@article {2020|2077,
	title = {Visualizing biomolecular electrostatics in virtual reality with UnityMol-APBS.},
	journal = {Protein Sci},
	volume = {29},
	year = {2020},
	month = {2020 Jan},
	pages = {237-246},
	abstract = {<p>Virtual reality is a powerful tool with the ability to immerse a user within a completely external environment. This immersion is particularly useful when visualizing and analyzing interactions between small organic molecules, molecular inorganic complexes, and biomolecular systems such as redox proteins and enzymes. A common tool used in the biomedical community to analyze such interactions is the Adaptive Poisson-Boltzmann Solver (APBS) software, which was developed to solve the equations of continuum electrostatics for large biomolecular assemblages. Numerous applications exist for using APBS in the biomedical community including analysis of protein ligand interactions and APBS has enjoyed widespread adoption throughout the biomedical community. Currently, typical use of the full APBS toolset is completed via the command line followed by visualization using a variety of two-dimensional external molecular visualization software. This process has inherent limitations: visualization of three-dimensional objects using a two-dimensional interface masks important information within the depth component. Herein, we have developed a single application, UnityMol-APBS, that provides a dual experience where users can utilize the full range of the APBS toolset, without the use of a command line interface, by use of a simple graphical user interface (GUI) for either a standard desktop or immersive virtual reality experience.</p>
},
	issn = {1469-896X},
	doi = {10.1002/pro.3773},
	author = {Laureanti, Joseph and Brandi, Juan and Offor, Elvis and Engel, David and Rallo, Robert and Ginovska, Bojana and Martinez, Xavier and Marc Baaden and Baker, Nathan A}
}
@article {2019|2079,
	title = {Molecular Graphics: Bridging Structural Biologists and Computer Scientists.},
	journal = {Structure},
	volume = {27},
	year = {2019},
	month = {2019 11 05},
	pages = {1617-1623},
	abstract = {<p>Visualization of molecular structures is one of the most common tasks carried out by structural biologists, typically using software, such as Chimera, COOT, PyMOL, or VMD. In this Perspective article, we outline how past developments in computer graphics and data visualization have expanded the understanding of biomolecular function, and we summarize recent advances that promise to further transform structural biology. We also highlight how progress in molecular graphics has been impeded by communication barriers between two communities: the computer scientists driving these advances, and the structural and computational biologists who stand to benefit. By pointing to canonical papers and explaining technical progress underlying new graphical developments in simple terms, we aim to improve communication between these communities; this, in turn, would help shape future developments in molecular graphics.</p>
},
	issn = {1878-4186},
	doi = {10.1016/j.str.2019.09.001},
	author = {Martinez, Xavier and Krone, Michael and Alharbi, Naif and Rose, Alexander S and Laramee, Robert S and O{\textquoteright}Donoghue, Sean and Marc Baaden and Chavent, Matthieu}
}
@conference {2017|2101,
	title = {Molecular Visualization of Computational Biology Data: A Survey of Surveys},
	booktitle = {EuroVis 2017 - Short Papers},
	year = {2017},
	publisher = {The Eurographics Association},
	organization = {The Eurographics Association},
	isbn = {978-3-03868-043-7},
	doi = {10.2312/eurovisshort.20171146},
	author = {Alharbi, Naif and Alharbi, Mohammad and Martinez, Xavier and Krone, Michael and Rose, Alexander S. and Marc Baaden and Laramee, Robert S. and Chavent, Matthieu},
	editor = {Barbora Kozlikova and Tobias Schreck and Thomas Wischgoll}
}
