Literature DB >> 36035779

The 3Dmol.js learning environment: a classroom response system for 3D chemical structures.

Keshavan Seshadri1, Peng Liu2, David Ryan Koes3.   

Abstract

Classroom response systems are an important tool in many active learning pedagogies. They support real-time feedback on student learning and promote student engagement, even in large classrooms, by allowing instructors to solicit an answer to a question from all students and show the results. Existing classroom response systems are general purpose and not tailored to the specific needs of a chemistry classroom. In particular, it is not easy to deploy molecular representations except as static images. Here we present the 3Dmol.js learning environment, a classroom response system that uses the open source web-based 3Dmol.js JavaScript framework to provide interactive viewing and querying of 3D molecules. 3Dmol.js is available under a BSD 3-clause open source license, and the learning environment features are all available through http://3dmol.csb.pitt.edu/ without any software installation required.

Entities:  

Keywords:  active learning; audience response system; clickers

Year:  2020        PMID: 36035779      PMCID: PMC9416521          DOI: 10.1021/acs.jchemed.0c00579

Source DB:  PubMed          Journal:  J Chem Educ        ISSN: 0021-9584            Impact factor:   3.208


  8 in total

1.  GROMACS: fast, flexible, and free.

Authors:  David Van Der Spoel; Erik Lindahl; Berk Hess; Gerrit Groenhof; Alan E Mark; Herman J C Berendsen
Journal:  J Comput Chem       Date:  2005-12       Impact factor: 3.376

2.  The Amber biomolecular simulation programs.

Authors:  David A Case; Thomas E Cheatham; Tom Darden; Holger Gohlke; Ray Luo; Kenneth M Merz; Alexey Onufriev; Carlos Simmerling; Bing Wang; Robert J Woods
Journal:  J Comput Chem       Date:  2005-12       Impact factor: 3.376

Review 3.  Where's the evidence that active learning works?

Authors:  Joel Michael
Journal:  Adv Physiol Educ       Date:  2006-12       Impact factor: 2.288

4.  Active learning and student-centered pedagogy improve student attitudes and performance in introductory biology.

Authors:  Peter Armbruster; Maya Patel; Erika Johnson; Martha Weiss
Journal:  CBE Life Sci Educ       Date:  2009       Impact factor: 3.325

5.  Improved learning in a large-enrollment physics class.

Authors:  Louis Deslauriers; Ellen Schelew; Carl Wieman
Journal:  Science       Date:  2011-05-13       Impact factor: 47.728

6.  iCn3D, a web-based 3D viewer for sharing 1D/2D/3D representations of biomolecular structures.

Authors:  Jiyao Wang; Philippe Youkharibache; Dachuan Zhang; Christopher J Lanczycki; Renata C Geer; Thomas Madej; Lon Phan; Minghong Ward; Shennan Lu; Gabriele H Marchler; Yanli Wang; Stephen H Bryant; Lewis Y Geer; Aron Marchler-Bauer
Journal:  Bioinformatics       Date:  2020-01-01       Impact factor: 6.937

7.  3Dmol.js: molecular visualization with WebGL.

Authors:  Nicholas Rego; David Koes
Journal:  Bioinformatics       Date:  2014-12-12       Impact factor: 6.937

8.  NGL Viewer: a web application for molecular visualization.

Authors:  Alexander S Rose; Peter W Hildebrand
Journal:  Nucleic Acids Res       Date:  2015-04-29       Impact factor: 16.971

  8 in total

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