Results 61 to 70 of about 165,809 (296)

S6. ASVs obtained for the 18S rRNA amplicon sequencing

, 2021
Supplementary Table S6.
Tatiana Murillo (11674732)
core   +1 more source

Longitudinal circulating tumor DNA profiling in patients with advanced endometrial cancer using an off‐the‐shelf targeted NGS panel

Molecular Oncology, EarlyView.
Intratumour heterogeneity complicates precision management of advanced endometrial cancer. Circulating tumor DNA (ctDNA) offers a minimally invasive strategy to capture tumor evolution and therapeutic resistance. Here, we compare tumor‐agnostic NGS with tumor‐informed ddPCR, outlining their relative sensitivity, concordance, and clinical implications ...
Carlos Casas‐Arozamena, Karin Teien Lande, Eva Diaz, Ana Vilar, Juan Cueva, Efigenia Arias, Victoria Sampayo, Alicia Abalo, Nerea González, Eva Colás, Antonio Gil‐Moreno, Miguel Abal, Gema Moreno‐Bueno, Therese Sørlie, Kristina Lindemann, Laura Muinelo‐Romay   +15 more
wiley   +1 more source

Benchmarking Bioinformatic Tools for Amplicon-Based Sequencing of Norovirus

Applied and Environmental Microbiology, 2023
In benchmarking bioinformatic pipelines for analyzing high-throughput sequencing (HTS) data sets, we provide method standardization for bioinformatics broadly and specifically for norovirus in situations for which no officially endorsed methods exist at present.
Amy H. Fitzpatrick, Agnieszka Rupnik, Helen O’Shea, Fiona Crispie, Sinéad Keaveney, Paul D. Cotter   +5 more
openaire   +2 more sources

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

S5. ASVs obtained for the 16S rRNA amplicon sequencing

, 2021
Suppplementary Table S5. ASVs obtained for the 16S rRNA amplicon sequencing.
Tatiana Murillo (11674732)
core   +1 more source

Longitudinal genome‐wide aneuploidy measurements in circulating cell‐free DNA to predict lack of benefit from pembrolizumab in patients with metastatic urothelial cancer

Molecular Oncology, EarlyView.
Many patients with urothelial cancer do not benefit from treatment with pembrolizumab, while at risk of severe side effects. Changes in the levels of circulating tumor DNA early during treatment, measured by a simple and affordable assay that can be easily implemented in the clinic, can be used as a prognostic tool to identify these patients.
Youssra Salhi, Stavros Makrodimitris, Sandra van Wilpe, Iris te Paske, Vanja de Weerd, Corine M. Beaufort, Hans M. Westgeest, Jens Voortman, Maureen J. B. Aarts, Maud Rijnders, Astrid A. M. van der Veldt, Ronald de Wit, Niven Mehra, Saskia M. Wilting, Debbie G. J. Robbrecht   +14 more
wiley   +1 more source

Metatranscriptomics and Amplicon Sequencing Reveal Mutualisms in Seagrass Microbiomes [PDF]

Frontiers in Microbiology, 2018
Terrestrial plants benefit from many well-understood mutualistic relationships with root- and leaf-associated microbiomes, but relatively little is known about these relationships for seagrass and other aquatic plants. We used 16S rRNA gene amplicon sequencing and metatranscriptomics to assess potential mutualisms between microorganisms and the ...
Byron C. Crump, John M. Wojahn, Fiona Tomas, Fiona Tomas, Ryan S. Mueller   +4 more
openaire   +3 more sources

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

Amplicon Sequencing Workflow

, 2023
This is the second release of the amplicon sequencing workflow! I updated my name as well as the following: updated how I centered-log ratio transformed my ASV table (with decostand from vegan) added information about using the Taylor et al (2016 ...
Linton Freund
core   +1 more source