Author Archives: Alex

Chromosomal rearrangements but no change of genes and transposable elements repertoires in an invasive forest-pathogenic fungus

Posted on May 19, 2021 by Alex

Authors: Arthur Demené , Benoît Laurent , Sandrine Cros-Arteil , Christophe Boury , Cyril Dutech Info: The authors present a high-quality de novo genome assembly of Cryphonectria parasitica, and invasive fungus that causes chestnut blight, using Oxford Nanopore and Illumina … more »

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Resetting of 24-nt siRNA landscape is initiated before the first zygotic division in rice

Posted on May 19, 2021 by Alex

January 2021 Authors: Chenxin Li, Jonathan I. Gent, Hengping Xu, Hong Fu, Scott D. Russell, and Venkatesan Sundaresan Info: In this preprint, the authors report on a study of siRNA profiling in zygotes from the rice plant. They report that … more »

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A non-radioactive, improved PAR-CLIP and small RNA cDNA library preparation protocol

Posted on February 19, 2021 by Alex

January 2021 Authors: Dimitrios G Anastasakis, Alexis Jacob, Parthena Konstantinidou, Kazuyuki Meguro, Duncan Claypool, Pavol Cekan, Astrid D Haase, Markus Hafner Info: The authors offer an improvement to the PAR-CLIP method that is more streamlined and does not require the … more »

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isoCirc catalogs full-length circular RNA isoforms in human transcriptomes

Posted on January 26, 2021 by Alex

January 2021 Authors: Ruijiao Xin, Yan Gao, Yuan Gao, Robert Wang, Kathryn E. Kadash-Edmondson, Bo Liu, Yadong Wang, Lan Lin & Yi Xing Info: The authors present a protocol, isoCirc, for the full-length sequence determination of circular RNAs. The method … more »

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Identifying the true number of specimens of the extinct blue antelope (Hippotragus leucophaeus)

Posted on January 15, 2021 by Alex

Jan 2021 Authors: Elisabeth Hempel, Faysal Bibi, J. Tyler Faith, James S. Brink, Daniela C. Kalthoff, Pepijn Kamminga, Johanna L. A. Paijmans, Michael V. Westbury, Michael Hofreiter & Frank E. Zachos Info: In an effort to better understand the mechanisms … more »

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ATAC-seq with unique molecular identifiers improves quantification and footprinting

Posted on November 19, 2020 by Alex

November 2020 Authors: Tao Zhu, Keyan Liao, Rongfang Zhou, Chunjiao Xia & Weibo Xie Info: The authors suggest an improvement on the ATAC-seq method (Assay for Transposase-Accessible Chromatin with high-throughput sequencing). By using unique molecular identifiers to distinguish between transposase … more »

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HLS-CATCH and TELL-Seq: Haplotype Phasing of a 187kb HMW Gene Targets from a Trio

Posted on November 11, 2020 by Alex

We here at Sage Science are excited to have joined forces with Universal Sequencing Technology to promote their TELL-Seq barcode linked-read technology.  One of the reasons for our excitement is that TELL-Seq, and the transposase-based barcoding method benefits greatly from … more »

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Complete and haplotype-specific sequence assembly of segmental duplication-mediated genome rearrangements using targeted CRISPR-targeted ultra-long read sequencing (CTLR-Seq)

Posted on October 30, 2020 by Alex

October 2020 Authors: Bo Zhou, GiWon Shin, Stephanie U. Greer, Lisanne Vervoort, Yiling Huang, Reenal Pattni, Marcus Ho, Wing H. Wong, Joris R. Vermeesch, Hanlee P. Ji, Alexander E. Urban Info: In this preprint the authors report on a method, … more »

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Ultra-low input single tube linked-read library method enables short-read second-generation sequencing systems to generate highly accurate and economical long-range sequencing information routinely generate highly accurate and economical long-range sequencing information

Posted on October 27, 2020 by Alex

June 2020 Authors: Zhoutao Chen, Long Pham, Tsai-Chin Wu, Guoya Mo, Yu Xia, Peter L Chang, Devin Porter, Tan Phan, Huu Che, Hao Tran, Vikas Bansal, Justin Shaffer, Pedro Belda-Ferre, Gregory Humphrey, Rob Knight, Pavel Pevzner, Son Pham, Yong Wang … more »

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CRISPR–Cas9/long-read sequencing approach to identify cryptic mutations in BRCA1 and other tumour suppressor genes

Posted on October 27, 2020 by Alex

October 2020 Authors: Tom Walsh, Silvia Casadei, Katherine M Munson, Mary Eng, Jessica B Mandell, Suleyman Gulsuner, Mary-Claire King Info: In this short report, researchers studying young-onset breast cancer used the SageHLS and HLS-CATCH method to purify high molecular weight … more »

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