BORA - UiB

Bergen Open Research Archive

Browsing Department of Informatics by Issue Date

Bergen Open Research Archive

Browsing Department of Informatics by Issue Date

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  • Birkeland, Åsmund; Turkay, Cagatay; Viola, Ivan (Journal article, IEEE, 2014-05-07)
    Flow data is often visualized by animated particles inserted into a flow field. The velocity of a particle on the screen is typically linearly scaled by the velocities in the data. However, the perception of velocity ...
  • Parulek, Julius; Jönsson, Daniel; Ropinski, Timo; Bruckner, Stefan; Ynnerman, Anders; Viola, Ivan (Journal article, Wiley, 2014-05-06)
    Molecular visualization is often challenged with rendering of large molecular structures in real time. We introduce a novel approach that enables us to show even large protein complexes. Our method is based on the ...
  • Cygan, Marek; Lokshtanov, Daniel; Pilipczuk, Marcin; Pilipczuk, Michal Pawel; Saurabh, Saket (Journal article, Springer, 2014-04)
    We study the CUTWIDTH problem, where the input is a graph G, and the objective is find a linear layout of the vertices that minimizes the maximum number of edges intersected by any vertical line inserted between two ...
  • Kaján, László; Hopf, Thomas A.; Kalaš, Matúš; Marks, Debora S.; Rost, Burkhard (Journal article, BioMed Central, 2014-03-26)
    Background: 20 years of improved technology and growing sequences now renders residue-residue contact constraints in large protein families through correlated mutations accurate enough to drive de novo predictions of ...
  • Guillaume, Fabien (Master thesis, The University of Bergen, 2014-03-20)
    This thesis study the possible applications of Particle Swarm Optimization in Kernel Clustering, Dynamic modeling and Artificial Neural Network.
  • Amland, Thomas (Master thesis, The University of Bergen, 2014-03-14)
    In offshore wind farms, two important parts of the design are to determine locations for substations and a cabling layout that connects every turbine to a substation. These problems are interconnected, as the cable layout ...
  • Sztromwasser, Paweł (Doctoral thesis, The University of Bergen, 2014-02-19)
    The post-genomic era has been heavily influenced by the rapid development of highthroughput molecular-screening technologies, which has enabled genome-wide analysis approaches on an unprecedented scale. The constantly ...
  • Drange, Pål Grønås; Fomin, Fedor V.; Pilipczuk, Michal Pawel; Villanger, Yngve (Journal article, Schloss Dagstuhl - Leibniz-Zentrum fuer Informatik, 2014-02-19)
    Let F be a family of graphs. In the F-Completion problem, we are given an n-vertex graph G and an integer k as input, and asked whether at most k edges can be added to G so that the resulting graph does not contain a ...
  • Katayama, Toshiaki; Wilkinson, Mark D.; Aoki-Kinoshita, Kiyoko F.; Kawashima, Shuichi; Yamamoto, Yasunori; Yamaguchi, Atsuko; Okamoto, Shinobu; Kawano, Shin; Kim, Jin-Dong; Wang, Yue; Wu, Hongyan; Kano, Yoshinobu; Ono, Hiromasa; Bono, Hidemasa; Kocbek, Simon; Aerts, Jan; Akune, Yukie; Antezana, Erick; Arakawa, Kazuharu; Aranda, Bruno; Baran, Joachim; Bolleman, Jerven; Bonnal, Raoul J. P.; Buttigieg, Pier Luigi; Campbell, Matthew P.; Chen, Yi-an; Chiba, Hirokazu; Cock, Peter J. A.; Cohen, K. Bretonnel; Constantin, Alexandru; Duck, Geraint; Dumontier, Michel; Fujisawa, Takatomo; Fujiwara, Toyofumi; Goto, Naohisa; Hoehndorf, Robert; Igarashi, Yoshinobu; Itaya, Hidetoshi; Ito, Maori; Iwasaki, Wataru; Kalaš, Matúš; Katoda, Takeo; Kim, Taehong; Kokubu, Anna; Komiyama, Yusuke; Kotera, Masaaki; Laibe, Camille; Lapp, Hilmar; Lütteke, Thomas; Marshall, M. Scott; Mori, Takaaki; Mori, Hiroshi; Morita, Mizuki; Murakami, Katsuhiko; Nakao, Mitsuteru; Narimatsu, Hisashi; Nishide, Hiroyo; Nishimura, Yosuke; Nyström-Persson, Johan; Ogishima, Soichi; Okamura, Yasunobu; Okuda, Shujiro; Oshita, Kazuki; Packer, Nicki H; Prins, Pjotr; Ranzinger, Rene; Rocca-Serra, Philippe; Sansone, Susanna; Sawaki, Hiromichi; Shin, Sung-Ho; Splendiani, Andrea; Strozzi, Francesco; Tadaka, Shu; Toukach, Philip; Uchiyama, Ikuo; Umezaki, Masahito; Vos, Rutger; Whetzel, Patricia L.; Yamada, Issaku; Yamasaki, Chisato; Yamashita, Riu; York, William S.; Zmasek, Christian M.; Kawamoto, Shoko; Takagi, Toshihisa (Journal article, BioMed Central, 2014-02-05)
