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TeachOpenCADD: a teaching platform for computer-aided drug design using open source packages and data

Owing to the increase in freely available software and data for cheminformatics and structural bioinformatics, research for computer-aided drug design (CADD) is more and more built on modular, reproducible, and easy-to-share pipelines. While documentation for such tools is available, there are only...

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Detalles Bibliográficos
Autores principales: Sydow, Dominique, Morger, Andrea, Driller, Maximilian, Volkamer, Andrea
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer International Publishing 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454689/
https://www.ncbi.nlm.nih.gov/pubmed/30963287
http://dx.doi.org/10.1186/s13321-019-0351-x
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author Sydow, Dominique
Morger, Andrea
Driller, Maximilian
Volkamer, Andrea
author_facet Sydow, Dominique
Morger, Andrea
Driller, Maximilian
Volkamer, Andrea
author_sort Sydow, Dominique
collection PubMed
description Owing to the increase in freely available software and data for cheminformatics and structural bioinformatics, research for computer-aided drug design (CADD) is more and more built on modular, reproducible, and easy-to-share pipelines. While documentation for such tools is available, there are only a few freely accessible examples that teach the underlying concepts focused on CADD, especially addressing users new to the field. Here, we present TeachOpenCADD, a teaching platform developed by students for students, using open source compound and protein data as well as basic and CADD-related Python packages. We provide interactive Jupyter notebooks for central CADD topics, integrating theoretical background and practical code. TeachOpenCADD is freely available on GitHub: https://github.com/volkamerlab/TeachOpenCADD. [Image: see text]
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spelling pubmed-64546892019-04-19 TeachOpenCADD: a teaching platform for computer-aided drug design using open source packages and data Sydow, Dominique Morger, Andrea Driller, Maximilian Volkamer, Andrea J Cheminform Software Owing to the increase in freely available software and data for cheminformatics and structural bioinformatics, research for computer-aided drug design (CADD) is more and more built on modular, reproducible, and easy-to-share pipelines. While documentation for such tools is available, there are only a few freely accessible examples that teach the underlying concepts focused on CADD, especially addressing users new to the field. Here, we present TeachOpenCADD, a teaching platform developed by students for students, using open source compound and protein data as well as basic and CADD-related Python packages. We provide interactive Jupyter notebooks for central CADD topics, integrating theoretical background and practical code. TeachOpenCADD is freely available on GitHub: https://github.com/volkamerlab/TeachOpenCADD. [Image: see text] Springer International Publishing 2019-04-08 /pmc/articles/PMC6454689/ /pubmed/30963287 http://dx.doi.org/10.1186/s13321-019-0351-x Text en © The Author(s) 2019 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Software
Sydow, Dominique
Morger, Andrea
Driller, Maximilian
Volkamer, Andrea
TeachOpenCADD: a teaching platform for computer-aided drug design using open source packages and data
title TeachOpenCADD: a teaching platform for computer-aided drug design using open source packages and data
title_full TeachOpenCADD: a teaching platform for computer-aided drug design using open source packages and data
title_fullStr TeachOpenCADD: a teaching platform for computer-aided drug design using open source packages and data
title_full_unstemmed TeachOpenCADD: a teaching platform for computer-aided drug design using open source packages and data
title_short TeachOpenCADD: a teaching platform for computer-aided drug design using open source packages and data
title_sort teachopencadd: a teaching platform for computer-aided drug design using open source packages and data
topic Software
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454689/
https://www.ncbi.nlm.nih.gov/pubmed/30963287
http://dx.doi.org/10.1186/s13321-019-0351-x
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