Article
Multidisciplinary Sciences
Zhendong Jin, Yangmu Li, Zhigang Hu, Biaoyan Hu, Yiran Liu, Kazuki Iida, Kazuya Kamazawa, Matthew B. Stone, Alexander I. Kolesnikov, Douglas L. Abernathy, Xiangyu Zhang, Haiyang Chen, Yandong Wang, Chen Fang, Biao Wu, Igor A. Zaliznyak, John M. Tranquada, Yuan Li
Summary: A large body of knowledge about magnetism is obtained from models of interacting spins on magnetic ions. However, proposals beyond the ionic picture are rare and rarely verified. In this study, using inelastic neutron scattering, it is found that the fundamental magnetic units in the near-ferromagnet MnSi are extended molecular orbitals consisting of three Mn atoms, contrasting the ionic picture. This discovery provides important insights into both MnSi and a broad range of magnetic quantum materials.
Article
Materials Science, Multidisciplinary
S. A. Skorobogatov, K. A. Shaykhutdinov, D. A. Balaev, M. S. Pavlovskii, A. A. Krasikov, K. Yu. Terentjev
Summary: The low-temperature spin dynamics of the orthorhombic TbFeO3 perovskite has been studied. It has been found that the iron subsystem exhibits antiferromagnetic order at 632 K and shows high-energy magnon dispersion. The behavior of the magnetic correlation length of the terbium subsystem has been determined through studying diffuse scattering at different temperatures.
Article
Chemistry, Physical
Elizabeth J. Kautz, Alla Zelenyuk, Bharat Gwalani, Mark C. Phillips, Sivanandan S. Harilal
Summary: This study investigates the evolution from gas-phase oxidation to nanoparticle and agglomerate formation in nanosecond laser-produced plasmas of a multi-principal element alloy target. The results highlight the importance of the target composition in the formation of gas-phase molecules, as well as the morphology, composition, and structure of nanoparticles and agglomerates formed.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2022)
Article
Biochemical Research Methods
Stephane Samson, Etienne Lord, Vladimir Makarenkov
Summary: SimPlot++ is an open-source multiplatform application that can generate publication quality sequence similarity plots, detect recombination events, and analyze sequence similarity networks.
Article
Biochemistry & Molecular Biology
Shuangbin Xu, Zehan Dai, Pingfan Guo, Xiaocong Fu, Shanshan Liu, Lang Zhou, Wenli Tang, Tingze Feng, Meijun Chen, Li Zhan, Tianzhi Wu, Erqiang Hu, Yong Jiang, Xiaochen Bo, Guangchuang Yu
Summary: ggtreeExtra is a universal tool for visualizing tree data, supporting various data types and visualization methods. By integrating evolutionary statistics and external data, it extends the applications of phylogenetic trees in different disciplines.
MOLECULAR BIOLOGY AND EVOLUTION
(2021)
Article
Computer Science, Information Systems
Fadi Wedyan, Reema Freihat, Maen Hammad
Summary: Aspect-oriented software development is a programming paradigm that supports modularization of crosscutting concerns. This paradigm introduces aspects, which can make program structure difficult to understand, especially during maintenance. To address this issue, a visualization approach called AspectCity is proposed, using a city transportation system metaphor. AspectCity facilitates understanding of aspect-oriented programs and can potentially be extended to visualize software with complex component relations.
CLUSTER COMPUTING-THE JOURNAL OF NETWORKS SOFTWARE TOOLS AND APPLICATIONS
(2022)
Article
Multidisciplinary Sciences
T. Weber, D. M. Fobes, J. Waizner, P. Steffens, G. S. Tucker, M. Bohm, L. Beddrich, C. Franz, H. Gabold, R. Bewley, D. Voneshen, M. Skoulatos, R. Georgii, G. Ehlers, A. Bauer, C. Pfleiderer, P. Boeni, M. Janoschek, M. Garst
Summary: The study found that the motion of a spin excitation in materials with nontrivial magnetic order is deflected, similar to the effect of the Lorentz force on a charged particle in an orbital magnetic field. By using neutron scattering, researchers investigated the propagation of magnons in a lattice of skyrmion tubes in manganese silicide and discovered a topological magnon band structure in reciprocal space.
