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  • PHACTR1 is associated with disease progression in Chinese Moyamoya disease

    Yongbo Yang, Jian Wang, Qun Liang, Yi Wang, Xinhua Chen, Qingrong Zhang, Shijie Na, Yi Liu, Ting Yan, Chunhua Hang, Yichao Zhu PeerJ 8 e8841-, 2020-05-05

    ...italic>CCER2, HLA-DRB1, NSD-1, PDGFRB, PHACTR1, POGLUT1</jats:italic>, and<jats:italic> RNF213)</jats:italic> were identified, of which eight single nucleotide variants (SNVs) were deleterious with CADD PHRED...

    DOI PDF Web Site ほか1件 被引用文献1件

  • Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes

    Kishwar Shafin, Trevor Pesout, Ryan Lorig-Roach, Marina Haukness, Hugh E. Olsen, Colleen Bosworth, Joel Armstrong, Kristof Tigyi, Nicholas Maurer, Sergey Koren, Fritz J. Sedlazeck, Tobias Marschall, Simon Mayes, Vania Costa, Justin M. Zook, Kelvin J. Liu, Duncan Kilburn, Melanie Sorensen, Katy M. Munson, Mitchell R. Vollger, Jean Monlong, Erik Garrison, Evan E. Eichler, Sofie Salama, David Haussler, Richard E. Green, Mark Akeson, Adam Phillippy, Karen H. Miga, Paolo Carnevali, Miten Jain, Benedict Paten Nature Biotechnology 38 (9), 1044-1053, 2020-05-04

    ...MarginPolish and HELEN polished haploid assemblies to more than 99.9% identity (Phred quality score QV = 30) with nanopore reads alone....

    DOI PDF Web Site 被引用文献6件

  • Regulation of ATP utilization during metastatic cell migration by collagen architecture

    Matthew R. Zanotelli, Zachary E. Goldblatt, Joseph P. Miller, Francois Bordeleau, Jiahe Li, Jacob A. VanderBurgh, Marsha C. Lampi, Michael R. King, Cynthia A. Reinhart-King Molecular Biology of the Cell 29 (1), 1-9, 2018-01

    ...Here we introduce the use of the genetically encoded fluorescent biomarkers, PercevalHR and pHRed, to quantitatively assess ATP, ADP, and pH levels in MDA-MB-231 metastatic cancer cells as a function of...

    DOI Web Site 被引用文献2件

  • Liquid Metal Actuator for Inducing Chaotic Advection

    Shi‐Yang Tang, Vijay Sivan, Phred Petersen, Wei Zhang, Paul D. Morrison, Kourosh Kalantar‐zadeh, Arnan Mitchell, Khashayar Khoshmanesh Advanced Functional Materials 24 (37), 5851-5858, 2014-07-14

    <jats:p>Chaotic advection plays an important role in microplatforms for a variety of applications. Currently used mechanisms for inducing chaotic advection in small scale, however, are limited by …

    DOI Web Site Web Site 被引用文献4件

  • Liquid metal enabled pump

    Shi-Yang Tang, Khashayar Khoshmanesh, Vijay Sivan, Phred Petersen, Anthony P. O’Mullane, Derek Abbott, Arnan Mitchell, Kourosh Kalantar-zadeh Proceedings of the National Academy of Sciences 111 (9), 3304-3309, 2014-02-18

    <jats:title>Significance</jats:title> <jats:p>The utilization of small-scale pumps is presently hampered by their limited flow rates with respect to the input power or their rather …

    DOI Web Site 被引用文献6件

  • Liquid Metal Marbles

    Vijay Sivan, Shi‐Yang Tang, Anthony P. O'Mullane, Phred Petersen, Nicky Eshtiaghi, Kourosh Kalantar‐zadeh, Arnan Mitchell Advanced Functional Materials 23 (2), 144-152, 2012-08-07

    <jats:title>Abstract</jats:title><jats:p>Liquid metal marbles that are droplets of liquid metal encapsulated by micro‐ or nanoparticles are introduced. Droplets of galinstan liquid metal are coated …

    DOI Web Site Web Site 被引用文献10件

  • Oscillatory Thermopower Waves Based on Bi<sub>2</sub>Te<sub>3</sub> Films

    Sumeet Walia, Rodney Weber, Kay Latham, Phred Petersen, Joel T. Abrahamson, Michael S. Strano, Kourosh Kalantar‐zadeh Advanced Functional Materials 21 (11), 2072-2079, 2011-04-20

    <jats:title>Abstract</jats:title><jats:p>Exothermic chemical reactions that are coupled to Bi<jats:sub>2</jats:sub>Te<jats:sub>3</jats:sub> porous layers, which are deposited onto terracotta or …

    DOI Web Site Web Site 被引用文献1件

  • Screen-related sedentary behaviours of school-aged children

    Meizi He, Leonard Piché, Charlene Beynon, Joanne Kurtz, Stewart Harris Health Education Journal 70 (1), 32-38, 2010-04-08

    <jats:p> Objective: To solicit school principals’ and teachers’ perspectives on children’s screen-related sedentary behaviour and to identify possible solutions to reduce sedentary behaviours among …

    DOI Web Site Web Site 被引用文献1件

  • Single-Molecule DNA Sequencing of a Viral Genome

    Timothy D. Harris, Phillip R. Buzby, Hazen Babcock, Eric Beer, Jayson Bowers, Ido Braslavsky, Marie Causey, Jennifer Colonell, James DiMeo, J. William Efcavitch, Eldar Giladi, Jaime Gill, John Healy, Mirna Jarosz, Dan Lapen, Keith Moulton, Stephen R. Quake, Kathleen Steinmann, Edward Thayer, Anastasia Tyurina, Rebecca Ward, Howard Weiss, Zheng Xie Science 320 (5872), 106-109, 2008-04-04

    ...Read lengths of >25 bases and equivalent phred software program quality scores approaching 30 were achieved....

