Results 11 to 20 of about 1,171,841 (304)

Plant Sequence Capture Optimised for Illumina Sequencing

Bio-Protocol, 2014
Plant Sequence Capture is used for targeted resequencing of whole exomes (all exons of a genome) of complex genomes e.g. barley and its relatives (Mascher et al., 2013).
Axel Himmelbach, Manuela Knauft , Nils Stein   +2 more
doaj   +2 more sources

Illumina Sequencing of Bisulfite-Converted DNA Libraries

Cold Spring Harbor Protocols, 2016
Here we describe a standard MethylC-seq protocol using single-read sequencing on an Illumina Genome Analyzer II platform. The protocol involves ligation of methylated sequencing adaptors to sonicated genomic DNA, gel purification, sodium bisulfite ...
Paul M. Lizardi, Narendra Wajapeyee, Qin Yan   +2 more
core   +3 more sources

Sequencing error profiles of Illumina sequencing instruments. [PDF]

NAR Genom Bioinform, 2021
Abstract Sequencing technology has achieved great advances in the past decade. Studies have previously shown the quality of specific instruments in controlled conditions. Here, we developed a method able to retroactively determine the error rate of most public sequencing datasets.
Stoler N, Nekrutenko A.
europepmc   +4 more sources

Improved Protocols for Illumina Sequencing [PDF]

Current Protocols in Human Genetics, 2013
AbstractIn this unit, we describe a set of improvements that have been made to the standard Illumina protocols to make the sequencing process more reliable in a high‐throughput environment, reduce amplification bias, narrow the distribution of insert sizes, and reliably obtain high yields of data. Curr. Protoc. Hum. Genet. 79:18.2.1‐18.2.42.
Iraad F, Bronner, Michael A, Quail, Daniel J, Turner, Harold, Swerdlow   +3 more
  +6 more sources

Sequence-specific error profile of Illumina sequencers [PDF]

Nucleic Acids Research, 2011
We identified the sequence-specific starting positions of consecutive miscalls in the mapping of reads obtained from the Illumina Genome Analyser (GA). Detailed analysis of the miscall pattern indicated that the underlying mechanism involves sequence-specific interference of the base elongation process during sequencing. The two major sequence patterns
Nakamura, Kensuke, Oshima, Taku, Morimoto, Takuya, Ikeda, Shun, Yoshikawa, Hirofumi, Shiwa, Yuh, Ishikawa, Shu, Linak, Margaret C., Hirai, Aki, Takahashi, Hiroki, Altaf-Ul-Amin, Md., Ogasawara, Naotake, Kanaya, Shigehiko   +12 more
openaire   +2 more sources

Review on Illumina Sequencing Technology

Austin Journal of Veterinary Science & Animal Husbandry, 2022
Illumina sequencing process utilizes biochemical methods to determine the correct order of nucleotide bases in a deoxyribonucleic acid. Macromolecule using sequencing-by-synthesis and reversible dye-terminators that enable the identification of single bases are introduced into DNA strands and used to determine the series of base pairs in DNA.
Emiyu K, Lelisa K
openaire   +1 more source

Monitoring Error Rates In Illumina Sequencing [PDF]

Journal of Biomolecular Techniques : JBT, 2016
Guaranteeing high-quality next-generation sequencing data in a rapidly changing environment is an ongoing challenge. The introduction of the Illumina NextSeq 500 and the depreciation of specific metrics from Illumina's Sequencing Analysis Viewer (SAV; Illumina, San Diego, CA, USA) have made it more difficult to determine directly the baseline error ...
Leigh J, Manley, Duanduan, Ma, Stuart S, Levine   +2 more
openaire   +2 more sources

ReSeq simulates realistic Illumina high-throughput sequencing data

Genome Biology, 2021
In high-throughput sequencing data, performance comparisons between computational tools are essential for making informed decisions at each step of a project.
Stephan Schmeing, Mark D. Robinson
doaj   +1 more source

Utility of nanopore sequencing for detecting pathogens in bronchoalveolar lavage fluid from pediatric patients with respiratory failure

Journal of Clinical Virology Plus, 2023
RNA viruses are the most frequent pathogens responsible for respiratory infections, particularly in pediatric patients. Next-generation sequencing, represented by Illumina sequencing, is one of the most comprehensive methods for identifying pathogens ...
Makoto Yamaguchi, Kazuhiro Horiba, Kazunori Haruta, Suguru Takeuchi, Takako Suzuki, Yuka Torii, Shinji Kawabe, Sho Wada, Takanari Ikeyama, Yoshinori Ito, Tomoo Ogi, Jun-ichi Kawada   +11 more
doaj   +1 more source

Trimmomatic: a flexible trimmer for Illumina sequence data [PDF]

Bioinformatics, 2014
Abstract Motivation: Although many next-generation sequencing (NGS) read preprocessing tools already existed, we could not find any tool or combination of tools that met our requirements in terms of flexibility, correct handling of paired-end data and high performance.
Anthony M. Bolger, Marc Lohse, Björn Usadel   +2 more
openaire   +5 more sources