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ORCIDJournal of Integrative Bioinformatics, Volume 15
Volume 15, Number 1, March 2018
- Falk Schreiber, Gary D. Bader, Padraig Gleeson, Martin Golebiewski, Michael Hucka
, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, David P. Nickerson, Björn Sommer, Dagmar Waltemath:
Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2017. - Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson:
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core. - Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson:
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core. - Fengkai Zhang, Martin Meier-Schellersheim:
SBML Level 3 package: Multistate, Multicomponent and Multicompartment Species, Version 1, Release 1. - Frank T. Bergmann, Sarah M. Keating, Ralph Gauges, Sven Sahle, Katja Wengler:
SBML Level 3 package: Render, Version 1, Release 1. - Brett G. Olivier, Frank T. Bergmann:
SBML Level 3 Package: Flux Balance Constraints version 2. - Robert Sidney Cox III, Curtis Madsen, James Alastair McLaughlin, Tramy Nguyen, Nicholas Roehner, Bryan Bartley, Jacob Beal, Michael Bissell, Kiri Choi, Kevin Clancy, Raik Grünberg, Chris Macklin, Goksel Misirli, Ernst Oberortner, Matthew R. Pocock, Meher Samineni, Michael Zhang, Zhen Zhang, Zach Zundel, John H. Gennari, Chris J. Myers, Herbert M. Sauro, Anil Wipat:
Synthetic Biology Open Language (SBOL) Version 2.2.0. - Robert Sidney Cox III, Curtis Madsen, James Alastair McLaughlin, Tramy Nguyen, Nicholas Roehner, Bryan Bartley, Swapnil Bhatia, Mike Bissell, Kevin Clancy, Thomas E. Gorochowski, Raik Grünberg, Augustin Luna, Nicolas Le Novère, Matthew R. Pocock, Herbert M. Sauro, John T. Sexton, Guy-Bart Stan, Jeffrey J. Tabor, Christopher A. Voigt, Zach Zundel, Chris J. Myers, Jacob Beal, Anil Wipat:
Synthetic Biology Open Language Visual (SBOL Visual) Version 2.0. - Frank T. Bergmann, Jonathan Cooper, Matthias König, Ion I. Moraru, David P. Nickerson, Nicolas Le Novère, Brett G. Olivier, Sven Sahle, Lucian P. Smith, Dagmar Waltemath:
Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 3 (L1V3).
Volume 15, Number 2, June 2018
- Björn Sommer, Marc Baaden, Michael Krone, Andrew J. Woods:
From Virtual Reality to Immersive Analytics in Bioinformatics. - Christoph Müller, Michael Krone, Markus Huber, Verena Biener, Dominik Herr, Steffen Koch, Guido Reina, Daniel Weiskopf, Thomas Ertl:
Interactive Molecular Graphics for Augmented Reality Using HoloLens. - Niklas Biere, Mehmood Ghaffar, Anja Doebbe, Daniel Jäger, Nils Rothe, Benjamin M. Friedrich, Ralf Hofestädt, Falk Schreiber, Olaf Kruse, Björn Sommer:
Heuristic Modeling and 3D Stereoscopic Visualization of a Chlamydomonas reinhardtii Cell. - Michael Wiebrands, Chris J. Malajczuk, Andrew J. Woods, Andrew L. Rohl, Ricardo L. Mancera:
Molecular Dynamics Visualization (MDV): Stereoscopic 3D Display of Biomolecular Structure and Interactions Using the Unity Game Engine. - Hua Wong, Jessica Prévoteau-Jonquet, Stéphanie Baud, Manuel Dauchez, Nicolas Belloy:
Mesoscopic Rigid Body Modelling of the Extracellular Matrix Self-Assembly. - Alexandre Maes, Xavier Martinez, Karen Druart, Benoist Laurent, Sean Guégan, Christophe H. Marchand, Stéphane D. Lemaire, Marc Baaden:
MinOmics, an Integrative and Immersive Tool for Multi-Omics Analysis. - Mikaël Trellet, Nicolas Férey, Jakub Flotynski, Marc Baaden, Patrick Bourdot:
Semantics for an Integrative and Immersive Pipeline Combining Visualization and Analysis of Molecular Data.
