to 10 million species have been described [22]. Since the first small RNA, lin-4, was ...
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Lessons from microRNA Sequencing Using Illumina Technology
... MicroRNAs (miRNAs) are 18 - 24 bases non-coding RNAs that act as key regulators of gene expression in eukaryotes [4]. miRNAs mediate post-transcriptional regulation of target messenger RNAs (mRNAs) by im- pairing their ...
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An efficient annotation and gene expression derivation tool for Illumina Solexa datasets
... an Illumina flow cell with all eight lanes occupied, produces well over a terabyte worth of images with gigabytes of reads following sequence ...for Illumina sequencing experiments, enables the ability to ...
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Spike in validation of an Illumina specific variance stabilizing transformation
... Microarrays for measuring mRNA expression make use of probes that hybridize to fluorescently-labelled sample material, where the measured level of fluorescence is used to infer the expression level of each interrogated ...
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MethylToSNP: identifying SNPs in Illumina DNA methylation array data
... using Illumina methylation array data con- taining known SNP positions, developed a confidence rating for our predictions, and validated our findings with bisulfite sequencing (for DNA methylation) and targeted ...
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Assessing Illumina technology for the high throughput sequencing of bacteriophage genomes
... The limitations on the sequencing of phage isolates have previously been discussed in detail (Klumpp, Fouts & Sozhamannan, 2012). The largest single bottleneck will always be culturing of their host bacteria, which ...
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