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Publisher Correction: The genome of the stable fly, Stomoxys calcitrans, reveals potential mechanisms underlying reproduction, host interactions, and novel targets for pest control

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BMC biology 2021年第1期19卷 150页

作者： Pia U Olafson Serap Aksoy Geoffrey M Attardo Greta Buckmeier Xiaoting Chen Craig J Coates Megan Davis Justin Dykema Scott J Emrich Markus Friedrich Christopher J Holmes Panagiotis Ioannidis Evan N Jansen Emily C Jennings Daniel Lawson Ellen O Martinson Gareth L Maslen Richard P Meisel Terence D Murphy Dana Nayduch David R Nelson Kennan J Oyen Tyler J Raszick José M C Ribeiro Hugh M Robertson Andrew J Rosendale Timothy B Sackton Perot Saelao Sonja L Swiger Sing-Hoi Sze Aaron M Tarone David B Taylor Wesley C Warren Robert M Waterhouse Matthew T Weirauch John H Werren Richard K Wilson Evgeny M Zdobnov Joshua B Benoit Livestock Arthropod Pests Research Unit USDA-ARS Kerrville TX USA. pia.olafson@usda.gov. Department of Epidemiology of Microbial Diseases Yale School of Public Health New Haven CT USA. Department of Entomology and Nematology University of California - Davis Davis CA USA. Livestock Arthropod Pests Research Unit USDA-ARS Kerrville TX USA. The Center for Autoimmune Genomics and Etiology Cincinnati Children's Hospital Medical Center Cincinnati OH USA. Department of Entomology Texas A & M University College Station TX USA. Department of Biological Sciences Wayne State University Detroit MI USA. Department of Electrical Engineering & Computer Science University of Tennessee Knoxville TN USA. Department of Biological Sciences University of Cincinnati Cincinnati OH USA. Department of Genetic Medicine and Development University of Geneva Medical School and Swiss Institute of Bioinformatics 1211 Geneva Switzerland. The European Molecular Biology Laboratory The European Bioinformatics Institute The Wellcome Genome Campus Hinxton CB10 1SD UK. Department of Entomology University of Georgia Athens GA USA. Department of Biology and Biochemistry University of Houston Houston TX USA. National Center for Biotechnology Information National Library of Medicine National Institutes of Health Bethesda MD USA. Arthropod-borne Animal Diseases Research Unit USDA-ARS Manhattan KS USA. Department of Microbiology Immunology and Biochemistry University of Tennessee Health Science Center Memphis TN USA. Section of Vector Biology Laboratory of Malaria and Vector Research National Institute of Allergy and Infectious Diseases Rockville MD USA. Department of Entomology University of Illinois at Urbana-Champaign Urbana IL USA. Department of Biology Mount St. Joseph University Cincinnati OH USA. Informatics Group Faculty of Arts and Sciences Harvard University Cambridge MA USA. Department of Entomology Texas A&M AgriLife Research and Extension Center Stephenville

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BIISQ: Bayesian nonparametric discovery of Isoforms and Individual Specific Quantification

arXiv

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arXiv 2017年

作者： Aguiar, Derek Cheng, Li-Fang Dumitrascu, Bianca Mordelet, Fantine Pai, Athma A. Engelhardt, Barbara E. Department of Computer Science Princeton University PrincetonNJ United States Department of Electrical Engineering Princeton University PrincetonNJ United States Lewis Sigler Institute Princeton University PrincetonNJ United States Institute for Genome Sciences and Policy Duke University DurhamNC United States Department of Biology Massachusetts Institute of Technology CambridgeMA United States Center for Statistics and Machine Learning Princeton University PrincetonNJ United States

