New Results
GNPS Dashboard: Collaborative Analysis of Mass Spectrometry Data in the Web Browser
View ORCID ProfileDaniel Petras, View ORCID ProfileVanessa V. Phelan, View ORCID ProfileDeepa Acharya, View ORCID ProfileAndrew E. Allen, Allegra T. Aron, View ORCID ProfileNuno Bandeira, View ORCID ProfileBenjamin P. Bowen, Deirdre Belle-Oudry, View ORCID ProfileSimon Boecker, View ORCID ProfileDale A. Cummings Jr., View ORCID ProfileJessica M Deutsch, View ORCID ProfileEoin Fahy, View ORCID ProfileNeha Garg, View ORCID ProfileRachel Gregor, View ORCID ProfileJo Handelsman, View ORCID ProfileMirtha Navarro-Hoyos, View ORCID ProfileAlan K. Jarmusch, View ORCID ProfileScott A. Jarmusch, View ORCID ProfileKatherine Louie, View ORCID ProfileKatherine N. Maloney, View ORCID ProfileMichael T. Marty, View ORCID ProfileMichael M. Meijler, View ORCID ProfileItzhak Mizrahi, View ORCID ProfileRachel L Neve, View ORCID ProfileTrent R. Northen, View ORCID ProfileCarlos Molina-Santiago, Morgan Panitchpakdi, View ORCID ProfileBenjamin Pullman, View ORCID ProfileAaron W. Puri, View ORCID ProfileRobin Schmid, View ORCID ProfileShankar Subramaniam, View ORCID ProfileMonica Thukral, View ORCID ProfileFelipe Vasquez-Castro, View ORCID ProfilePieter C Dorrestein, View ORCID ProfileMingxun Wang
doi: https://doi.org/10.1101/2021.04.05.438475
Daniel Petras
1Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
2Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA
Vanessa V. Phelan
7Department of Pharmaceutical Sciences, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of Colorado, Anschutz Medical Campus, CO, USA
Deepa Acharya
15Wisconsin Institute for Discovery and Department of Plant Pathology, University of Wisconsin-Madison, Madison, Wisconsin, USA
Andrew E. Allen
2Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA
12Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, USA
Allegra T. Aron
1Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
Nuno Bandeira
13Center for Computational Mass Spectrometry, Department of Computer Science and Engineering, University of California, San Diego, La Jolla, CA, USA
Benjamin P. Bowen
25DOE Joint Genome Institute and Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
Deirdre Belle-Oudry
16Department of Chemistry and Biochemistry, University of Arizona, Tucson, AZ, USA
Simon Boecker
17Analysis and Redesign of Biological Networks, Max Planck Institute for Dynamics of Complex Technical Systems, Magdeburg, Germany
Dale A. Cummings Jr.
10Department of Chemistry, University of Utah, Salt Lake City, UT, USA
11Henry Eyring Center for Cell & Genome Science, University of Utah, Salt Lake City, UT, USA
Jessica M Deutsch
9School of Chemistry and Biochemistry, Center for Microbial Dynamics and Infection, Georgia Institute of Technology, Atlanta, Georgia, USA
Eoin Fahy
14Department of Bioengineering, University of California San Diego, La Jolla, CA, USA
Neha Garg
9School of Chemistry and Biochemistry, Center for Microbial Dynamics and Infection, Georgia Institute of Technology, Atlanta, Georgia, USA
Rachel Gregor
18Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
Jo Handelsman
15Wisconsin Institute for Discovery and Department of Plant Pathology, University of Wisconsin-Madison, Madison, Wisconsin, USA
Mirtha Navarro-Hoyos
24BIoactivity for Sustainable Development Group (BIODESS), Department of Chemistry, University of Costa Rica, San Jose, Costa Rica
Alan K. Jarmusch
1Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
Scott A. Jarmusch
23Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 221, DK-2800 Kongens Lyngby, Denmark
Katherine Louie
25DOE Joint Genome Institute and Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
Katherine N. Maloney
6Department of Chemistry, Point Loma Nazarene University, San Diego, CA, USA
Michael T. Marty
16Department of Chemistry and Biochemistry, University of Arizona, Tucson, AZ, USA
Michael M. Meijler
19Department of Chemistry, Ben-Gurion University of the Negev, Be’er Sheva, Israel
21National Institute of Biotechnology in the Negev, Ben-Gurion University of the Negev, Be’er Sheva, Israel
Itzhak Mizrahi
20Department of Life Sciences, Ben-Gurion University of the Negev, Be’er Sheva, Israel
21National Institute of Biotechnology in the Negev, Ben-Gurion University of the Negev, Be’er Sheva, Israel
Rachel L Neve
