Tag Archives: SageELF

Innovations in double digest restriction-site associated DNA sequencing (ddRAD-Seq) method for more efficient SNP identification

February 2023 Authors: Zenaida V.Magbanua, Chuan-YuHsu, OlgaPechanova, Mark Arick II, Corrinne E.Grover, Daniel G.Peterson Abstract: “We present an improved ddRAD-Seq protocol for identifying single nucleotide polymorphisms (SNPs). It utilizes selected restriction enzyme digestion fragments, quick acting ligases that are neutral … more »

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Proteomic analysis of sialoliths from calcified, lipid and mixed groups as a source of potential biomarkers of deposit formation in the salivary glands

January 2023 Authors: Natalia Musiał, Aleksandra Bogucka, Dmitry Tretiakow, Andrzej Skorek, Jacek Ryl Gdańsk, Paulina Czaplewska Abstract: “Salivary stones, also known as sialoliths, are formed in a pathological situation in the salivary glands. So far, neither the mechanism of their … more »

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Highly accurate long-read HiFi sequencing data for five complex genomes

May 2020 Authors: Ting Hon, Kristin Mars, Greg Young, Yu-Chih Tsai, Joseph W. Karalius, Jane M. Landolin, Nicholas Maurer, David Kudrna, Michael A. Hardigan, Cynthia C. Steiner, Steven J. Knapp, Doreen Ware, Beth Shapiro, Paul Peluso, David R. Rank Info: … more »

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Amplification-free long read sequencing reveals unforeseen CRISPR-Cas9 off-target activity

February 2020 Authors: Ida Höijer, Josefin Johansson, Sanna Gudmundsson, Chen-Shan Chin, Ignas Bunikis, Susana Häggqvist, Anastasia Emmanouilidou, Maria Wilbe, Marcel den Hoed, Marie-Louise Bondeson, Lars Feuk, Ulf Gyllensten, Adam Ameur Info: In this preprint, the authors propose a method for … more »

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SageELF Size Selection for PacBio Circular Consensus Sequencing

A new preprint has landed on BioRxiv that reports on high-accuracy circular consensus sequencing (CCS) on the PacBio Sequel. The study, “Highly-accurate long-read sequencing improves variant detection and assembly of a human genome”, is authored by PacBio and an impressive … more »

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Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing

March 2018 Authors: Seyed Yahya Anvar, Guy Allard, Elizabeth Tseng, Gloria Sheynkman, et al. Info: Researchers from Leiden University Medical Center and other institutions studied the relationships between transcription initiation and splicing and polyadenylation events in breast cancer cells and … more »

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Transcription-associated mutation promotes RNA complexity in highly expressed genes — a major new source of selectable variation

February 2018 Authors: Shengkai Pan, Michael Bruford, Yusong Wang, Zhenzhen Lin, et al. Info: In this project, researchers studied transcriptomes in falcons, mice, and chickens and found that highly expressed genes are more likely to alternatively spliced. They also studied … more »

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SageELF Enables Targeted RenSeq Capture for PacBio Sequencing

We’ve had targeted capture on the brain lately as we work with collaborators to put the finishing touches on our HLS-CATCH method for selecting large genomic elements using Cas9 guides and the SageHLS system. So today, we wanted to revisit … more »

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New Mosquito Assembly to Accelerate Science and Insect Control

There’s a lot to love about the new preprint announcing the first-ever truly high-quality reference genome assembly for the Aedes aegypti mosquito. The large consortium of scientists — the paper features a total of 72 co-authors — came together on … more »

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Nemertean and phoronid genomes reveal lophotrochozoan evolution and the origin of bilaterian heads

December 2017 Authors: Yi-Jyun Luo, Miyuki Kanda, Ryo Koyanagi, Kanako Hisata, et al. Info: Scientists from the Okinawa Institute of Science and Technology Graduate University and Okayama University in Japan generated draft genomes and transcriptomes of ribbon worms and horseshoe … more »

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