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Next-generation sequencing

EasyParallel: A GUI platform for parallelization of STRUCTURE and NEWHYBRIDS analyses

Honggang Zhao, Benjamin Beck, Adam Fuller, Eric Peatman

published 24 Apr 2020

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Performance of a multiplexed amplicon-based next-generation sequencing assay for HLA typing

Chang Liu, Brian F. Duffy, Eric T. Weimer, Maureen C. Montgomery, Jo-Ellen Jennemann, Rachel Hill, Donna Phelan, Lindsay Lay, Bijal A. Parikh

published 23 Apr 2020

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Detection of microbial cell-free DNA in maternal and umbilical cord plasma in patients with chorioamnionitis using next generation sequencing

Russell G. Witt, Lily Blair, Michela Frascoli, Michael J. Rosen, Quoc-Hung Nguyen, Sivan Bercovici, Simona Zompi, Roberto Romero, Tippi C. Mackenzie

published 15 Apr 2020

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CCNB2 and AURKA overexpression may cause atypical mitosis in Japanese cortisol-producing adrenocortical carcinoma with TP53 somatic variant

Akira Ikeya, Mitsuko Nakashima, Miho Yamashita, Keisuke Kakizawa, Yuta Okawa, Hirotomo Saitsu, Shigekazu Sasaki, Hironobu Sasano, Takafumi Suda, Yutaka Oki

published 14 Apr 2020

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Identification of genomic insertion and flanking sequences of the transgenic drought-tolerant maize line “SbSNAC1-382” using the single-molecule real-time (SMRT) sequencing method

Tingru Zeng, Dengfeng Zhang, Yongxiang Li, Chunhui Li, Xuyang Liu, Yunsu Shi, Yanchun Song, Yu Li, Tianyu Wang

published 10 Apr 2020

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A Zipf-plot based normalization method for high-throughput RNA-seq data

Bin Wang

published 09 Apr 2020

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Analysis of unusual and signature APOBEC-mutations in HIV-1 pol next-generation sequences

Philip L. Tzou, Sergei L. Kosakovsky Pond, Santiago Avila-Rios, Susan P. Holmes, Rami Kantor, Robert W. Shafer

published 26 Feb 2020

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The stochastic nature of errors in next-generation sequencing of circulating cell-free DNA

David A. Nix, Sabine Hellwig, Christopher Conley, Alun Thomas, Carrie L. Fuertes, Cindy L. Hamil, Preetida J. Bhetariya, Ignacio Garrido-Laguna, Gabor T. Marth, Mary P. Bronner, Hunter R. Underhill

published 21 Feb 2020

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Comparison of sequencing methods and data processing pipelines for whole genome sequencing and minority single nucleotide variant (mSNV) analysis during an influenza A/H5N8 outbreak

Marjolein J. Poen, Anne Pohlmann, Clara Amid, Theo M. Bestebroer, Sharon M. Brookes, Ian H. Brown, Helen Everett, Claudia M. E. Schapendonk, Rachel D. Scheuer, Saskia L. Smits, Martin Beer, Ron A. M. Fouchier, Richard J. Ellis

published 20 Feb 2020

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Assessment of the clinical utility of four NGS panels in myeloid malignancies. Suggestions for NGS panel choice or design

Almudena Aguilera-Diaz, Iria Vazquez, Beñat Ariceta, Amagoia Mañú, Zuriñe Blasco-Iturri, Sara Palomino-Echeverría, María José Larrayoz, Ramón García-Sanz, María Isabel Prieto-Conde, María del Carmen Chillón, Ana Alfonso-Pierola, Felipe Prosper, Marta Fernandez-Mercado, María José Calasanz

published 24 Jan 2020

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Quantitative PCR provides a simple and accessible method for quantitative microbiota profiling

Ching Jian, Panu Luukkonen, Hannele Yki-Järvinen, Anne Salonen, Katri Korpela

published 15 Jan 2020

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Clinical feasibility of NGS liquid biopsy analysis in NSCLC patients

Eirini Papadopoulou, Nikolaos Tsoulos, Katerina Tsantikidi, Vasiliki Metaxa-Mariatou, Pinelopi Eleftheria Stamou, Athina Kladi-Skandali, Evgenia Kapeni, Georgios Tsaousis, George Pentheroudakis, Dimitrios Petrakis, Dimitra Ioanna Lampropoulou, Gerasimos Aravantinos, Ioannis Varthalitis, George Kesisis, Ioannis Boukovinas, Pavlos Papakotoulas, Nikolaos Katirtzoglou, Elias Athanasiadis, Flora Stavridi, Christos Christodoulou, Anna Koumarianou, Yeşim Eralp, George Nasioulas

published 20 Dec 2019

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SparkGA2: Production-quality memory-efficient Apache Spark based genome analysis framework

Hamid Mushtaq, Nauman Ahmed, Zaid Al-Ars

published 05 Dec 2019

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