Mutation Analysis of Synthetic DNA Barcodes in a Fission Yeast Gene Deletion Library by Sanger Sequencing by Minho Lee, Shin-Jung Choi, Sangjo Han, Miyoung Nam, Dongsup Kim, Dong-Uk Kim, Kwang-Lae Hoe

“…Together, well-defined barcode sequences, combined with the next-generation sequencing platform, promise to make the fission yeast gene deletion library a powerful tool for understanding gene function.…”
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Mucin-producing urothelial-type adenocarcinoma of the prostate with a gene mutation characteristic of intestinal adenocarcinoma: case report and literature review by Ao Yu, Ao Yu, Hongbo Su, Peiling Yu, Siqi Cai, Shuaixian Mu, Jinhui Yu, Qianting Lu, Yuan Miao, Ailin Li

“…Postoperative pathology indicated mucinous adenocarcinoma, with immunohistochemistry positive for CK7, CK20, and CDX-2. Next-generation sequencing (NGS) identified genetic alterations similar to those found in intestinal adenocarcinoma. …”
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HBV DNA integration and somatic mutations in HCC patients with HBV-HCV dual infection reveals profiles intermediate between HBV- and HCV-related HCC by Chiao-Ling Li, Chia-Lang Hsu, You-Yu Lin, Ming-Chih Ho, Rey-Heng Hu, Sheng-Tai Tzeng, Ya-Chun Wang, Yasuhito Tanaka, Pei-Jer Chen, Shiou-Hwei Yeh

“…Methods We examined HBV’s involvement in 93 HBCV-HCC cases by analyzing HBV DNA integration as an indicator of HCC originating from HBV-infected hepatocytes, compared with 164 HBV-HCCs and 56 HCV-HCCs as controls. Results Next generation sequencing revealed that 55% of HBCV-HCCs exhibited clonal HBV integration, which falls between the rates observed in HBV-HCCs (88%) and HCV-HCCs (7%), with similar integration patterns to HBV-HCCs. …”
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Development and evaluation of multiplex real-time PCR for rapid identifying major pathogenic mycobacteria from pulmonary and extrapulmonary clinical samples in eastern China by Tingting Fang, Lijun Peng, Tingting Yang, Qingshan Cai, Huanyu Li, Hao Li, Long Cai

“…The accuracy of the Multiplex PCR was validated with DNA from 228 known clinical samples confirmed by Targeted next-generation sequencing (tNGS). Additionally, 901 consecutive clinical samples were assessed to evaluate the Multiplex PCR's diagnostic performance in detecting mycobacteria in pulmonary and extrapulmonary samples. …”
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Clinical Features of Human Parvovirus B19-Associated Encephalitis Identified in the Dakar Region, Senegal, and Viral Genome Characterization by Al Ousseynou Seye, Fatou Kiné Top, Maimouna Mbanne, Moussa Moise Diagne, Ousmane Faye, Amadou Alpha Sall, Ndongo Dia, Jean-Michel Heraud, Martin Faye

“…Furthermore, three complete B19V genome sequences were successfully characterized using next-generation sequencing. The newly characterized sequences belonged to the genotype 1a and represent, to date, the first complete B19V genome sequences from Senegal. …”
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A comparative analysis of sequence composition in different lots of a phage display peptide library during amplification by Anders Wilgaard Sinkjaer, Ane Beth Sloth, Amanda Oester Andersen, Malte Jensen, Babak Bakhshinejad, Andreas Kjaer

“…DNA from the samples was subjected to Next-Generation Sequencing (NGS) using an Illumina platform. …”
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Characterization and pathogenicity of a novel avian orthoreovirus in China by Shunyan Chen, Jialin Yang, Li Li, Yawei Guo, Shenghua Yang, Zetao Su, Sucan Zhao, Xuesong Li, Wencheng Lin, Yunping Du, Lijuan Yin, Lianxiang Wang, Feng Chen

“…Whole-genome sequencing was conducted using next-generation sequencing with MGI technology, and phylogenetic analysis of the sigma C amino acid sequence was performed. …”
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Constructing a potential HLA haplo-homozygous induced pluripotent stem cell haplobank using data from an umbilical cord blood bank by Ji He, Yanmin He, Qigang Zhan, Zhipan Wu, Qi Sheng, Wei Zhang, Faming Zhu

“…The HLA-A, HLA-B, HLA-C, HLA-DRB1, and HLA-DQB1 loci were genotyped using next-generation sequencing. Using HLA genotype data at the high-resolution level, the number of HLA homozygous donors needed to cover a certain percentage of the Chinese population and the feasibility of constructing a high-matching iPSC haplobank were estimated. …”
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Evaluation of plasma cell sorting methods in multiple myeloma patients: flow cytometry versus magnetic beads by Yu Jeong Choi, Jaeguk Choi, Yehyun Kang, Saeam Shin, Seung-Tae Lee, Jong Rak Choi

“…Methods Plasma cell purity, fluorescence in situ hybridization (FISH), and next-generation sequencing analyses were performed on FACS- and MACS-sorted bone marrow samples from 31 PCN patients. …”
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The use of propensity score matching to assess the effectiveness of the endometrial receptivity analysis in patients with recurrent implantation failure by Shuang Yu, Yongjie Zhang, Na Li, Zhuolun Su, Wenjing Li, Hua Lou, Yichun Guan

“…Endometrial receptivity analysis (ERA), a next-generation sequencing-based test that assesses endometrial gene expression, may be valuable in predicting endometrial receptivity, but whether ERA improves pregnancy outcomes in patients with recurrent implantation failure (RIF) is currently controversial. …”
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RNA-Seq Based Transcriptome Analysis of the Type I Interferon Host Response upon Vaccinia Virus Infection of Mouse Cells by Bruno Hernáez, Graciela Alonso, Juan Manuel Alonso-Lobo, Alberto Rastrojo, Cornelius Fischer, Sascha Sauer, Begoña Aguado, Antonio Alcamí

