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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...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Springer International Publishing
2019
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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] |
format | Online Article Text |
id | pubmed-6454689 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Springer International Publishing |
record_format | MEDLINE/PubMed |
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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