Most human protein-coding genes can be transcribed into multiple possible distinct mRNA isoforms. These alternative splicing patterns encourage molecular diversity and dysregulation of isoform expression plays an important role in disease etiology. However, isoforms are difficult to characterize from short-read RNA-seq data because they share identical subsequences and exist in tissue- and sample-specific frequencies. Here, we develop BIISQ, a Bayesian nonparametric model to discover Isoforms and Individual Specific Quantification from RNA-seq data. BIISQ does not require known isoform reference sequences but instead estimates isoform composition directly with an isoform catalog shared across samples. We develop a stochastic variational inference approach for efficient and robust posterior inference and demonstrate superior precision and recall for short read RNA-seq simulations and simulated short read data from PacBio long read sequencing when compared to state-of-the-art isoform reconstruction methods. BIISQ achieves the most significant gains for longer (in terms of exons) isoforms and isoforms that are lowly expressed (over 500% more transcripts correctly inferred at low coverage in simulations). Finally, we estimate isoforms in the GEUVADIS RNA-seq data, identify genetic variants that regulate transcript ratios, and demonstrate variant enrichment in functional elements related to mRNA splicing regulation. Copyright © 2017, The Authors. All rights reserved.

关键词： RNA

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Tweet for behavior change: Using social media for the dissemination of public health messages

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JMIR public Health and Surveillance 2017年第1期3卷 e14页

作者： Gough, Aisling Hunter, Ruth F. Ajao, Oluwaseun Jurek, Anna McKeown, Gary Hong, Jun Barrett, Eimear Ferguson, Marbeth McElwee, Gerry McCarthy, Miriam Kee, Frank UKCRC Centre of Excellence in Public Health Northern Ireland School of Medicine Dentistry and Biomedical Sciences Queen's University Belfast Belfast United Kingdom UKCRC Centre of Excellence in Public Health Northern Ireland School of Medicine Dentistry and Biological Sciences Queen's University Belfast Belfast United Kingdom School of Electronics Electrical Engineering and Computer Science Queen's University Belfast Belfast United Kingdom School of Psychology Queen's University Belfast Belfast United Kingdom Cancer Focus Northern Ireland Belfast United Kingdom Public Health Agency Northern Ireland Belfast United Kingdom

Background: Social media public health campaigns have the advantage of tailored messaging at low cost and large reach, but little is known about what would determine their feasibility as tools for inducing attitude and behavior change. Objective: The aim of this study was to test the feasibility of designing, implementing, and evaluating a social media-enabled intervention for skin cancer prevention. Methods: A quasi-experimental feasibility study used social media (Twitter) to disseminate different message “frames” related to care in the sun and cancer prevention. Phase 1 utilized the Northern Ireland cancer charity's Twitter platform (May 1 to July 14, 2015). Following a 2-week “washout” period, Phase 2 commenced (August 1 to September 30, 2015) using a bespoke Twitter platform. Phase 2 also included a Thunderclap, whereby users allowed their social media accounts to automatically post a bespoke message on their behalf. Message frames were categorized into 5 broad categories: humor, shock or disgust, informative, personal stories, and opportunistic. Seed users with a notable following were contacted to be “influencers” in retweeting campaign content. A pre- and postintervention Web-based survey recorded skin cancer prevention knowledge and attitudes in Northern Ireland (population 1.8 million). Results: There were a total of 417,678 tweet impressions, 11,213 engagements, and 1211 retweets related to our campaign. Shocking messages generated the greatest impressions (shock, n=2369;informative, n=2258;humorous, n=1458;story, n=1680), whereas humorous messages generated greater engagement (humorous, n=148;shock, n=147;story, n=117;informative, n=100) and greater engagement rates compared with story tweets. Informative messages, resulted in the greatest number of shares (informative, n=17;humorous, n=10;shock, n=9;story, n=7). The study findings included improved knowledge of skin cancer severity in a pre- and postintervention Web-based survey, with greater awareness

关键词： Awareness Behavior change Communication public heath Skin cancer Social media Twitter

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The Ore Grade and Depth Influence on Copper Energy Inputs

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BioPhysical Economics and Resource Quality 2016年第2期1卷 1-16页

作者： Koppelaar, R. H. E. M. Koppelaar, H. Centre for Environmental Policy Faculty of Natural Science Imperial College London London UK Institute for Integrated Economic Research The Broadway London UK Faculty of Electrical Engineering Mathematics and Computer Science Delft University of Technology Delft The Netherlands

