Quantitative assessment of mitochondrial DNA copies from whole genome sequencing by Chu Hsueh-Ting, Hsiao William WL, Tsao Theresa TH, Chang Ching-Mao, Liu Yen-Wenn, Fan Chen-Chieh, Lin Han, Chang Hen-Hong, Yeh Tze-Jung, Chen Jen-Chih, Huang Dun-Ming, Chen Chaur-Chin, Kao Cheng-Yan

“…Here we propose a new computational method for the accurate assessment of mtDNA copies from whole genome sequencing data.</p> <p>Results</p> <p>Two families of the human whole genome sequencing datasets from the HapMap and the 1000 Genomes projects were used for the accurate counting of mitochondrial DNA copy numbers. …”

Preferences for the provision of whole genome sequencing services among young adults. by Christopher H Wade, Kailyn R Elliott

“…OBJECTIVES:As whole genome sequencing (WGS) becomes increasingly available, clinicians will be faced with conveying complex information to individuals at different stages in life. …”
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A Tale of Native American Whole-Genome Sequencing and Other Technologies by Israel Aguilar-Ordoñez, Josué Guzmán-Linares, Judith Ballesteros-Villascán, Fernanda Mirón-Toruño, Alejandra Pérez-González, José García-López, Fabricio Cruz-López, Enrique Morett

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Are Escherichia coli Pathotypes Still Relevant in the Era of Whole-Genome Sequencing? by Roy Michael Robins-Browne, Roy Michael Robins-Browne, Kathryn Elizabeth Holt, Danielle Joy Ingle, Danielle Joy Ingle, Dianna Margaret Hocking, Ji Yang, Marija Tauschek

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Microbiota present in cystic fibrosis lungs as revealed by whole genome sequencing. by Philippe M Hauser, Thomas Bernard, Gilbert Greub, Katia Jaton, Marco Pagni, Gaudenz M Hafen

“…We have explored whole genome sequencing (WGS) using the Illumina high-throughput technology applied directly to DNA extracted from sputa obtained from two cystic fibrosis patients. …”
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Deep Whole-Genome Sequencing to Detect Mixed Infection of Mycobacterium tuberculosis. by Mingyu Gan, Qingyun Liu, Chongguang Yang, Qian Gao, Tao Luo

“…Traditional genotyping methods have been used to detect mixed infections of MTB, however, their sensitivity and resolution are limited. Deep whole-genome sequencing (WGS) has been proved highly sensitive and discriminative for studying population heterogeneity of MTB. …”
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Accurate and robust prediction of genetic relationship from whole-genome sequences. by Hong Li, Gustavo Glusman, Chad Huff, Juan Caballero, Jared C Roach

“…We developed an algorithm for estimation of genetic relationship by averaged blocks (GRAB) that is designed for whole-genome sequencing (WGS) data. GRAB segments the genome into blocks, calculates the fraction of blocks sharing identity, and then uses a classification tree to infer 1st- to 5th- degree relationships and unrelated individuals. …”
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Paired tumor and normal whole genome sequencing of metastatic olfactory neuroblastoma. by Glen J Weiss, Winnie S Liang, Tyler Izatt, Shilpi Arora, Irene Cherni, Robert N Raju, Galen Hostetter, Ahmet Kurdoglu, Alexis Christoforides, Shripad Sinari, Angela S Baker, Raghu Metpally, Waibhav D Tembe, Lori Phillips, Daniel D Von Hoff, David W Craig, John D Carpten

“…We performed whole genome sequencing (WGS) on paired normal and tumor DNA from a patient with metastatic-ONB to identify the somatic alterations that might be drivers of tumorigenesis and/or metastatic progression.Genomic DNA was isolated from fresh frozen tissue from a metastatic lesion and whole blood, followed by WGS at >30X depth, alignment and mapping, and mutation analyses. …”
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Corrigendum: Mucinous adenocarcinoma of the rectum: a whole genome sequencing study by Ian S. Reynolds, Ian S. Reynolds, Valentina Thomas, Valentina Thomas, Valentina Thomas, Emer O’Connell, Emer O’Connell, Michael Fichtner, Deborah A. McNamara, Deborah A. McNamara, Elaine W. Kay, Jochen H. M. Prehn, Jochen H. M. Prehn, John P. Burke, Simon J. Furney, Simon J. Furney, Simon J. Furney

