First-Principles Simulation of the Interaction Between DNA Nucleotides and One-Dimensional Carbon Chain in Electrical Based Sequencing by Zeina Salman, Jin-Woo Kim, Steve Tung

Subjects: “…DNA sequencing…”
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The genome sequence of a leafhopper, Allygus modestus Scott, 1876 [version 1; peer review: 2 approved] by Keith Fowler

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Decoding the m6A epitranscriptomic landscape for biotechnological applications using a direct RNA sequencing approach by Chuwei Liu, Heng Liang, Arabella H. Wan, Min Xiao, Lei Sun, Yiling Yu, Shijia Yan, Yuan Deng, Ruonian Liu, Juan Fang, Zhi Wang, Weiling He, Guohui Wan

“…Traditional computational methods for detecting m6A from Nanopore direct RNA sequencing (DRS) data are constrained by their reliance on experimentally validated labels, often resulting in the underestimation of modification sites. …”
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Single-cell and bulk RNA sequencing analysis reveals CENPA as a potential biomarker and therapeutic target in cancers by Hengrui Liu, Miray Karsidag, Kunwer Chhatwal, Panpan Wang, Tao Tang

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Genome sequencing and comparison of five Tilletia species to identify candidate genes for the detection of regulated species infecting wheat by Hai D. T. Nguyen, Tahera Sultana, Prasad Kesanakurti, Sarah Hambleton

“…Of the DNA-based methods published so far, most have focused on sequence variation among tested strains at a single gene locus. …”
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Effect of Transient Nicotine Load Shock on the Performance of Pseudomonas sp. HF-1 Bioaugmented Sequencing Batch Reactors by Dong-sheng Shen, Li-jia Wang, Hong-zhen He, Mei-zhen Wang

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Comparative Analysis of the Full-Length Genome Sequence of a Clinical Isolate of Human Parainfluenza Virus 4B by John A. Lednicky, Thomas B. Waltzek, Micah D. Halpern, Sara B. Hamilton

“…The hPIV-4B genomic sequence that we determined conforms to the paramyxovirus “rule of six.” …”
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Whole genome sequence of Streptomyces colonosanans strain MUSC 93JT isolated from mangrove forest in Malaysia by Hooi-Leng Ser, Jodi Woan-Fei Law, Wen-Si Tan, Wai-Fong Yin, Kok-Gan Chan

“…Due to these data, the strain was subjected to whole genome sequencing to uncover its genomic potential and further improve the understanding of the strain. …”
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High-throughput sequence-based microsatellite genotyping for the non-model Neotropical tree species Anadenanthera colubrina (Leguminosae) by Alejandra Lorena Goncalves, María Victoria García, Emilie Chancerel, Olivier Lepais, Myriam Heuertz

“…Previously available genetic markers for A. colubrina consisted of a few microsatellites. Next-generation sequencing (NGS) strategies allow simple and cost-effective development of new SSR loci from low-coverage whole genome shotgun sequencing. …”
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Complete Genome Sequencing of Polar Arthrobacter sp. PAMC25284, Copper Tolerance Potential Unraveled with Genomic Analysis by Jayram Karmacharya, Prasansah Shrestha, So-Ra Han, Hyun Park, Tae-Jin Oh

“…We identified a species of Arthrobacter isolated from seawater in the polar region using 16S rRNA sequence analysis. The strain PAMC25284 genome consists of a circular chromosome with a GC content of 65.6% and is projected to contain 3,588 genes, of which 3,150 are protein coding, 366 are pseudogenes, 19 are rRNA coding, and 50 are tRNA coding genes. …”
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Florfenicol Resistance in Enterobacteriaceae and Whole-Genome Sequence Analysis of Florfenicol-Resistant Leclercia adecarboxylata Strain R25 by Yuanyuan Ying, Fei Wu, Chongyang Wu, Yi Jiang, Min Yin, Wangxiao Zhou, Xinyi Zhu, Cong Cheng, Licheng Zhu, Kewei Li, Junwan Lu, Teng Xu, Qiyu Bao