Volume 15, Number 3, September 2018
- Mary Ann Blätke:
BioModelKit - An Integrative Framework for Multi-Scale Biomodel-Engineering. - Marco Brandizi, Ajit Singh, Christopher J. Rawlings, Keywan Hassani-Pak:
Towards FAIRer Biological Knowledge Networks Using a Hybrid Linked Data and Graph Database Approach. - Christoph Brinkrolf, Nadja A. Henke, Lennart A. Ochel, Boas Pucker, Olaf Kruse, Petra Lutter:
Modeling and Simulating the Aerobic Carbon Metabolism of a Green Microalga Using Petri Nets and New Concepts of VANESA. - Blagoj Ristevski, Ming Chen:
Big Data Analytics in Medicine and Healthcare. - Nahida Habib, Kawsar Ahmed, Iffat Jabin, Mohammad Motiur Rahman:
Modified HuffBit Compress Algorithm - An Application of R. - Amit Katiyar, Harpreet Singh, Krishna Kant Azad:
Identification of Missing Carbon Fixation Enzymes as Potential Drug Targets in Mycobacterium Tuberculosis. - Saikat Chowdhury, Noopur Sinha, Piyali Ganguli, Rupa Bhowmick, Vidhi Singh, Sutanu Nandi, Ram Rup Sarkar:
BIOPYDB: A Dynamic Human Cell Specific Biochemical Pathway Database with Advanced Computational Analyses Platform.
Volume 15, Number 4, December 2018
- Ralf Hofestädt, Vladimir A. Ivanisenko:
Integrative Analysis of Co-Morbid Multifactorial Diseases. - Tatiana Drevytska, Roman Morhachov, Lesya Tumanovska, Georgiy Portnichenko, Vasyl Nagibin, Oleksiy Boldyriev, Tatiana Lapikova-Bryhinska, Veronika Gurianova, Borys Dons'koi, Maxim B. Freidin, Vladimir A. Ivanisenko, Elena Yu. Bragina, Ralf Hofestädt, Victor E. Dosenko:
shRNA-Induced Knockdown of a Bioinformatically Predicted Target IL10 Influences Functional Parameters in Spontaneously Hypertensive Rats with Asthma. - Alban Shoshi, Ralf Hofestädt, Olga I. Zolotareva, Marcel Friedrichs, Alex Maier, Vladimir A. Ivanisenko, Victor E. Dosenko, Elena Yu. Bragina:
GenCoNet - A Graph Database for the Analysis of Comorbidities by Gene Networks. - Olga V. Saik, Pavel S. Demenkov, Timofey V. Ivanisenko, Elena Yu. Bragina, Maxim B. Freidin, Victor E. Dosenko, Olga I. Zolotareva, Evgeniy L. Choynzonov, Ralf Hofestädt, Vladimir A. Ivanisenko:
Search for New Candidate Genes Involved in the Comorbidity of Asthma and Hypertension Based on Automatic Analysis of Scientific Literature. - Elena Yu. Bragina, Irina A. Goncharova, Anna F. Garaeva, Evgeniy V. Nemerov, Anastasija A. Babovskaya, Andrey B. Karpov, Yulia V. Semenova, Irina Z. Zhalsanova, Densema E. Gomboeva, Olga V. Saik, Olga I. Zolotareva, Vladimir A. Ivanisenko, Victor E. Dosenko, Ralf Hofestädt, Maxim B. Freidin:
Molecular Relationships between Bronchial Asthma and Hypertension as Comorbid Diseases. - Duygu Dede Sener, Daniele Santoni, Giovanni Felici, Hasan Ogul:
A Content-Based Retrieval Framework for Whole Metagenome Sequencing Samples. - Mirko Busato, Rosario Distefano, Ferdia Bates, Kal Karim, Alessandra Maria Bossi, José Manuel López Vilariño, Sergey Piletsky, Nicola Bombieri, Alejandro Giorgetti:
MIRATE: MIps RATional dEsign Science Gateway. - Alexander Platzer, Julia Polzin, Klaus Rembart, Ping Penny Han, Denise Rauer, Thomas Nussbaumer:
BioSankey: Visualization of Microbial Communities Over Time.
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