    Abstract The application of semantic technologies to the integration of biological data and the interoperability of bioinformatics analysis and visualization tools has been the common theme of a series of annual ...
  • Cygan, Marek; Pilipczuk, Marcin; Marx, Dániel; Pilipczuk, Michal Pawel; Schlotter, Ildikó (Journal article, Springer, 2014-01)
    We study a family of problems where the goal is to make a graph Eulerian, i.e., connected and with all the vertices having even degrees, by a minimum number of deletions. We completely classify the parameterized complexity ...
  • Bagge, Anya Helene; Lämmel, Ralf; Zaytsev, Vadim (Conference object, 2014)
    Software Language Engineering (SLE) has emerged as a field in computer science research and software engineering, but it has yet to become entrenched as part of the standard curriculum at universities. Many places have a ...
  • Zaytsev, Vadim; Bagge, Anya Helene (Chapter, Springer, 2014)
    Having multiple representations of the same instance is common in software language engineering: models can be visualised as graphs, edited as text, serialised as XML. When mappings between such representations are considered, ...
  • Goncearenco, Alexander; Ma, Binguang; Berezovsky, Igor (Journal article, Oxford University Press, 2014)
    DNA, RNA and proteins are major biological macromolecules that coevolve and adapt to environments as components of one highly interconnected system. We explore here sequence/structure determinants of mechanisms of adaptation ...
  • Tessem, Torbjørn Johnsen (Master thesis, The University of Bergen, 2013-12-19)
    Sparse Matrix-vector Multiplication (SMvM) is a mathematical technique encountered in many programs and computations and is often heavily used. Solving SMvM in parallel allows for bigger instances to be solved, and problems ...
  • Thorsen, Ole Rydland (Master thesis, The University of Bergen, 2013-12-10)
    In this thesis, we will study a new stream cipher, Grein, and a new cryptoprimitive used in this cipher. The second chapter gives a brief introduction to cryptography in general. The third chapter looks at stream ciphers ...
  • Sørnes, Alexander N (Master thesis, The University of Bergen, 2013-12-09)
    This thesis will compare two ways of distributing data for parallel graph algorithms: vertex and edge partitioning, using a distributed memory system. Previous studies on the parallelization of graphs has often been ...
  • Pilipczuk, Michal Pawel (Doctoral thesis, The University of Bergen, 2013-11-22)
  • Pino Arevalo, Ana Gabriela (Master thesis, The University of Bergen, 2013-11-20)
    This thesis analyzes the usability aspects of PCE and implements a new Single Page Application that attempts to solve this issues
  • Parulek, Julius; Turkay, Cagatay; Reuter, Nathalie; Viola, Ivan (Journal article, BioMed Central, 2013-11-12)
    Molecular surfaces provide a useful mean for analyzing interactions between biomolecules; such as identification and characterization of ligand binding sites to a host macromolecule. We present a novel technique, which ...
  • Tellnes, Jørgen (Master thesis, The University of Bergen, 2013-10-15)
    In the past years, package managers, application frameworks and open-source libraries have made it vastly simpler and faster to get functioning software up and running, while cloud providers and external service providers ...

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