Author Archives: Alex

Heat selection enables highly scalable methylome profiling in cell-free DNA for noninvasive monitoring of cancer patients

Posted on September 15, 2022 by Alex

September 2022 Authors: Elsie Cheruba, Ramya Viswanathan, Pui-Mun Wong, Howard John Womersley, Shuting Han, Brenda Tay, Yiting Lau, Anna Gan, Polly S. Y. Poon, Anders Skanderup, Sarah B. Ng, Aik Yong Chok, Dawn Qingqing Chong, Iain Beehuat Tan, Lih Feng … more »

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rDNA array length is a major determinant of replicative lifespan in budding yeast

Posted on April 7, 2022 by Alex

April 2022 Authors: Manuel Hotz, Nathaniel H. Thayer, David G. Hendrickson, Elizabeth L. Schinski, Jun Xu, and Daniel E. Gottschling Info: The authors propose a new mechanism for aging and lifespan determination in budding yeast. The researchers “discovered a previously … more »

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An experimental strategy for preparing circular ssDNA virus genomes for next-generation sequencing

Posted on January 25, 2022 by Alex

Feb 2022 Authors: Catherine D. Aimone, Steen Hoyer, Anna E. Dye, David O. Deppong, Siobain Duffy, Ignazio Carbone, Linda Hanley-Bowdoin Info: The authors provide a protocol for analyzing single stranded DNA (ssDNA) from begomoviruses, which cause significant damage to many … more »

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High-quality Arabidopsis thaliana Genome Assembly with Nanopore and HiFi Long Reads

Posted on September 15, 2021 by Alex

September 2021 Authors: Bo Wang, Xiaofei Yang, Yanyan Jia, Yu Xu, Peng Jia, Ningxin Dang, Songbo Wang, Tun Xu, Xixi Zhao, Shenghan Gao, Quanbin Dong, Kai Ye Info: The authors report on a high quality genome assembly of the model … more »

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High-molecular weight DNA extraction, clean-up and size selection for long-read sequencing

Posted on July 14, 2021 by Alex

July 2021 Authors: Ashley Jones ,Cynthia Torkel,David Stanley,Jamila Nasim,Justin Borevitz,Benjamin Schwessinger Info: The authors provide a protocol for preparing high molecular weight DNA sequencing libraries with a particular focus on difficult plant and fungal tissues, and also can be used … more »

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Comparison of long-read sequencing technologies in interrogating bacteria and fly genomes

Posted on June 15, 2021 by Alex

June 2021 Authors: Eric S Tvedte, Mark Gasser, Benjamin C Sparklin, Jane Michalski, Carl E Hjelmen, J Spencer Johnston, Xuechu Zhao, Robin Bromley, Luke J Tallon, Lisa Sadzewicz, David A Rasko, Julie C Dunning Hotopp Info: This side-by-side comparison of … more »

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Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology

Posted on May 21, 2021 by Alex

April 2021 Authors: Multiple authors, the SEQC2 Oncopanel Sequencing Working Group Info: A multi-site and cross-platform evaluation of circulating tumor DNA (ctDNA) NGS assays was conducted by the SEQC2 Oncopanel Sequencing Working Group and reported on in this comprehensive study. … more »

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Nanopore adaptive sampling: a tool for enrichment of low abundance species in metagenomic samples

Posted on May 21, 2021 by Alex

May 2021 Authors: Samuel Martin, Darren Heavens, Yuxuan Lan, Samuel Horsfield, Matthew D Clark, Richard M Leggett Info: Oxford Nanopore adaptive sampling is a real-time sequencing method with which analysis software identifies several hundred sequence bases as they pass through … more »

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Gene by environment interaction mouse model reveals a functional role for 5-hydroxymethylcytosine in neurodevelopmental disorders

Posted on May 20, 2021 by Alex

May 2021 Authors: Ligia A. Papale, Andy Madrid, Qi Zhang, Kailei Chen, Lara Sak, Sündüz Keles, and Reid S. Alisch Info: Researchers studying the role of 5-Hydroxymethylcytosine (5hmC) epigenetic modifications in neurological disorders report on the effect of prenatal stress … more »

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Circulating miRNA diversity, origin and response to changing metabolic and reproductive states, new insights from the rainbow trout

Posted on May 19, 2021 by Alex

Authors: Emilie Cardona, Cervin Guyomar, Thomas Desvignes3, Jérôme Montfort , Samia Guendouz, John H. Postlethwait , Sandrine Skiba-Cassy, Julien Bobe Info: The researchers conducted a comprehensive study of circulating miRNAs (c-mRNAs) in biological fluids of the rainbow trout, with the … more »

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