“…Vaccinia virus (VACV) encodes the soluble type I interferon (IFN) binding protein B18 that is secreted from infected cells and also attaches to the cell surface, as an immunomodulatory strategy to inhibit the host IFN response. By using next generation sequencing technologies, we performed a detailed RNA-seq study to dissect at the transcriptional level the modulation of the IFN based host response by VACV and B18. …”
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DNA metabarcoding of benthic algae and associated eukaryotes from Lake Baikal in the face of rapid environmental changes by Yu. S. Bukin, L. S. Kravtsova, T. E. Peretolchina, A. P. Fedotov, A. E. Tupikin, M. R. Kabilov, D. Yu. Sherbakov, E. V. Mincheva

“…About 15 thousand reads of the 18S rRNA marker were obtained by applying NGS (next-generation sequencing). The species of algae dominating in the number of reads, as well as the difficult-to-identify taxa (Stramenopiles, Alveolata, Euglenozoa, Chromista, Rhizaria, Amoebozoa, etc.), which play an important role in the functioning and formation of the structure of algal communities, were revealed. …”
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Pre-gestational diabetes in a young woman with a pathogenic INSR missense mutation, p.(Met1180Lys) by Emma L Prehn, Mairéad Crowley, David Fennell, Brendan T Kinsley, Kevin Colclough, Maria M Byrne

“…As her sister was also diagnosed with diabetes at 13-years-old, next-generation sequencing was performed for known maturity onset diabetes of the young (MODY) genes and a p.…”
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A ribodepletion and tagging protocol to multiplex samples for RNA-seq based virus detection: application to the cassava virome by Daniel H. Otron, Justin S. Pita, Murielle Hoareau, Fidèle Tiendrébéogo, Jean-Michel Lett, Pierre Lefeuvre

“…Nevertheless, the development of next generation sequencing (NGS) methods has revolutionized plant virus detection and identification. …”
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A Systematic Review of the Prevalence and Diagnostic Workup of PIK3CA Mutations in HR+/HER2– Metastatic Breast Cancer by Elizabeth J. Anderson, Lea E. Mollon, Joni L. Dean, Terri L. Warholak, Ayal Aizer, Emma A. Platt, Derek H. Tang, Lisa E. Davis

“…The median prevalence of PIK3CA mutation was 36% (range: 13.3% to 61.5%); identified testing approaches more commonly used tissue over liquid biopsies and primarily utilized next-generation sequencing (NGS), polymerase chain reaction (PCR), or Sanger sequencing. …”
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Tau mediates the reshaping of the transcriptional landscape toward intermediate Alzheimer’s disease stages by Giacomo Siano, Giacomo Siano, Martina Varisco, Marco Terrigno, Congwei Wang, Arianna Scarlatti, Vincenzo Iannone, Marco Groth, Marie-Christine Galas, Jeroen J. M. Hoozemans, Alessandro Cellerino, Alessandro Cellerino, Antonino Cattaneo, Cristina Di Primio

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Evidence for the replication of a plant rhabdovirus in its arthropod mite vector by Hideki Kondo, Miki Fujita, Paul Telengech, Kazuyuki Maruyam, Kiwamu Hyodo, Aline Daniele Tassi, Ronald Ochoa, Ida Bagus Andika, Nobuhiro Suzuki

“…In this study, we investigated the possible replication of orchid fleck virus (OFV), a segmented plant rhabdovirus, within its mite vector (Brevipalpus californicus s.l.) using quantitative RT-qPCR, western blotting and next-generation sequencing. Time-course RT-qPCR and western blot analyses showed an increasing OFV accumulation pattern in mites after virus acquisition. …”
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GEPREP: A comprehensive data atlas of RNA-seq-based gene expression profiles of exercise responses by Lei Sun, Jinwen Luan, Jinbiao Wang, Xiaoli Li, Wenqian Zhang, Xiaohui Ji, Longhua Liu, Ru Wang, Bingxiang Xu

“…Recently, with the development of next-generation sequencing, a large number of RNA-sequencing (RNA-seq)-based gene expression profiles about physical activity have been shared in public resources; however, they are poorly curated and underutilized. …”
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Correlation Between <i>Cryptococcus</i> Infection and the Nasal Mycobiota in a Population of Free-Ranging Koalas (<i>Phascolarctos cinereus</i>) in New South Wales, Australia by Andrew S. McPherson, Sophie L. Haworth, Alex Kan, Luisa Monteiro de Miranda, Mark B. Krockenberger

“…As such, this study aimed to characterise the mycobiome of the nasal vestibule in koalas with and without evidence of cryptococcal colonisation and subclinical disease via the next-generation sequencing (NGS) of the ITS1 region of the fungal internal transcribed spacer (ITS) gene. …”
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Human Milk Archaea Associated with Neonatal Gut Colonization and Its Co-Occurrence with Bacteria by Maricarmen Salas-López, Juan Manuel Vélez-Ixta, Diana Laura Rojas-Guerrero, Alberto Piña-Escobedo, José Manuel Hernández-Hernández, Martín Noé Rangel-Calvillo, Claudia Pérez-Cruz, Karina Corona-Cervantes, Carmen Josefina Juárez-Castelán, Jaime García-Mena

“…We performed a cross-sectional study characterizing the archaeal diversity of 40 human colostrum-neonatal stool samples by next-generation sequencing of V5–V6 16S rDNA libraries. Intra- and inter-sample analyses were carried out to describe the Archaeal diversity in each sample type. …”
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