    DOI Web Site 被引用文献9件

  • Quality scores and SNP detection in sequencing-by-synthesis systems

    William Brockman, Pablo Alvarez, Sarah Young, Manuel Garber, Georgia Giannoukos, William L. Lee, Carsten Russ, Eric S. Lander, Chad Nusbaum, David B. Jaffe Genome Research 18 (5), 763-770, 2008-01-22

    ...We developed informative, base-by-base error predictors for this sequencer and used a variant of the <jats:italic>phred</jats:italic> binning algorithm to combine them into a single empirically derived...

    DOI Web Site 被引用文献3件

  • Systematic Recovery and Analysis of Full-ORF Human cDNA Clones

    Ágnes Baross, Yaron S.N. Butterfield, Shaun M. Coughlin, Thomas Zeng, Malachi Griffith, Obi L. Griffith, Anca S. Petrescu, Duane E. Smailus, Jaswinder Khattra, Helen L. McDonald, Sheldon J. McKay, Michelle Moksa, Robert A. Holt, Marco A. Marra Genome Research 14 (10b), 2083-2092, 2004-10-15

    ...Sequences are processed and assembled using <jats:italic>Phred</jats:italic> and <jats:italic>Phrap</jats:italic>, and analyzed using Consed and a number of bioinformatics methods we have developed....

    DOI Web Site PubMed 研究データあり 被引用文献2件 参考文献21件

  • 有用細菌(乳酸菌等)の全ゲノム塩基配列決定, 比較ゲノム解析および有用遺伝子の機能解明

    森田, 英利, 政岡, 俊夫, 茅根, 士郎, 和田, 恭則, 有嶋, 和義, 木内, 明男, 坂田, 亮一, 柴野, 正雄, 内藤, 博之, 斉藤, 康秀, 西田, 利穂, 印牧, 信行, 滝沢, 達也, 加藤, 行男, 村上, 賢, 福山, 正文, 岸川, 正剛, 久松, 伸, 吉村, 哲彦, 柴, 忠義, 服部, 正平, Morita, Hidetoshi, Masaoka, Toshio, Chinone, Shiro, Wada, Yasunori, Arishima, Kazuyoshi, Kiuchi, Akio, Sakata, Ryoichi, Shino, Masao, Naito, Hiroyuki, Saito, Yasuhide, Nishita, Toshiho, Kanemaki, Nobuyuki, Takizawa, Tatsuya, Kato, Yukio, Murakami, Masaru, Fukuyama, Masafumi, Kishikawa, Seigo, Hisamatsu, Shin, Yoshimura, Tetsuhiko, Shiba, Tadayoshi, Hattori, Masahira 麻布大学雑誌 5/6 219-224, 2003-03-31

    ...得られたデータは,Phred/Phrapによるアッセンブルと,アノテーションはGenome Gambler(MKI社)により行った。 ゲノムサイズは両菌株とも約1.8Mbでほぼ同様であったが,両菌株のゲノムの制限酵素地図的にはかなり異なっていた。ORFの数はそれぞれ1,600ぐらいで,輸送,エネルギー代謝に分類される遺伝子が主であった。両菌株よりβ-グルクロニダーゼ遺伝子は見つからなかった。...

    機関リポジトリ Web Site 医中誌

  • Mouse BAC Ends Quality Assessment and Sequence Analyses

    Shaying Zhao, Sofiya Shatsman, Bola Ayodeji, Keita Geer, Getahun Tsegaye, Margaret Krol, Elizabeth Gebregeorgis, Alla Shvartsbeyn, Daniel Russell, Larry Overton, Lingxia Jiang, George Dimitrov, Kevin Tran, Jyoti Shetty, Joel A. Malek, Tamara Feldblyum, William C. Nierman, Claire M. Fraser Genome Research 11 (10), 1736-1745, 2001-09-20

    ...The average Q20 length is 406 bp and 84% of the bases have<jats:monospace>phred</jats:monospace> quality scores ≥ 20....

    DOI Web Site 被引用文献2件

  • <i>Consed:</i> A Graphical Tool for Sequence Finishing

    David Gordon, Chris Abajian, Phil Green Genome Research 8 (3), 195-202, 1998-03-01

    ...A distinguishing feature relative to other programs is the use of error probabilities from our programs <jats:italic>phred</jats:italic> and<jats:italic>phrap</jats:italic> as an objective criterion to...

    DOI Web Site 被引用文献53件

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