scholarly journals Undergraduate structural biology education: A shift from users to developers of computation and simulation tools

2022 ◽  
Vol 72 ◽  
pp. 39-45
Author(s):  
Ashley Ringer McDonald ◽  
Rebecca Roberts ◽  
Julia R. Koeppe ◽  
Bonnie L. Hall
2021 ◽  
Author(s):  
Fabio Cortés Rodríguez ◽  
Matteo Dal Peraro ◽  
Luciano Abriata

Several groups developed in the last years augmented and virtual reality (AR/VR) programs and apps to visualize 3D molecules, most rather static, limited in content, and requiring software installs, some even requiring specialized hardware. During the Covid-19 pandemic, our team launched moleculARweb (https://molecularweb.epfl.ch), a website that offers interactive content for chemistry and structural biology education through web-based AR that works on consumer devices like smartphones, tablets and laptops. The website quickly got thousands of student and teacher users, a substantial fraction of them accessing from their homes given the pandemic. Teachers have been increasingly requesting more biological macromolecules to be available in AR, a demand that we cannot satisfy individually. Therefore, to allow them to build their own material, and also to help us expedite development of activities, we built a web interface where any user can build any online AR experience in few steps starting from a PDB structure or from virtual objects/scenes exported from VMD. We here briefly describe the tool, that is accessible at https://molecularweb.epfl.ch/pages/pdb2ar.html.


Author(s):  
Fabio Cortés Rodríguez ◽  
Gianfranco Frattini ◽  
Lucien F. Krapp ◽  
Hassan Martinez-Hung ◽  
Diego M. Moreno ◽  
...  

2020 ◽  
Author(s):  
Fabio Cortés Rodríguez ◽  
Gianfranco Frattini ◽  
Lucien Krapp ◽  
Hassan Martinez-Huang ◽  
Diego Moreno ◽  
...  

<p>Here we introduce <i>MoleculARweb</i>, a purely web-based AR platform for chemistry, molecular and structural biology education that runs out of the box in regular web browsers in ordinary computers, laptops, tablets and smartphones. Through regular-printed markers recognized via the device’s webcam, students and teachers can handle molecules in an AR environment to interactively explore their structure, dynamics and interactions. The release version of <i>MoleculARweb</i> features over 20 activities covering topics about molecular shapes, atomic and molecular orbitals, acid-base equilibria and hydrogen bonding, protein and nucleic acid structures, X-ray diffraction and electron microscopy, and molecular mechanics; applicable from high school to early university levels. <i>MoleculARweb</i> is freely available without registration at <a href="https://molecularweb.epfl.ch">https://MoleculARweb.epfl.ch</a> in 6 languages. </p>


2021 ◽  
Author(s):  
Fabio Cortés Rodríguez ◽  
Matteo Dal Peraro ◽  
Luciano Abriata

Abstract. Several groups developed in the last years augmented and virtual reality (AR/VR) programs and apps to visualize 3D molecules, most rather static, limited in content, and requiring software installs, some even requiring expensive hardware. During the Covid-19 pandemic, our team launched moleculARweb (https://molecularweb.epfl.ch), a website that offers interactive content for chemistry and structural biology education through commodity web-based AR that works on consumer devices like smartphones, tablets and laptops. Among thousands of users, teachers increasingly request more biological macromolecules to be available, a demand that we cannot satisfy individually. Therefore, to allow users to build their own material, we built a web interface where any user can build any online AR experience in few steps starting from a PDB structure or from virtual objects/scenes exported from VMD. The website also returns a WebXR session for viewing and manipulating the model in high-end immersive VR headsets with web browsers, here tested on the ~400 USD Oculus Quest 2. The tool is accessible at https://molecularweb.epfl.ch/pages/pdb2ar.html.


2020 ◽  
Author(s):  
Fabio Cortés Rodríguez ◽  
Gianfranco Frattini ◽  
Lucien Krapp ◽  
Hassan Martinez-Huang ◽  
Diego Moreno ◽  
...  

<p>Here we introduce <i>MoleculARweb</i>, a purely web-based AR platform for chemistry, molecular and structural biology education that runs out of the box in regular web browsers in ordinary computers, laptops, tablets and smartphones. Through regular-printed markers recognized via the device’s webcam, students and teachers can handle molecules in an AR environment to interactively explore their structure, dynamics and interactions. The release version of <i>MoleculARweb</i> features over 20 activities covering topics about molecular shapes, atomic and molecular orbitals, acid-base equilibria and hydrogen bonding, protein and nucleic acid structures, X-ray diffraction and electron microscopy, and molecular mechanics; applicable from high school to early university levels. <i>MoleculARweb</i> is freely available without registration at <a href="https://molecularweb.epfl.ch">https://MoleculARweb.epfl.ch</a> in 6 languages. </p>


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