Results 11 to 20 of about 11,169 (113)

Comparison of illumina and 454 deep sequencing in participants failing raltegravir-based antiretroviral therapy. [PDF]

PLoS ONE, 2014
The impact of raltegravir-resistant HIV-1 minority variants (MVs) on raltegravir treatment failure is unknown. Illumina sequencing offers greater throughput than 454, but sequence analysis tools for viral sequencing are needed.
Jonathan Z Li, Brad Chapman, Patrick Charlebois, Oliver Hofmann, Brian Weiner, Alyssa J Porter, Reshmi Samuel, Saran Vardhanabhuti, Lu Zheng, Joseph Eron, Babafemi Taiwo, Michael C Zody, Matthew R Henn, Daniel R Kuritzkes, Winston Hide, ACTG A5262 Study Team, Cara C Wilson, Baiba I Berzins, Edward P Acosta, Barbara Bastow, Peter S Kim, Sarah W Read, Jennifer Janik, Debra S Meres, Michael M Lederman, Lori Mong-Kryspin, Karl E Shaw, Louis G Zimmerman, Randi Leavitt, Guy De La Rosa, Amy Jennings   +30 more
doaj   +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

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

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   +4 more sources

Paired-end sequencing of Fosmid libraries by Illumina [PDF]

Genome Research, 2012
Eliminating the bacterial cloning step has been a major factor in the vastly improved efficiency of massively parallel sequencing approaches. However, this also has made it a technical challenge to produce the modern equivalent of the Fosmid- or BAC-end sequences that were crucial for assembling and analyzing complex genomes during the Sanger-based ...
Williams, Louise J.S., Tabbaa, Diana G., Li, Na, Berlin, Aaron M., Shea, Terrance P., MacCallum, Iain, Lawrence, Michael S., Drier, Yotam, Getz, Gad, Young, Sarah K., Jaffe, David B., Nusbaum, Chad, Gnirke, Andreas   +12 more
openaire   +2 more sources

Analysis, optimization and verification of Illumina-generated 16S rRNA gene amplicon surveys. [PDF]

PLoS ONE, 2014
The exploration of microbial communities by sequencing 16S rRNA genes has expanded with low-cost, high-throughput sequencing instruments. Illumina-based 16S rRNA gene sequencing has recently gained popularity over 454 pyrosequencing due to its lower ...
Michael C Nelson, Hilary G Morrison, Jacquelynn Benjamino, Sharon L Grim, Joerg Graf   +4 more
doaj   +1 more source

Characterization of pseudorabies virus transcriptome by Illumina sequencing [PDF]

BMC Microbiology, 2015
Pseudorabies virus is a widely-studied model organism of the Herpesviridae family, with a compact genome arrangement of 72 known coding sequences. In order to obtain an up-to-date genetic map of the virus, a combination of RNA-sequencing approaches were applied, as recent advancements in high-throughput sequencing methods have provided a wealth of ...
Oláh, Péter, Tombácz, Dóra, Póka, Nándor, Csabai, Zsolt, Prazsák, I., Boldogkői, Zsolt   +5 more
openaire   +4 more sources

Comparison of Illumina and Oxford Nanopore Technology for genome analysis of Francisella tularensis, Bacillus anthracis, and Brucella suis

BMC Genomics, 2023
Background Bacterial epidemiology needs to understand the spread and dissemination of strains in a One Health context. This is important for highly pathogenic bacteria such as Bacillus anthracis, Brucella species, and Francisella tularensis. Whole genome
Jörg Linde, Hanka Brangsch, Martin Hölzer, Christine Thomas, Mandy C. Elschner, Falk Melzer, Herbert Tomaso   +6 more
doaj   +1 more source