Article
Computer Science, Information Systems
Nadera Aljawabrah, Tamas Gergely, Sanjay Misra, Luis Fernandez-Sanz
Summary: In software development, the combination of traceability recovery methods was implemented to help developers overview links inferred by various recovery techniques. The visualization model presented herein effectively supported browsing, comprehension, and maintenance of Test-to-Code Traceability (TCT) links, with visualization of TCT links from multiple sources proving better than a single source.
Article
Computer Science, Information Systems
Kaj Dreef, Vijay Krishna Palepu, James A. Jones
Summary: Current software-development tools make it difficult to understand the test execution of software, both for granular tasks (e.g., identifying test cases for a specific method) and global tasks (e.g., determining the proportion of unit tests to system tests). Existing tools lack global overview and historical information. This paper proposes a novel, interactive, matrix-based visual interface to address these challenges and provides a user study and case studies to demonstrate its effectiveness.
INFORMATION AND SOFTWARE TECHNOLOGY
(2023)
Article
Materials Science, Multidisciplinary
M. Fujihala, Y. Sakuma, S. Mitsuda, A. Nakao, K. Munakata, R. A. Mole, S. Yano, D. H. Yu, K. Takehana, Y. Imanaka, M. Akaki, S. Okubo, H. Ohta
Summary: The magnetic structure and anisotropy of the quasi-one-dimensional S = 12 antiferromagnet Na2CuSO4Cl2 were studied, revealing the formation of a Néel-type spin structure. The anisotropy can be attributed to symmetric anisotropic exchange interaction and/or magnetic dipole interaction, which counteract the effect of the Dzyaloshinskii-Moriya interaction and stabilize the Néel-type structure in Na2CuSO4Cl2.
Article
Materials Science, Multidisciplinary
Seung-Hwan Do, Joseph A. M. Paddison, Gabriele Sala, Travis J. Williams, Koji Kaneko, Keitaro Kuwahara, Andrew F. May, Jiaqiang Yan, Michael A. McGuire, Matthew B. Stone, Mark D. Lumsden, Andrew D. Christianson
Summary: This article introduces a critical step in determining and explaining the presence of a gap at a magnon crossing point to characterize the topological properties of a material. Through neutron scattering measurements of CrCl3, the study finds that the scattering intensity near the crossing point is highly sensitive to experimental conditions, affecting the apparent topological gap size. The study provides an explanation for discrepancies between spectroscopic and first-principles estimates of gap sizes and offers guidelines for accurately measuring topological magnon gaps.
Editorial Material
Computer Science, Information Systems
Paul Leger, Alexandre Bergel, Juan Pablo Sandoval Alcocer, Leonel Merino
Summary: Software visualization is a research area that focuses on visually encoding and analyzing software systems. It draws on theories and techniques from information visualization and computer graphics and applies them in the software engineering domain. This special issue received 17 submissions and accepted 6 papers, with 3 of them being extended versions from the IEEE Working Conference on Software Visualization (VISSOFT) 2021.
INFORMATION AND SOFTWARE TECHNOLOGY
(2023)
Article
Chemistry, Physical
Nicholas J. Weadock, Tyler C. Hemamala, Julian A. Vigil, Aryeh Gold-Parker, Ian C. Smith, Ballal Ahammed, Matthew J. Krogstad, Feng Ye, David Voneshen, Peter M. Gehring, Andrew M. Rappe, Hans-Georg Steinrueck, Elif Ertekin, Hemamala I. Karunadasa, Dmitry Reznik, Michael F. Toney
Summary: This study determines the true structure of two hybrid lead-halide perovskites using single-crystal diffuse scattering, neutron inelastic spectroscopy, and molecular dynamics simulations. The research reveals a remarkable collective dynamics that induces longer-range intermolecular correlations and may increase charge carrier lifetimes and affect halide migration.
Article
Computer Science, Software Engineering
Fabian Bolte, Stefan Bruckner
Summary: This article introduces a novel approach that helps visualization programmers explore the evolution of algorithms and corresponding visual outcomes during the development phase with an automatically updating meta visualization. The interactive system allows for direct comparison of visual and source code on different development states, providing easy-to-use navigation and comparison tools, enhancing user insight into interconnected changes over time.
IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS
(2021)
Article
Computer Science, Software Engineering
Richen Liu, Xiaodong Wen, Meng Jiang, Guang Yang, Chuyu Zhang, Xiaojian Chen
Summary: The proposed client-server based collaborative visualization system, comprising a 3D volume explorer and a 2D slice analyzer, enables domain experts to leverage their domain knowledge to illustrate different parts of the data efficiently.