The study evaluated implications of different ore grades and mine-depth on the energy inputs to extract and process copper. Based on a 191 value dataset from 28 copper mining operations, seven model equations explaining operational energy costs were statistically evaluated. Energy costs for copper mines with leaching operations were not found to be significantly affected by ore grades nor mine-depth as all tested equations were rejected in the analysis. In case of mines with milling/flotation operations, a significant relation was established (p < 0.000, R 2 = 0.63 for surface mines and R 2 = 0.84 for underground mines) which was found to be: energy cost is log-linearly dependent on depth plus the reciprocal of ore grade. On the basis of the equation, an ore grade of 0.5, 0.4 and 0.3% at 300 m of depth results in an energy cost of 60, 127 and 447 MJ/kg to obtain a 30%+ copper concentrate from underground mines, and 52, 95 and 255 MJ/kg for surface mines, respectively. Energy costs are found to accelerate significantly below the 0.5% ore grade level, which can be interpreted as a biophysical barrier below which mining plus milling/flotation becomes increasingly challenging under current efficiency. In splitting out energy use into diesel and electricity, the study found both impacted by decreasing ore grades, but only electricity usage to be substantially influenced by mine-depth. Depth impacts were established as a 7% increase in electricity costs per 100 m and compounded by ore grades.

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Dynamic line parameter estimation using Synchrophasor Measurements

Dynamic line parameter estimation using Synchrophasor Measur...

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International Conference on Information and Automation for Sustainability (ICIAfS)

作者： Anton C. Sameepa Hettiarachchige-Don Visvakumar Aravinthan Ward Jewell Shawn Westervelt Electrical Engineering and Computer Science Department Wichita State University Kansas U.S.A. Substation Protection Engineer Omaha Public Power District Nebraska U.S.A.

ISBN: (纸本)9781509061334

This paper proposes a novel methodology for the calculation and estimation of transmission line impedance with the use of real time data from synchrophasor measurement units. Current synchrophasor standards do not provide impedance data and must therefore be calculated. The algorithms used in this paper include impedance calculation, outlier detection and elimination as well as denoising using regularized least square estimation. The proposed methodology operates using a small sample size and can therefore be applied in real time to provide operators with instantaneous impedance values from transmission lines. The paper also investigates how changing several methodology parameters can affect the accuracy of the output obtained. The overall methodology as well as these parameters have been tested using real synchrophasor data from an American utility provider.

关键词： Phasor measurement units Real-time systems Estimation Impedance Transmission line measurements Power transmission lines Noise reduction

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Metasurface-based ultrathin carpet cloak

Metasurface-based ultrathin carpet cloak

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European Conference on Antennas and Propagation, EuCAP

作者： B. Orazbayev N. Mohammadi Estakhri M. Beruete A. Alù TERALAB (MmW—THz—IR & Plasmonics Laboratory) Public University of Navarra Pamplona Spain Department of Electrical and Computer Engineering The University of Texas at Austin Austin Texas USA Institute of Smart Cities Public University of Navarra Pamplona Spain

Here we present the design and numerical results for an ultrathin unidirectional carpet cloak based on the restoration of the phase of the reflected wave. This ultrathin carpet cloak conceals a triangular surface bump with center height of 4.1 mm and tilt angle of 20 deg. The cloaking metasurface consists of an array of closed ring resonators, which allow an efficient phase manipulation along the edge of the bump. The numerical results at operation frequency f0 = 80 GHz demonstrate a good performance of the designed cloak in both near field and far field. The presented cloak has a thin, lightweight, and easy to fabricate design for radio and THz frequencies and can find applications in radar and antenna systems.

关键词： Metamaterials Plasmons Optical surface waves Optical ring resonators Radar antennas Scattering Electromagnetics

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Possibilities to decrease the electric field exposure with a shield over worker under the 400 kV power lines

Possibilities to decrease the electric field exposure with a...

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Progress in Electromagnetic Research Symposium (PIERS)

作者： Rauno Pääkkönen Leena Korpinen Hiroo Tarao Fabriziomaria Gobba Environmental Health Tampere University of Technology Finland Department of Electrical and Computer Engineering Kagawa National College of Technology Japan Department of Public Health Sciences University of Modena and Reggio Emilia Italy

ISBN: (纸本)9781509060948

The aim of the paper was to present examples of electric field measurements using a piece of shielding net under power lines and above the subject. We performed experiments under power lines using a ladder and constructed different shield nets. We conducted five experiments: (1) ladder was not grounded, (2) ladder was grounded; (3) ladder with a 60×60 cm fish net shield (grounded); (4) ladder with 145 × 60 cm fish net shield (grounded); and (5) the ladder with a chicken net shield (grounded). In the measurement place, the electric field was 5.1 kV/m (height 1.7 m). Our experimental shields could decrease the electric field relatively well.

