Illumina sequencing, summary statistics for initial sequencing
Data Processing of Nextera Mate Pair Reads on Illumina Sequencing Platforms
... Alignment summary statistics from a Human NA12877 mate pair library, run at 2 × 100 on a MiSeq instrument. To demonstrate the use of mate pair libraries for de novo assembly, the genome of E. coli K-12 ...
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Illumina GAIIx Sequencing Service
... 3. Accurate DNA Sample Quantification. The density of the bridge‐amplified DNA clusters on the Illumina flowcell is highly sensitive to the initial DNA template concentration (optimal template amount ~ 6 ...
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Reduced Representation Bisulfite Sequencing for Methylation Analysis Preparing Samples for the Illumina Sequencing Platform
... 18 Excise a 2 mm slice of the sample lane at exactly 150–175 bp using the markers as a guide. 19 Place the gel slice in a new 2.0 ml DNA LoBind tube. 20 Photograph the gel after the second slice was excised. 21 Follow ...
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Whole genome Bisulfite Sequencing for Methylation Analysis Preparing Samples for the Illumina Sequencing Platform
... 17 Discard the scalpel to avoid sample cross‐contamination. 18 Photograph the gel after the slice was excised. 19 Follow the instructions in the QIAquick Gel Extraction Kit to purify on one QIAquick column.Weigh the gel ...
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Adapterama II: universal amplicon sequencing on Illumina platforms (TaggiMatrix).
... Next-generation sequencing (NGS) of amplicons is used in a wide variety of ...amplicon sequencing remains overly expensive and inflexible, with library preparation strategies relying upon the fusion of ...
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Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data
... Amplicon sequencing is an important tool to study microbial diversity and to identify the bac- teria present in samples, however, 16S rRNA sequencing cannot reveal the functional capacities of the organ- ...
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Illumina error profiles : resolving fine scale variation in metagenomic sequencing data
... Amplicon sequencing is an important tool to study microbial diversity and to identify the bac- teria present in samples, however, 16S rRNA sequencing cannot reveal the functional capacities of the organ- ...
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Fusobacterium Genomics Using MinION and Illumina Sequencing Enables Genome Completion and Correction
... this, Illumina sequencing alone is not optimal for de novo assembly of whole genomes because of read length limitations (~150 bp) and is better suited for guided assembly and read mapping when paired with ...
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Whole genome sequencing of enriched chloroplast DNA using the Illumina GAII platform
... length, initial de novo assem- blies were made for read sets of different length (untrimmed reads, and reads trimmed to 70, 65, 55, 50 ...these initial assem- blies, the data were treated as single reads, ...
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Modified SureSelectQXT Target Enrichment Protocol for Illumina Multiplexed Sequencing of FFPE Samples
... the sequencing process. A summary of Pool 1 and Pool 2 features are shown in Additional file 4: Table ...the sequencing process based on different index efficiency or standard devi- ations of QPCR ...
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Software for pre-processing Illumina next-generation sequencing short read sequences
... The summary of de novo genome assemblies of raw and trimmed data generated by ngsShoRT algorithms is shown in Figure S5 [see Additional file 1] and Tables SA2-1, SA2-2, and SA2-3 [see Additional file ...
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The complete mitogenome of Cylindrus obtusus (Helicidae, Ariantinae) using Illumina next generation sequencing
... obtusus, which represents the anticodon loop and part of the anticodon stem of tRNA-G. Consequently, this alignment was used to infer the approximate location of tRNA-G, even though the secundary structure for this tRNA ...
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Comparative performance of the BGISEQ-500 and Illumina HiSeq4000 sequencing platforms for transcriptome analysis in plants
... data. Initial attempts regarding transcriptome analy- sis are based on oligonucleotide hybridization and array ...generation sequencing devices has resulted in high throughput RNA sequencing ...
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Characterizing the transcriptome and microsatellite markers for almond (Amygdalus communis L.) using the Illumina sequencing platform
... In this study, di-nucleotide motifs were the most abun- dant form, followed by tri-nucleotides, tetra-nucleotides, hexa-nucleotides and penta-nucleotides, which is similar to previous studies [23–25]. In addition, the ...
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Illumina Sequencing Technology
... Generation Sequencing templates are immobilized on a proprietary flow cell surface (Figure 1) designed to present the DNA in a manner that facilitates access to enzymes while ensuring high stability of surface- ...
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Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform
... low sequencing costs Illumina’s MiSeq is becoming one of the most utilized sequenc- ing platforms ...gene sequencing, metagenomics, small genome sequencing and clinical molecular di- ...However, ...
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Lessons from microRNA Sequencing Using Illumina Technology
... using Illumina sequencing technology, the most important being the substantial distortion between miRNA expression in sequencing data and the true miRNA ...
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Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries
... standard Illumina library construction process to define sources of bias in the Illumina sequen- cing process and to enable us to develop protocols that ameliorate ...and sequencing-by-synthesis, ...
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Assessing Illumina technology for the high throughput sequencing of bacteriophage genomes
... contig, but this did not reach the 97% threshold (Table S2). Analysis of the genomes with ABACAS v1.03 (Assefa et al., 2009) against the known reference genome did not reveal any repeat regions that would prevent ...
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Computational analysis of short read Illumina and nanopore sequencing libraries
... Rooseveltov trg 6, 10000 Zagreb, Hrvatska Danas je sve popularnije za analizu i sklapanje genoma de novo koristiti hibridne podatke, odnosno sljedove očitane korištenjem dviju ili više različitih metoda sekvenciranja. ...
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