“…The resistance gene-related mobile genetic elements also share homologous sequences from different species or genera of bacteria. …”
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Confirming Multiplex RT-qPCR Use in COVID-19 with Next-Generation Sequencing: Strategies for Epidemiological Advantage by Rob E. Carpenter, Vaibhav Tamrakar, Harendra Chahar, Tyler Vine, Rahul Sharma

“…All 78 samples were classified into WHO lineages by whole-genome sequencing and then compared with two commercially available RT-qPCR assays for spike protein mutation(s). …”
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Microbial diversity and biogeography across gastrointestinal tracts of Takifugu pufferfish revealed by full-length 16S amplicon sequencing by Xingkun Jin, Yan Shi, Zhenlong Sun, Yaohui Wang, Zhe Zhao

Subjects: “…Amplicon sequencing…”
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Rapid Identification of Drug-Resistant Tuberculosis Genes Using Direct PCR Amplification and Oxford Nanopore Technology Sequencing by Kaishun Zhao, Chunlin Tu, Wei Chen, Haiying Liang, Wenjing Zhang, Yilei Wang, Ye Jin, Jianrong Hu, Yameng Sun, Jun Xu, Yanfang Yu

“…This study established a sequencing method and bioinformatics pipeline for resistance gene analysis using an Oxford Nanopore Technologies sequencer. …”
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A Novel Discrete DGM (2, 1, t2) Model Based on Stochastic Oscillation Sequence and Its Application by Jun-Lin Xu, You-Jun Chen

“…Firstly, the accelerated translation smoothing transformation is constructed, which transforms the stochastic oscillation sequence into the monotonic increasing sequence that is suitable for modeling. …”
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Anodal tDCS over Primary Motor Cortex Provides No Advantage to Learning Motor Sequences via Observation by Dace Apšvalka, Richard Ramsey, Emily S. Cross

“…Participants learned keypress sequences across four consecutive days of observational practice while receiving active or sham stimulation over M1. …”
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Long-read sequencing revealed complex biallelic pentanucleotide repeat expansions in RFC1-related Parkinson’s disease by Peng Liu, Fan Zhang, Xinhui Chen, Xiaosheng Zheng, Miao Chen, Zhiru Lin, Shuqi Chen, Lebo Wang, Xinchen Wang, Nan Jin, Chenxin Ying, Fei Xie, Bo Wang, Sheng Wu, Zhidong Cen, Wei Luo

“…We report two early-onset patients with PD carrying complex biallelic pentanucleotide repeat expansions in RFC1. Long-read sequencing revealed a novel repeat configuration of (AGGGG)exp(AAGGG)14 and a possible somatic variant of (AAGGG)exp(AATGG)exp(AAGGG)exp in the (AAGGG)exp alleles in two RFC1-related PD patients. …”
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Polymorphism of ITS sequences in 35S rRNA genes in Elymus dahuricus aggregate species: two cryptic species? by A. V. Rodionov, K. S. Dobryakova, N. N. Nosov, A. A. Gnutikov, E. O. Punina, A. A. Kriukov, V. S. Shneyer

“…Nuclear ribosomal internal transcribed spacer (ITS) sequences were sequenced for 23 species and subspecies of Elymus sensu lato collected in Russia. …”
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Single-cell sequencing reveals cell heterogeneity and aberrantly activated pathways associated with microvascular invasion in hepatocellular carcinoma by Jianwei Cui, Fanyi Zeng, Ming Tang, Ming Tang, Shiwu Yin, Shiwu Yin

Subjects: “…single-cell RNA-sequencing…”
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UltraTimTrack: a Kalman-filter-based algorithm to track muscle fascicles in ultrasound image sequences by Tim J. van der Zee, Paolo Tecchio, Daniel Hahn, Brent J. Raiteri

“…Conclusion We developed a Kalman-filter-based algorithm to improve fascicle tracking from B-mode ultrasound image sequences. The proposed algorithm provides low-noise, drift-free estimates of muscle architectural changes that may better inform muscle function interpretations.…”
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