关键词： Electromagnetics Electric variables measurement Sparks Grounding Steel Health and safety Europe

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The evolutionary history of 2,658 cancers (vol 578, pg 122, 2020)

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NATURE 2023年第7948期614卷 E42-E42页

作者： Gerstung, Moritz Jolly, Clemency Leshchiner, Ignaty Dentro, Stefan C. Gonzalez, Santiago Rosebrock, Daniel Mitchell, Thomas J. Rubanova, Yulia Anur, Pavana Yu, Kaixian Tarabichi, Maxime Deshwar, Amit Wintersinger, Jeff Kleinheinz, Kortine Vazquez-Garcia, Ignacio Haase, Kerstin Jerman, Lara Sengupta, Subhajit Macintyre, Geoff Malikic, Salem Donmez, Nilgun Livitz, Dimitri G. Cmero, Marek Demeulemeester, Jonas Schumacher, Steven Fan, Yu Yao, Xiaotong Lee, Juhee Schlesner, Matthias Boutros, Paul C. Bowtell, David D. Zhu, Hongtu Getz, Gad Imielinski, Marcin Beroukhim, Rameen Sahinalp, S. Cenk Ji, Yuan Peifer, Martin Markowetz, Florian Mustonen, Ville Yuan, Ke Wang, Wenyi Morris, Quaid D. Spellman, Paul T. Wedge, David C. Van Loo, Peter European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI) Cambridge UK European Molecular Biology Laboratory Genome Biology Unit Heidelberg Germany Wellcome Sanger Institute Cambridge UK Genome Biology Unit European Molecular Biology Laboratory (EMBL) Heidelberg Germany University of Ljubljana Ljubljana Slovenia The Francis Crick Institute London UK Big Data Institute University of Oxford Oxford UK Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Big Data Institute Li Ka Shing Centre University of Oxford Oxford UK University of Cambridge Cambridge UK Cambridge University Hospitals NHS Foundation Trust Cambridge UK Department of Applied Mathematics and Theoretical Physics Centre for Mathematical Sciences University of Cambridge Cambridge UK Department of Epidemiology and Biostatistics Memorial Sloan Kettering Cancer Center New York NY USA Department of Statistics Columbia University New York NY USA Department of Haematology University of Cambridge Cambridge UK University of Leuven Leuven Belgium Broad Institute of MIT and Harvard Cambridge MA USA Center for Cancer Research Massachusetts General Hospital Charlestown MA USA Department of Pathology Massachusetts General Hospital Boston MA USA Harvard Medical School Boston MA USA Center for Cancer Research Massachusetts General Hospital Boston MA USA Dana-Farber Cancer Institute Boston MA USA Department of Medical Oncology Dana-Farber Cancer Institute Boston MA USA Department of Cancer Biology Dana-Farber Cancer Institute Boston MA USA Oxford NIHR Biomedical Research Centre Oxford UK Oxford NIHR Biomedical Research Centre University of Oxford Oxford UK University of Toronto Toronto Ontario Canada Vector Institute Toronto Ontario Canada Vector Institute Toronto ON Canada Department of Computer Science University of Toronto Toronto ON Canada Ontario Institute for Cancer Research Toronto Ontario Canada University of California Los Angeles

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Home-based tele-rehabilitation presents comparable and positive impact on self-reported functional outcomes as center-based rehabilitation: Singapore tele-technology aided rehabilitation in stroke (STARS) trial

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Annals of Physical and Rehabilitation Medicine 2018年 61卷 e22-e23页

