Literature DB >> 24808197

DIVE: a graph-based visual-analytics framework for big data.

Steven J Rysavy, Dennis Bromley, Valerie Daggett.   

Abstract

The need for data-centric scientific tools is growing; domains such as biology, chemistry, and physics are increasingly adopting computational approaches. So, scientists must deal with the challenges of big data. To address these challenges, researchers built a visual-analytics platform named DIVE (Data Intensive Visualization Engine). DIVE is a data-agnostic, ontologically expressive software framework that can stream large datasets at interactive speeds. In particular, DIVE makes novel contributions to structured-data-model manipulation and high-throughput streaming of large, structured datasets.

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Mesh:

Year:  2014        PMID: 24808197      PMCID: PMC4103159          DOI: 10.1109/MCG.2014.27

Source DB:  PubMed          Journal:  IEEE Comput Graph Appl        ISSN: 0272-1716            Impact factor:   2.088


  9 in total

1.  Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.

Authors:  M Ashburner; C A Ball; J A Blake; D Botstein; H Butler; J M Cherry; A P Davis; K Dolinski; S S Dwight; J T Eppig; M A Harris; D P Hill; L Issel-Tarver; A Kasarskis; S Lewis; J C Matese; J E Richardson; M Ringwald; G M Rubin; G Sherlock
Journal:  Nat Genet       Date:  2000-05       Impact factor: 38.330

2.  Cytoscape: a software environment for integrated models of biomolecular interaction networks.

Authors:  Paul Shannon; Andrew Markiel; Owen Ozier; Nitin S Baliga; Jonathan T Wang; Daniel Ramage; Nada Amin; Benno Schwikowski; Trey Ideker
Journal:  Genome Res       Date:  2003-11       Impact factor: 9.043

3.  UCSF Chimera--a visualization system for exploratory research and analysis.

Authors:  Eric F Pettersen; Thomas D Goddard; Conrad C Huang; Gregory S Couch; Daniel M Greenblatt; Elaine C Meng; Thomas E Ferrin
Journal:  J Comput Chem       Date:  2004-10       Impact factor: 3.376

4.  DIVE: a data intensive visualization engine.

Authors:  Dennis Bromley; Steven J Rysavy; Robert Su; Rudesh D Toofanny; Tom Schmidlin; Valerie Daggett
Journal:  Bioinformatics       Date:  2013-12-13       Impact factor: 6.937

5.  The Protein Data Bank: a computer-based archival file for macromolecular structures.

Authors:  F C Bernstein; T F Koetzle; G J Williams; E F Meyer; M D Brice; J R Rodgers; O Kennard; T Shimanouchi; M Tasumi
Journal:  J Mol Biol       Date:  1977-05-25       Impact factor: 5.469

6.  Biopython: freely available Python tools for computational molecular biology and bioinformatics.

Authors:  Peter J A Cock; Tiago Antao; Jeffrey T Chang; Brad A Chapman; Cymon J Cox; Andrew Dalke; Iddo Friedberg; Thomas Hamelryck; Frank Kauff; Bartek Wilczynski; Michiel J L de Hoon
Journal:  Bioinformatics       Date:  2009-03-20       Impact factor: 6.937

7.  Structural consequences of mutations to the α-tocopherol transfer protein associated with the neurodegenerative disease ataxia with vitamin E deficiency.

Authors:  Dennis Bromley; Peter C Anderson; Valerie Daggett
Journal:  Biochemistry       Date:  2013-06-10       Impact factor: 3.162

8.  The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud.

Authors:  Katherine Wolstencroft; Robert Haines; Donal Fellows; Alan Williams; David Withers; Stuart Owen; Stian Soiland-Reyes; Ian Dunlop; Aleksandra Nenadic; Paul Fisher; Jiten Bhagat; Khalid Belhajjame; Finn Bacall; Alex Hardisty; Abraham Nieva de la Hidalga; Maria P Balcazar Vargas; Shoaib Sufi; Carole Goble
Journal:  Nucleic Acids Res       Date:  2013-05-02       Impact factor: 16.971

9.  Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences.

Authors:  Jeremy Goecks; Anton Nekrutenko; James Taylor
Journal:  Genome Biol       Date:  2010-08-25       Impact factor: 13.583

  9 in total
  4 in total

1.  DIVE: a data intensive visualization engine.

Authors:  Dennis Bromley; Steven J Rysavy; Robert Su; Rudesh D Toofanny; Tom Schmidlin; Valerie Daggett
Journal:  Bioinformatics       Date:  2013-12-13       Impact factor: 6.937

2.  SmartR: an open-source platform for interactive visual analytics for translational research data.

Authors:  Sascha Herzinger; Wei Gu; Venkata Satagopam; Serge Eifes; Kavita Rege; Adriano Barbosa-Silva; Reinhard Schneider
Journal:  Bioinformatics       Date:  2017-07-15       Impact factor: 6.937

3.  High-resolution visualisation of the states and pathways sampled in molecular dynamics simulations.

Authors:  Nicolas Blöchliger; Andreas Vitalis; Amedeo Caflisch
Journal:  Sci Rep       Date:  2014-09-02       Impact factor: 4.379

4.  An in silico algorithm for identifying stabilizing pockets in proteins: test case, the Y220C mutant of the p53 tumor suppressor protein.

Authors:  Dennis Bromley; Matthias R Bauer; Alan R Fersht; Valerie Daggett
Journal:  Protein Eng Des Sel       Date:  2016-08-08       Impact factor: 1.650

  4 in total

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