Tag Archives: PippinHT

Utility of long-read sequencing for All of Us

Posted on February 1, 2023 by Alex

January 2023 Authors: M. Mahmoud, Y. Huang, K. Garimella, P. A. Audano, W. Wan, N. Prasad, R. E. Handsaker, S. Hall, A. Pionzio, M. C. Schatz, M. E. Talkowski, E. E. Eichler, S. E. Levy, F. J. Sedlazeck Abstract: “The … 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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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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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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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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Distinct Profiles of Cell-Free MicroRNAs in Plasma of Veterans with Post-Traumatic Stress Disorder

Posted on July 3, 2019 by Alex

July 2019 Authors: Min Young Lee, David Baxter, Kelsey Scherler , Taek-Kyun Kim, Xiaogang Wu , Duna Abu-Amara, Janine Flory, Rachel Yehuda, Charles Marma, Marti Jett, Inyoul Lee, Kai Wang, and Leroy Hood Info: Researchers report on studies that profile … more »

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Comparison of RNA isolation and library preparation methods for small RNA sequencing of canine biofluids

Posted on May 15, 2019 by Alex

Authors: Candice P. Chu, Mary B. Nabity Info: From the Department of Veterinary Pathobiology at Texas A&M, this study evaluates best practices for small RNA sequencing from canine biofluid samples (serum and urine). The study compares RNA-seq results after using … more »

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Identification of whole blood mRNA and microRNA biomarkers of tissue damage and immune function resulting from amphetamine exposure or heat stroke in adult male rats

Posted on March 29, 2019 by Alex

February 2019 Authors: Luısa Camacho, Camila S. Silva, Joseph P. Hanig, Robert P. Schleimer, Nysia I. George, John F. Bowyer Info: A report from the USDA and others evaluate the effect of amphetamine and methamphetamine toxicity on immune systems and … more »

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Cancer stem cell–associated miRNAs serve as prognostic biomarkers in colorectal cancer

Posted on March 3, 2019 by Alex

March 2019 Authors: Shusuke Toden, Shigeyasu Kunitoshi, Jacob Cardenas, Jinghua Gu, Elizabeth Hutchins, Kendall Van Keuren-Jensen, Hiroyuki Uetake, Yuji Toiyama, and Ajay Goel Info: This study evaluates cancer stems cells (CSC) which resist chemotherapy agents and have high tumor initiation … more »

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