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Sequence analysis

Development of a quantitative polymerase chain reaction assay and environmental DNA sampling methods for Giant Gartersnake (Thamnophis gigas)

Gregg Schumer, Eric C. Hansen, Paul J. Anders, Scott M. Blankenship

published 16 Sep 2019

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New Mycobacteroides abscessus subsp. massiliense strains with recombinant hsp65 gene laterally transferred from Mycobacteroides abscessus subsp. abscessus: Potential for misidentification of M. abscessus strains with the hsp65-based method

Byoung-Jun Kim, Ga-Na Kim, Bo-Ram Kim, Tae-Sun Shim, Yoon-Hoh Kook, Bum-Joon Kim

published 13 Sep 2019

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Genomic characterization of the complete terpene synthase gene family from Cannabis sativa

Keith D. Allen, Kevin McKernan, Christopher Pauli, Jim Roe, Anthony Torres, Reggie Gaudino

published 12 Sep 2019

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Quantitative detection of ALK fusion breakpoints in plasma cell-free DNA from patients with non-small cell lung cancer using PCR-based target sequencing with a tiling primer set and two-step mapping/alignment

Kei Kunimasa, Kikuya Kato, Fumio Imamura, Yoji Kukita

published 12 Sep 2019

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ViraMiner: Deep learning on raw DNA sequences for identifying viral genomes in human samples

Ardi Tampuu, Zurab Bzhalava, Joakim Dillner, Raul Vicente

published 11 Sep 2019

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Construction of pseudomolecule sequences of Brassica rapa ssp. pekinensis inbred line CT001 and analysis of spontaneous mutations derived via sexual propagation

Jee-Soo Park, Ji-Hyun Park, Young-Doo Park

published 09 Sep 2019

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Homogenous HIV-1 subtype B from the Brazilian Amazon with infrequent diverse BF1 recombinants, subtypes F1 and C among blood donors

Myuki Alfaia Esashika Crispim, Mônica Nogueira da Guarda Reis, Claudia Abrahim, Dagmar Kiesslich, Nelson Fraiji, Gonzalo Bello, Mariane Martins Araújo Stefani

published 09 Sep 2019

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gapFinisher: A reliable gap filling pipeline for SSPACE-LongRead scaffolder output

Juhana I. Kammonen, Olli-Pekka Smolander, Lars Paulin, Pedro A. B. Pereira, Pia Laine, Patrik Koskinen, Jukka Jernvall, Petri Auvinen

published 09 Sep 2019

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Large scale evaluation of differences between network-based and pairwise sequence-alignment-based methods of dendrogram reconstruction

Daniel Gamermann, Arnau Montagud, J. Alberto Conejero, Pedro Fernández de Córdoba, Javier F. Urchueguía

published 05 Sep 2019

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DIpartite: A tool for detecting bipartite motifs by considering base interdependencies

Mohammad Vahed, Jun-ichi Ishihara, Hiroki Takahashi

published 30 Aug 2019

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Structural analysis of the recognition of the -35 promoter element by SigW from Bacillus subtilis

Eunju Kwon, Shankar Raj Devkota, Deepak Pathak, Pawan Dahal, Dong Young Kim

published 28 Aug 2019

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Borrelia reloaded" (PLoS ONE 13(12): e0208432)" class="list-title">Distinction between Borrelia and Borreliella is more robustly supported by molecular and phenotypic characteristics than all other neighbouring prokaryotic genera: Response to Margos' et al. "The genus Borrelia reloaded" (PLoS ONE 13(12): e0208432)

Radhey S. Gupta

published 27 Aug 2019

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The number of domains in the ribosomal protein S1 as a hallmark of the phylogenetic grouping of bacteria

Andrey V. Machulin, Evgenia I. Deryusheva, Olga M. Selivanova, Oxana V. Galzitskaya

published 22 Aug 2019

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