Results 21 to 30 of about 463,626 (303)

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   +4 more sources

Summary of Illumina sequencing statistics and mapping. [PDF]

, 2021
Summary of Illumina sequencing statistics and mapping.
J. Sook Chung (9635123), Tsvetan Bachvaroff (3727339), Elena Legrand (11383758), Tracey B. Schock (394735)   +3 more
core   +1 more source

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

Species identification and profiling of complex microbial communities using shotgun Illumina sequencing of 16S rRNA amplicon sequences. [PDF]

, 2013
The high throughput and cost-effectiveness afforded by short-read sequencing technologies, in principle, enable researchers to perform 16S rRNA profiling of complex microbial communities at unprecedented depth and resolution. Existing Illumina sequencing
Niranjan Nagarajan, Eliza Xin Pei Ho, Andreas Wilm (7951), Hibberd, Martin Lloyd, Louie Low (400408), Nagarajan, Niranjan, Eliza Xin Pei Ho (400407), Ong, Swee Hoe, Christophe Lay (400406), Martin Lloyd Hibberd (259920), Low, Louie, Kukkillaya, Vinutha Uppoor, Andreas Wilm, Martin Lloyd Hibberd, Lay, Christophe, Niranjan Nagarajan (131213), Wilm, Andreas, Ho, Eliza Xin Pei, Vinutha Uppoor Kukkillaya (400405), Swee Hoe Ong, Louie Low, Swee Hoe Ong (400404), Vinutha Uppoor Kukkillaya, Christophe Lay   +23 more
core   +1 more source

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

Illuminating Choices for Library Prep: A Comparison of Library Preparation Methods for Whole Genome Sequencing of Cryptococcus neoformans Using Illumina HiSeq. [PDF]

, 2014
The industry of next-generation sequencing is constantly evolving, with novel library preparation methods and new sequencing machines being released by the major sequencing technology companies annually.
Mathew A Beale, Fisher, Matthew C, Rhodes Johanna, Matthew C Fisher, Rhodes, Johanna, Beale Mathew A., Fisher, MC, Beale, Mathew A, Fisher, Matthew C., Beale, Mathew A., Fisher Matthew C., Beale, MA, Rhodes, J, Johanna Rhodes, Rhodes, Johanna; id_orcid   +14 more
core   +1 more source

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

Diagnostic applications of next generation sequencing: working towards quality standards [PDF]

, 2012
Over the past 6 years, next generation sequencing (NGS) has been established as a valuable high-throughput method for research in molecular genetics and has successfully been employed in the identification of rare and common genetic variations. All major
Klein, Hanns-Georg, Biskup, S., Vogl, Ina, Hirv, K., Greif, P.A., Kotschote, S., Gehring, A., Kuhn, M., Stuhrmann, Manfred, Bergmann, C., Eck, Sebastian H., Biskup, Saskia, Metzeler, Klaus H., Greif, Philipp A., Stuhrmann, M., Bolz, Hanno Joern, Benet-Pages, Anna, Hirv, Kaimo, Benet-Pagès, A., Klein, H.G., Vogl, I., Bolz, H.J., Kuhn, Marius, Kotschote, Stefan, Gehring, Andrea, Bergmann, Carsten, Metzeler, K.H., Eck, S.H.   +27 more
core   +1 more source