Molecular Detection and Determination of Phylogenetic Position of Watermelon Chlorotic Stunt Virus Khouzestan Isolate Based on Coat Protein Gene by Samira Pakbaz, Zahra Jelavi, Ehsan Hasanvand, Hossein Mirzaei Najafgholi

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Protocol for correlating the gut microbiome and metabolomics in patients with intracranial aneurysms by Hongyu Xu, Zetian Jia, Junhui Liu, Runming Liu, Wei Wei, Xiang Li

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LongReadSum: A fast and flexible quality control and signal summarization tool for long-read sequencing data by Jonathan Elliot Perdomo, Mian Umair Ahsan, Qian Liu, Li Fang, Kai Wang

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Protocol for the isolation of silk glands from silkworms for snRNA-seq and spatial transcriptomics by Yan Ma, Keshu Dong, Jie Hu, Yiyun Tang, Hanfu Xu

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Metagenomic analysis of gut microbiota diversity in poultry before and after antibiotic administration by O. V. Prasolova, N. I. Malik, I. A. Timofeeva, N. A. Kirsanova, E. V. Krylova, E. V. Malik, I. A. Rusanov, N. A. Chupakhina

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A sensitivity analysis of methodological variables associated with microbiome measurements by Samuel P. Forry, Stephanie L. Servetas, Jennifer N. Dootz, Monique E. Hunter, Jason G. Kralj, James J. Filliben, Scott A. Jackson

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Deep-Sea Ecosystems as an Unexpected Source of Antibiotic Resistance Genes by Wei Zhang, Yingdong Li, Yunmeng Chu, Hao Liu, Hongmei Jing, Qianfeng Xia

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Joint fluid multi-omics improves diagnostic confidence during evaluation of children with presumed septic arthritis by Yolanda Peña-López, Naureen G. Tareen, Bo Zhang, Indu Raman, Carlos A. Arana, Chengsong Zhu, Yang Liu, Pratibha Selvakumar, Nicolai S. C. van Oers, Simrat Morris, Lora V. Hooper, Lawson A. B. Copley, Prithvi Raj

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Using target enrichment sequencing to study the higher-level phylogeny of the largest lichen-forming fungi family: Parmeliaceae (Ascomycota) by Felix Grewe, Claudio Ametrano, Todd J. Widhelm, Steven Leavitt, Isabel Distefano, Wetchasart Polyiam, David Pizarro, Mats Wedin, Ana Crespo, Pradeep K. Divakar, H. Thorsten Lumbsch

Subjects: “…Next-generation sequencing…”
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Systematically developing a registry of splice-site creating variants utilizing massive publicly available transcriptome sequence data by Naoko Iida, Ai Okada, Yoshihisa Kobayashi, Kenichi Chiba, Yasushi Yatabe, Yuichi Shiraishi

“…To leverage massive transcriptome sequence data such as those available from the Sequence Read Archive, we develop a novel framework to screen for SSCVs solely using transcriptome data. …”
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Improving primary school children's motor skills: a physical education approach using circuit games with auditory sequencing by Hilmy Aliriad, Mohamad Da’i, Benny Widya Priadana, Moch Rimba Wigantara, Muchammad Ridwan Arifianto

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The genome sequence of a tachinid fly, Linnaemya vulpina (Fallén, 1810) [version 1; peer review: 2 approved] by Olga Sivell, Chris Raper, Ryan Mitchell

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A comprehensive analysis of in vitro and in vivo genetic fitness of Pseudomonas aeruginosa using high-throughput sequencing of transposon libraries. by David Skurnik, Damien Roux, Hugues Aschard, Vincent Cattoir, Deborah Yoder-Himes, Stephen Lory, Gerald B Pier

“…High-throughput sequencing of transposon (Tn) libraries created within entire genomes identifies and quantifies the contribution of individual genes and operons to the fitness of organisms in different environments. …”
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Utilizing Targeted Next-Generation Sequencing for Rapid, Accurate, and Cost-Effective Pathogen Detection in Lower Respiratory Tract Infections by Qin L, Liang M, Song J, Chen P, Zhang S, Zhou Y, Li H, Tang J, Ma Y, Yang B, Xu J, Zhang J

Subjects: “…targeted next-generation sequencing…”
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Exogenous dsRNA triggers sequence-specific RNAi and fungal stress responses to control Magnaporthe oryzae in Brachypodium distachyon by Ying Zheng, Benjamin Moorlach, Desiree Jakobs-Schönwandt, Anant Patel, Chiara Pastacaldi, Stefan Jacob, Ana R. Sede, Manfred Heinlein, Minna M. Poranen, Karl-Heinz Kogel, Maria Ladera Carmona

“…Incubation of fungal conidia with 10 ng/µL dsRNA, regardless of size or sequence, induced aberrant germ tube elongation, revealing a strong sequence-unspecific effect of dsRNA in this fungus. …”
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Application of deep learning models on single-cell RNA sequencing analysis uncovers novel markers of double negative T cells by Tian Xu, Qin Xu, Ran Lu, David N. Oakland, Song Li, Liwu Li, Christopher M. Reilly, Xin M. Luo

“…Conventional machine learning approaches such as principal component analysis have been employed in single-cell RNA sequencing (scRNA-seq) analysis to characterize DNT cells. …”
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Selection of DNA Aptamers for Ovarian Cancer Biomarker CA125 Using One-Pot SELEX and High-Throughput Sequencing by Delia J. Scoville, Tae Kyu Brian Uhm, Jamie A. Shallcross, Rebecca J. Whelan

“…Here, we report on our use of One-Pot SELEX to isolate single-stranded DNA aptamers with affinity for CA125, followed by high-throughput sequencing of the selected oligonucleotides. This data-rich approach, combined with bioinformatics tools, enabled the entire selection process to be characterized. …”
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Identification of G-quadruplex-forming Sequences in Nucleocapsid Gene of SARS-CoV-2 Variants of Concern: An In Silico Analysis by Saeedeh Ghazaey Zidanloo

“…Here, we have analyzed putative G-quadruplex sequences (PQSs) in the Nucleocapsid gene of SARS-CoV2 and its variants of concern using a bioinformatics tool. …”
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Exome Sequencing Identified a Recessive RDH12 Mutation in a Family with Severe Early-Onset Retinitis Pigmentosa by Bo Gong, Bo Wei, Lulin Huang, Jilong Hao, Xiulan Li, Yin Yang, Yu Zhou, Fang Hao, Zhihua Cui, Dingding Zhang, Le Wang, Houbin Zhang

“…All patients underwent a complete ophthalmic examination. Exome sequencing was performed on a single RP patient (the proband of this family) and direct Sanger sequencing on other family members and normal controls was followed to confirm the causal mutations. …”
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Characterization and functional analysis of conserved non-coding sequences among poaceae: insights into gene regulation and phenotypic variation in maize by Yi Luo, Hang Zhai, Xiu Zhong, Bo Yang, Yang Xu, Tianhong Liu, Qi Wang, Yang Zhou, Yan Mao, Yaxi Liu, Qi Tang, Yanli Lu, Yao Wang, Jie Xu

Subjects: “…Conserved non-coding sequences…”
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