SOFTWARE-PRACTICE & EXPERIENCE
(2021)
Article
Engineering, Electrical & Electronic
Prashant Vaidyanathan, Bryan S. Der, Swapnil Bhatia, Nicholas Roehner, Ryan Silva, Christopher A. Voigt, Douglas Densmore
PROCEEDINGS OF THE IEEE
(2015)
Editorial Material
Biochemistry & Molecular Biology
Jacqueline Y. Quinn, Robert Sidney Cox, Aaron Adler, Jacob Beal, Swapnil Bhatia, Yizhi Cai, Joanna Chen, Kevin Clancy, Michal Galdzicki, Nathan J. Hillson, Nicolas Le Novere, Akshay J. Maheshwari, James Alastair McLaughlin, Chris J. Myers, P. Umesh, Matthew Pocock, Cesar Rodriguez, Larisa Soldatova, Guy-Bart V. Stan, Neil Swainston, Anil Wipat, Herbert M. Sauro
Article
Biochemical Research Methods
Ryan Silva, Swapnil Bhatia, Douglas Densmore
Article
Biochemical Research Methods
Michael Quintin, Natalie J. Ma, Samir Ahmed, Swapnil Bhatia, Aaron Lewis, Farren J. Isaacs, Douglas Densmore
ACS SYNTHETIC BIOLOGY
(2016)
Article
Biochemical Research Methods
Swapnil Bhatia, Craig LaBoda, Vanessa Yanez, Traci Haddock-Angelli, Douglas Densmore
ACS SYNTHETIC BIOLOGY
(2016)
Article
Biotechnology & Applied Microbiology
Benjamin H. Weinberg, N. T. Hang Pham, Leidy D. Caraballo, Thomas Lozanoski, Adrien Engel, Swapnil Bhatia, Wilson W. Wong
NATURE BIOTECHNOLOGY
(2017)
Article
Biochemical Research Methods
Swapnil P. Bhatia, Michael J. Smanski, Christopher A. Voigt, Douglas M. Densmore
ACS SYNTHETIC BIOLOGY
(2017)
Article
Computer Science, Hardware & Architecture
Ernst Oberortner, Swapnil Bhatia, Erik Lindgren, Douglas Densmore
ACM JOURNAL ON EMERGING TECHNOLOGIES IN COMPUTING SYSTEMS
(2014)
Article
Biochemical Research Methods
Swapnil Bhatia, Yong J. Kil, Beatrix Ueberheide, Brian T. Chait, Lemmuel Tayo, Lourdes Cruz, Bingwen Lu, John R. Yate, Marshall Bern
JOURNAL OF PROTEOME RESEARCH
(2012)
Article
Biotechnology & Applied Microbiology
Michael J. Smanski, Swapnil Bhatia, Dehua Zhao, YongJin Park, Lauren B. A. Woodruff, Georgia Giannoukos, Dawn Ciulla, Michele Busby, Johnathan Calderon, Robert Nicol, D. Benjamin Gordon, Douglas Densmore, Christopher A. Voigt
NATURE BIOTECHNOLOGY
(2014)
Article
Computer Science, Information Systems
Orit Shaer, Consuelo Valdes, Sirui Liu, Kara Lu, Kimberly Chang, Wendy Xu, Traci L. Haddock, Swapnil Bhatia, Douglas Densmore, Robert Kincaid
PERSONAL AND UBIQUITOUS COMPUTING
(2014)
Letter
Biotechnology & Applied Microbiology
Douglas M. Densmore, Swapnil Bhatia
TRENDS IN BIOTECHNOLOGY
(2014)
Article
Biochemical Research Methods
Fusun Yaman, Swapnil Bhatia, Aaron Adler, Douglas Densmore, Jacob Beal
ACS SYNTHETIC BIOLOGY
(2012)
Article
Mathematical & Computational Biology
Robert Sidney Cox, Curtis Madsen, James McLaughlin, Tramy Nguyen, Nicholas Roehner, Bryan Bartley, Swapnil Bhatia, Mike Bissell, Kevin Clancy, Thomas Gorochowski, Raik Grunberg, Augustin Luna, Nicolas Le Novere, Matthew Pocock, Herbert Sauro, John T. Sexton, Guy-Bart Stan, Jeffrey J. Tabor, Christopher A. Voigt, Zach Zundel, Chris Myers, Jacob Beal, Anil Wipat
JOURNAL OF INTEGRATIVE BIOINFORMATICS
(2018)