26Department of Immunology and Microbiology, University of Colorado, Anschutz Medical Campus, CO, USA
Trent R. Northen
25DOE Joint Genome Institute and Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
Carlos Molina-Santiago
8Instituto de Hortofruticultura Subtropical y Mediterránea, Universidad de Málaga-Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Departamento de Microbiología, Universidad de Málaga, Bulevar Louis Pasteur 31, 29071, Málaga, Spain
Morgan Panitchpakdi
1Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
Benjamin Pullman
13Center for Computational Mass Spectrometry, Department of Computer Science and Engineering, University of California, San Diego, La Jolla, CA, USA
Aaron W. Puri
10Department of Chemistry, University of Utah, Salt Lake City, UT, USA
11Henry Eyring Center for Cell & Genome Science, University of Utah, Salt Lake City, UT, USA
Robin Schmid
1Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
Shankar Subramaniam
14Department of Bioengineering, University of California San Diego, La Jolla, CA, USA
Monica Thukral
2Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA
12Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, USA
Felipe Vasquez-Castro
22Centro Nacional de Innovaciones Biotecnologicas (CENIBiot), CeNAT-CONARE, 1174-1200 San Jose, Costa Rica
Pieter C Dorrestein
1Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
2Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA
3Center for Microbiome Innovation, University of California San Diego, La Jolla, CA, USA
4Department of Pharmacology, School of Medicine, University of California San Diego, La Jolla, CA, USA
5Department of Pediatrics, University of California San Diego, La Jolla, CA, USA
Mingxun Wang
1Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
4Department of Pharmacology, School of Medicine, University of California San Diego, La Jolla, CA, USA
Abstract
Access to web-based platforms has enabled scientists to perform research remotely. A critical aspect of mass spectrometry data analysis is the inspection, analysis, and visualization of the raw data to validate data quality and confirm statistical observations. We developed the GNPS Dashboard, a web-based data visualization tool, to facilitate synchronous collaborative inspection, visualization, and analysis of private and public mass spectrometry data remotely.
Competing Interest Statement
PCD is a scientific advisor of Sirenas, Galileo, Cybele, and scientific advisor and co-founder of Ometa Labs LLC and Enveda with approval by the UC San Diego. MW is a founder of Ometa Labs LLC. TRN is an advisor of Brightseed Bio.
Footnotes
Revisions on funding sources.
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
Posted April 06, 2021.
GNPS Dashboard: Collaborative Analysis of Mass Spectrometry Data in the Web Browser
Daniel Petras, Vanessa V. Phelan, Deepa Acharya, Andrew E. Allen, Allegra T. Aron, Nuno Bandeira, Benjamin P. Bowen, Deirdre Belle-Oudry, Simon Boecker, Dale A. Cummings Jr., Jessica M Deutsch, Eoin Fahy, Neha Garg, Rachel Gregor, Jo Handelsman, Mirtha Navarro-Hoyos, Alan K. Jarmusch, Scott A. Jarmusch, Katherine Louie, Katherine N. Maloney, Michael T. Marty, Michael M. Meijler, Itzhak Mizrahi, Rachel L Neve, Trent R. Northen, Carlos Molina-Santiago, Morgan Panitchpakdi, Benjamin Pullman, Aaron W. Puri, Robin Schmid, Shankar Subramaniam, Monica Thukral, Felipe Vasquez-Castro, Pieter C Dorrestein, Mingxun Wang
bioRxiv 2021.04.05.438475; doi: https://doi.org/10.1101/2021.04.05.438475
GNPS Dashboard: Collaborative Analysis of Mass Spectrometry Data in the Web Browser
Daniel Petras, Vanessa V. Phelan, Deepa Acharya, Andrew E. Allen, Allegra T. Aron, Nuno Bandeira, Benjamin P. Bowen, Deirdre Belle-Oudry, Simon Boecker, Dale A. Cummings Jr., Jessica M Deutsch, Eoin Fahy, Neha Garg, Rachel Gregor, Jo Handelsman, Mirtha Navarro-Hoyos, Alan K. Jarmusch, Scott A. Jarmusch, Katherine Louie, Katherine N. Maloney, Michael T. Marty, Michael M. Meijler, Itzhak Mizrahi, Rachel L Neve, Trent R. Northen, Carlos Molina-Santiago, Morgan Panitchpakdi, Benjamin Pullman, Aaron W. Puri, Robin Schmid, Shankar Subramaniam, Monica Thukral, Felipe Vasquez-Castro, Pieter C Dorrestein, Mingxun Wang
bioRxiv 2021.04.05.438475; doi: https://doi.org/10.1101/2021.04.05.438475
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