Literature DB >> 26580747

The MoSGrid Science Gateway - A Complete Solution for Molecular Simulations.

Jens Krüger1, Richard Grunzke2, Sandra Gesing3, Sebastian Breuers4, André Brinkmann5, Luis de la Garza1, Oliver Kohlbacher1, Martin Kruse4, Wolfgang E Nagel2, Lars Packschies4, Ralph Müller-Pfefferkorn2, Patrick Schäfer6, Charlotta Schärfe1, Thomas Steinke6, Tobias Schlemmer7, Klaus Dieter Warzecha4, Andreas Zink1, Sonja Herres-Pawlis8.   

Abstract

The MoSGrid portal offers an approach to carry out high-quality molecular simulations on distributed compute infrastructures to scientists with all kinds of background and experience levels. A user-friendly Web interface guarantees the ease-of-use of modern chemical simulation applications well established in the field. The usage of well-defined workflows annotated with metadata largely improves the reproducibility of simulations in the sense of good lab practice. The MoSGrid science gateway supports applications in the domains quantum chemistry (QC), molecular dynamics (MD), and docking. This paper presents the open-source MoSGrid architecture as well as lessons learned from its design.

Year:  2014        PMID: 26580747     DOI: 10.1021/ct500159h

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  8 in total

1.  ExcelAutomat: a tool for systematic processing of files as applied to quantum chemical calculations.

Authors:  Jalal Z A Laloo; Nassirah Laloo; Lydia Rhyman; Ponnadurai Ramasami
Journal:  J Comput Aided Mol Des       Date:  2017-06-17       Impact factor: 3.686

2.  Web-ARM: A Web-Based Interface for the Automatic Construction of QM/MM Models of Rhodopsins.

Authors:  Laura Pedraza-González; María Del Carmen Marín; Alejandro N Jorge; Tyler D Ruck; Xuchun Yang; Alessio Valentini; Massimo Olivucci; Luca De Vico
Journal:  J Chem Inf Model       Date:  2020-02-10       Impact factor: 4.956

Review 3.  Managing, analysing, and integrating big data in medical bioinformatics: open problems and future perspectives.

Authors:  Ivan Merelli; Horacio Pérez-Sánchez; Sandra Gesing; Daniele D'Agostino
Journal:  Biomed Res Int       Date:  2014-09-01       Impact factor: 3.411

4.  1001 Ways to run AutoDock Vina for virtual screening.

Authors:  Mohammad Mahdi Jaghoori; Boris Bleijlevens; Silvia D Olabarriaga
Journal:  J Comput Aided Mol Des       Date:  2016-02-20       Impact factor: 3.686

5.  Multi-level meta-workflows: new concept for regularly occurring tasks in quantum chemistry.

Authors:  Junaid Arshad; Alexander Hoffmann; Sandra Gesing; Richard Grunzke; Jens Krüger; Tamas Kiss; Sonja Herres-Pawlis; Gabor Terstyanszky
Journal:  J Cheminform       Date:  2016-10-20       Impact factor: 5.514

6.  qPortal: A platform for data-driven biomedical research.

Authors:  Christopher Mohr; Andreas Friedrich; David Wojnar; Erhan Kenar; Aydin Can Polatkan; Marius Cosmin Codrea; Stefan Czemmel; Oliver Kohlbacher; Sven Nahnsen
Journal:  PLoS One       Date:  2018-01-19       Impact factor: 3.240

7.  Performance studies on distributed virtual screening.

Authors:  Jens Krüger; Richard Grunzke; Sonja Herres-Pawlis; Alexander Hoffmann; Luis de la Garza; Oliver Kohlbacher; Wolfgang E Nagel; Sandra Gesing
Journal:  Biomed Res Int       Date:  2014-06-17       Impact factor: 3.411

8.  Developing science gateways for drug discovery in a grid environment.

Authors:  Horacio Pérez-Sánchez; Vahid Rezaei; Vitaliy Mezhuyev; Duhu Man; Jorge Peña-García; Helena den-Haan; Sandra Gesing
Journal:  Springerplus       Date:  2016-08-09
  8 in total

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