Results 61 to 70 of about 237,694 (293)

Large-scale differences in microbial biodiversity discovery between 16S amplicon and shotgun sequencing

Scientific Reports, 2017
Modern metagenomic environmental DNA studies are almost completely reliant on next-generation sequencing, making evaluations of these methods critical. We compare two next-generation sequencing techniques – amplicon and shotgun – on water samples across ...
Michael Tessler, Johannes S. Neumann, Ebrahim Afshinnekoo, Michael Pineda, Rebecca Hersch, Luiz Felipe M. Velho, Bianca T. Segovia, Fabio A. Lansac-Toha, Michael Lemke, Rob DeSalle, Christopher E. Mason, Mercer R. Brugler   +11 more
doaj   +1 more source

Detection of low-density Plasmodium falciparum infections using amplicon deep sequencing

Malaria Journal, 2019
Background Deep sequencing of targeted genomic regions is becoming a common tool for understanding the dynamics and complexity of Plasmodium infections, but its lower limit of detection is currently unknown.
Angela M. Early, Rachel F. Daniels, Timothy M. Farrell, Jonna Grimsby, Sarah K. Volkman, Dyann F. Wirth, Bronwyn L. MacInnis, Daniel E. Neafsey   +7 more
doaj   +1 more source

Primer selection impacts specific population abundances but not community dynamics in a monthly time-series 16S rRNA gene amplicon analysis of coastal marine bacterioplankton. [PDF]

, 2018
Primers targeting the 16S small subunit ribosomal RNA marker gene, used to characterize bacterial and archaeal communities, have recently been re-evaluated for marine planktonic habitats.
Carlson, Craig A, Nelson, Craig E, Wear, Emma K, Wilbanks, Elizabeth G   +3 more
core   +1 more source

Comprehensive Genome Sequence Analysis of a Breast Cancer Amplicon [PDF]

Genome Research, 2001
Gene amplification occurs in most solid tumors and is associated with poor prognosis. Amplification of 20q13.2 is common to several tumor types including breast cancer. The 1 Mb of sequence spanning the 20q13.2 breast cancer amplicon is one of the most exhaustively studied segments of the human genome.
Collins, Colin, Volik, Stanislav, Kowbel, David, Ginzinger, David, Ylstra, Bauke, Cloutier, Thomas, Hawkins, Trevor, Predki, Paul, Martin, Christopher, Wernick, Meredith, Kuo, Wen Lin, Alberts, Arthur, Gray, Joe W.   +12 more
openaire   +3 more sources

Gut microbiota diversity is prognostic in metastatic hormone receptor‐positive breast cancer patients receiving chemotherapy and immunotherapy

Molecular Oncology, EarlyView.
In this exploratory study, we investigated the relationship between the gut microbiota and outcome in patients with metastatic hormone receptor‐positive breast cancer, treated in a randomized clinical trial with chemotherapy alone or chemotherapy in combination with immune checkpoint blockade.
Andreas Ullern, Kristian Holm, Nikolai Kragøe Andresen, Andreas Hagen Røssevold, Corinna Bang, Bjørn Naume, Johannes R. Hov, Jon Amund Kyte   +7 more
wiley   +1 more source

Direct Metatranscriptome RNA-seq and Multiplex RT-PCR Amplicon Sequencing on Nanopore MinION – Promising Strategies for Multiplex Identification of Viable Pathogens in Food

Frontiers in Microbiology, 2020
Viable pathogenic bacteria are major biohazards that pose a significant threat to food safety. Despite the recent developments in detection platforms, multiplex identification of viable pathogens in food remains a major challenge.
Manyun Yang, Alyssa Cousineau, Xiaobo Liu, Yaguang Luo, Daniel Sun, Daniel Sun, Shaohua Li, Shaohua Li, Tingting Gu, Luo Sun, Hayden Dillow, Jack Lepine, Mingqun Xu, Boce Zhang   +13 more
doaj   +1 more source

Handling of targeted amplicon sequencing data focusing on index hopping and demultiplexing using a nested metabarcoding approach in ecology

Scientific Reports, 2021
High-throughput sequencing platforms are increasingly being used for targeted amplicon sequencing because they enable cost-effective sequencing of large sample sets.
Yasemin Guenay-Greunke, David A. Bohan, Michael Traugott, Corinna Wallinger   +3 more
doaj   +1 more source

Liquid biopsy epigenetics: establishing a molecular profile based on cell‐free DNA

Molecular Oncology, EarlyView.
Cell‐free DNA (cfDNA) fragments in plasma from cancer patients carry epigenetic signatures reflecting their cells of origin. These epigenetic features include DNA methylation, nucleosome modifications, and variations in fragmentation. This review describes the biological properties of each feature and explores optimal strategies for harnessing cfDNA ...
Christoffer Trier Maansson, Anders Lade Nielsen, Boe Sandahl Sorensen   +2 more
wiley   +1 more source

Target enrichment using parallel nanoliter quantitative PCR amplification [PDF]

, 2014
Background: Next generation targeted resequencing is replacing Sanger sequencing at high pace in routine genetic diagnosis. The need for well validated, high quality enrichment platforms to complement the bench-top next generation sequencing devices is ...
De Wilde, Bram, Derveaux, Stefaan, Dong, Wes, Dunne, Jude, Hellemans, Jan, Husain, Syed, Lefever, Steve, Vandesompele, Jo   +7 more
core   +2 more sources

LINC01116, a hypoxia‐lncRNA marker of pathological lymphangiogenesis and poor prognosis in lung adenocarcinoma

Molecular Oncology, EarlyView.
The LINC01116 long noncoding RNA is induced by hypoxia and associated with poor prognosis and high recurrence rates in two cohorts of lung adenocarcinoma patients. Here, we demonstrate that besides its expression in cancer cells, LINC01116 is markedly expressed in lymphatic endothelial cells of the tumor stroma in which it participates in hypoxia ...
Marine Gautier‐Isola, Rafael Lopes Goncalves, Marin Truchi, Caroline Lacoux, Célia Scribe, Hugo Cadis, Laetitia Guardini, Sophie Bekisz, Marius Ilié, Paul Hofman, Georges Vassaux, Bernard Mari, Roger Rezzonico   +12 more
wiley   +1 more source