Literature DB >> 31065349

Envisioning data sharing for the biocomputing community.

Enrico Riccardi1, Sergio Pantano2, Raffaello Potestio3,4.   

Abstract

The scientific community is facing a revolution in several aspects of its modus operandi, ranging from the way science is done-data production, collection, analysis-to the way it is communicated and made available to the public, be that an academic audience or a general one. These changes have been largely determined by two key players: the big data revolution or, less triumphantly, the impressive increase in computational power and data storage capacity; and the accelerating paradigm switch in science publication, with people and policies increasingly pushing towards open access frameworks. All these factors prompt the undertaking of initiatives oriented to maximize the effectiveness of the computational efforts carried out worldwide. Taking the moves from these observations, we here propose a coordinated initiative, focusing on the computational biophysics and biochemistry community but general and flexible in its defining characteristics, which aims at addressing the growing necessity of collecting, rationalizing, sharing and exploiting the data produced in this scientific environment.

Entities:  

Keywords:  FAIR; data sharing; open data; open science; reproducibility

Year:  2019        PMID: 31065349      PMCID: PMC6501340          DOI: 10.1098/rsfs.2019.0005

Source DB:  PubMed          Journal:  Interface Focus        ISSN: 2042-8898            Impact factor:   3.906


  28 in total

1.  Molecular dynamics simulations of biomolecules.

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Journal:  Acc Chem Res       Date:  2002-06       Impact factor: 22.384

2.  Reforming science: structural reforms.

Authors:  Ferric C Fang; Arturo Casadevall
Journal:  Infect Immun       Date:  2011-12-19       Impact factor: 3.441

3.  Reforming science: methodological and cultural reforms.

Authors:  Arturo Casadevall; Ferric C Fang
Journal:  Infect Immun       Date:  2011-12-19       Impact factor: 3.441

4.  Science publishing: The trouble with retractions.

Authors:  Richard Van Noorden
Journal:  Nature       Date:  2011-10-05       Impact factor: 49.962

5.  Scientists behaving badly.

Authors:  Brian C Martinson; Melissa S Anderson; Raymond de Vries
Journal:  Nature       Date:  2005-06-09       Impact factor: 49.962

6.  Normal Misbehavior: Scientists Talk about the Ethics of Research.

Authors:  Raymond de Vries; Melissa S Anderson; Brian C Martinson
Journal:  J Empir Res Hum Res Ethics       Date:  2006-03       Impact factor: 1.742

7.  Accelerating molecular modeling applications with graphics processors.

Authors:  John E Stone; James C Phillips; Peter L Freddolino; David J Hardy; Leonardo G Trabuco; Klaus Schulten
Journal:  J Comput Chem       Date:  2007-12       Impact factor: 3.376

8.  Retracted science and the retraction index.

Authors:  Ferric C Fang; Arturo Casadevall
Journal:  Infect Immun       Date:  2011-08-08       Impact factor: 3.441

9.  The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data.

Authors:  Helen Berman; Kim Henrick; Haruki Nakamura; John L Markley
Journal:  Nucleic Acids Res       Date:  2006-11-16       Impact factor: 16.971

Review 10.  How many scientists fabricate and falsify research? A systematic review and meta-analysis of survey data.

Authors:  Daniele Fanelli
Journal:  PLoS One       Date:  2009-05-29       Impact factor: 3.240

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  2 in total

Review 1.  Crowd-Sourced Chemistry: Considerations for Building a Standardized Database to Improve Omic Analyses.

Authors:  Jaqueline A Picache; Jody C May; John A McLean
Journal:  ACS Omega       Date:  2020-01-09

2.  The SIRAH-CoV-2 Initiative: A Coarse-Grained Simulations' Dataset of the SARS-CoV-2 Proteome.

Authors:  Pablo G Garay; Exequiel E Barrera; Florencia Klein; Matias R Machado; Martín Soñora; Sergio Pantano
Journal:  Front Med Technol       Date:  2021-02-15
  2 in total

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