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Multi-platform whole genome sequencing for tuberculosis clinical and surveillance applications by Joseph Thorpe, Waritta Sawaengdee, Daniel Ward, Monica Campos, Nuanjun Wichukchinda, Boonchai Chaiyasirinroje, Aungkana Thanraka, Jaluporn Chumpol, Jody E. Phelan, Susana Campino, Surakameth Mahasirimongkol, Taane G. Clark

“…Abstract Whole genome sequencing (WGS) of Mycobacterium tuberculosis offers valuable insights for tuberculosis (TB) control. …”
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Whole-Genome Sequencing Reveals Genetic Variation in the Asian House Rat by Huajing Teng, Yaohua Zhang, Chengmin Shi, Fengbiao Mao, Lingling Hou, Hongling Guo, Zhongsheng Sun, Jianxu Zhang

“…Whole-genome sequencing of wild-derived rat species can provide novel genomic resources, which may help decipher the genetics underlying complex phenotypes. …”
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Fast and sensitive validation of fusion transcripts in whole-genome sequencing data by Völundur Hafstað, Jari Häkkinen, Helena Persson

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Identification of Medium-Sized Copy Number Alterations in Whole-Genome Sequencing by Hatice Gulcin Ozer, Aisulu Usubalieva, Adrienne Dorrance, Ayse Selen Yilmaz, Michael Caligiuri, Guido Marcucci, Kun Huang

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Whole Genome Sequencing: Bridging One-Health Surveillance of Foodborne Diseases by Peter Gerner-Smidt, John Besser, Jeniffer Concepción-Acevedo, Jason P. Folster, Jasmine Huffman, Lavin A. Joseph, Zuzana Kucerova, Megin C. Nichols, Colin A. Schwensohn, Beth Tolar

Subjects: “…whole genome sequencing (WGS)…”
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Whole genome sequencing of Bulgarian rifampicin resistant Mycobacterium tuberculosis strains by Stanislava Yordanova, Elizabeta Bachiyska, Elisa Tagliani, Ana Baykova, Yuliana Atanasova, Andrea Spitaleri, Daniela Maria Cirillo

“…Introduction: The transmission of drug-resistant tuberculosis is one of the greatest challenges facing the global tuberculosis control.Aim: The aim of the study was to investigate the resent transmission of rifampicin resistant tuberculosis in Bulgaria and to describe the mutations related to the antimicrobials&amp;rsquo; resistance using whole genome sequencing.Materials and methods: As part of an ECDC funded pilot study for evaluation of the systematic use of whole genome sequencing (WGS) of Mycobacterium tuberculosis (MTB) surveillance (EUSeqMyTB), Bulgaria provided 65 rifampicin resistant isolates over a three years&amp;rsquo; timeframe (2017-2019) representing 87.5% of the notified rifampicin resistant cases. …”
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Whole Genome Sequence Analysis of Lactiplantibacillus plantarum Bacteriophage P2 by Zhu Hanfang, Guo She, Zhao Jie, Arbab Sakandar Hafiz, Lv Ruirui, Wen Qiannan, Chen Xia

“…In this study, this phage’s genomic characteristics were analyzed using whole-genome sequencing. It was revealed that phage P2 was 77.9 kb in length and had 39.28% G + C content. …”
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Utility of whole-genome sequence data for across-breed genomic prediction by Biaty Raymond, Aniek C. Bouwman, Chris Schrooten, Jeanine Houwing-Duistermaat, Roel F. Veerkamp

“…Our objective was to evaluate whether using whole-genome sequence (WGS) instead of low-density markers can improve GP across breeds, especially when markers are pre-selected from a genome-wide association study (GWAS), and to test our hypothesis that many non-causal markers in WGS data have a diluting effect on accuracy of across-breed prediction. …”
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Evaluation of Whole-Genome Sequence Imputation Strategies in Korean Hanwoo Cattle by Muhammad Yasir Nawaz, Priscila Arrigucci Bernardes, Rodrigo Pelicioni Savegnago, Dajeong Lim, Seung Hwan Lee, Cedric Gondro

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Whole-genome sequencing and analysis of Chryseobacterium arthrosphaerae from Rana nigromaculata by Lihong Zhu, Hao Liu, Xiaohui Li, Yuefeng Shi, Xiaoliang Yin, Xionge Pi

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Comprehensive evaluation of structural variation detection algorithms for whole genome sequencing by Shunichi Kosugi, Yukihide Momozawa, Xiaoxi Liu, Chikashi Terao, Michiaki Kubo, Yoichiro Kamatani

“…Although a number of existing SV detection algorithms can detect many types of SVs using whole genome sequencing (WGS) data, no single algorithm can call every type of SVs with high precision and high recall. …”
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