作者： Asano, M. Tai, B.C. Chen, C. Yen, S.C. Tay, A. Cheong, A. Ng, Y.S. De Silva, D.A. Caves, K. Kumar, Y. Phan, S.W. Cai, V. Wong, N. Chew, E. Chen, Z. Hoenig, H. Koh, G. National University of Singapore Saw Swee Hock School of Public Health Singapore National University of Singapore Department of Electrical & Computer Engineering Singapore Singapore General Hospital Department of Rehabilitation Medicine Singapore National Neuroscience Institute Neurology Singapore Duke University Medical Center Department of Surgery Durham USA National University Hospital Department of Rehabilitation Medicine Singapore National University Health System Investigational Medicine Unit Singapore Durham Veterans Affairs Medical Centre Physical Medicine & Rehabilitation Service Durham USA

Introduction/Background Stroke is a leading cause of disability worldwide. Functional, financial and social barriers commonly prevent individuals with acute stroke and disabilities from receiving rehabilitation following their hospital discharge. Home-based rehabilitation is an alternative to center-based rehabilitation but it is often costlier. Tele-rehabilitation is a promising solution for optimizing rehabilitation utilization, as it can enable clinicians to supervise patients and conversely, patients to receive the recommended care remotely. Our team therefore developed a novel tele-rehabilitation, with the primary aim to estimate the extent to which the proposed tele-rehabilitation resulted in an improvement in function during the first three-months after stroke in comparison to usual rehabilitation. Material and method This was a randomized controlled trial. We used the Late-Life Function and Disability Instrument (FDI) to assess our primary outcome (with adjustment made for baseline covariate). Results We recruited 124 participants and randomized them to receive either 12-week home-based tele-rehabilitation or usual rehabilitation. Rehabilitation Over the 12-week rehabilitation period, the intervention group spent 2246-minutes on their rehabilitation whereas the control group spent 2565-minutes. The median difference between the two groups was not statistically significant ( P = 0.649). Primary Outcome (FDI) The mean FDI frequency score post-rehabilitation for the intervention and control groups were 39.7 (SD 11.7) and 43.0 (SD 10.6) respectively. The mean FDI limitation score post-rehabilitation for the intervention group was 78.5 (SD 20.6) and that for the control group was 85.4 (SD 19.6). The unadjusted and adjusted differences in both FDI scores between the two groups were not statistically significant (Models 1 and 2). Conclusion Both groups reported comparable amount of time spent on rehabilitation and similarly positive impact on the primary outcome. H

关键词： Stroke Telerehabilitation Randomized controlled trial

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Correction to: Comprehensive benchmarking and ensemble approaches for metagenomic classifiers

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Genome biology 2019年第1期20卷 72页

作者： Alexa B R McIntyre Rachid Ounit Ebrahim Afshinnekoo Robert J Prill Elizabeth Hénaff Noah Alexander Samuel S Minot David Danko Jonathan Foox Sofia Ahsanuddin Scott Tighe Nur A Hasan Poorani Subramanian Kelly Moffat Shawn Levy Stefano Lonardi Nick Greenfield Rita R Colwell Gail L Rosen Christopher E Mason Tri-Institutional Program in Computational Biology and Medicine New York NY USA. Department of Physiology and Biophysics Weill Cornell Medicine New York NY 10021 USA. The HRH Prince Alwaleed Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine New York NY 10021 USA. Department of Computer Science and Engineering University of California Riverside CA 92521 USA. School of Medicine New York Medical College Valhalla NY 10595 USA. Accelerated Discovery Lab IBM Almaden Research Center San Jose CA 95120 USA. One Codex Reference Genomics San Francisco CA 94103 USA. University of Vermont Burlington VT 05405 USA. CosmosID Inc Rockville MD 20850 USA. Center for Bioinformatics and Computational Biology University of Maryland Institute for Advanced Computer Studies (UMIACS) College Park MD 20742 USA. HudsonAlpha Institute for Biotechnology Huntsville AL 35806 USA. Johns Hopkins University Bloomberg School of Public Health Baltimore MD USA. Department of Electrical and Computer Engineering Drexel University Philadelphia PA 19104 USA. gail.l.rosen@***. Department of Physiology and Biophysics Weill Cornell Medicine New York NY 10021 USA. chm2042@med.cornell.edu. The HRH Prince Alwaleed Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine New York NY 10021 USA. chm2042@med.cornell.edu. The Feil Family Brain and Mind Research Institute New York NY 10065 USA. chm2042@med.cornell.edu.

Following publication of the original article [1], the authors would like to highlight the following two corrections.

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