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GNPS Dashboard: Collaborative Analysis of Mass Spectrometry Data in the Web Browser

Petras, D.; Phelan, V. V.; Acharya, D. D.; Allen, A. E.; Aron, A. T.; Bandeira, N.; Belle-Oudry, D.; Boecker, S.; Bowen, B. P.; Cummings, D. A.; Deutsch, J. M.; Fahy, E.; Garg, N.; Gregor, R.; Handelsman, J.; Navarro-Hoyos, M.; Jarmusch, A. K.; Jarmusch, S. A.; Louie, K. B.; Maloney, K. N.; Marty, M. T.; Meijler, M. M.; Mizrahi, I.; Molina-Santiago, C.; Neve, R. L.; Northen, T. R.; Panitchpakdi, M.; Pullman, B.; Puri, A. W.; Schmid, R.; Subramaniam, S.; Thukral, M.; Vasquez-Castro, F.; Dorrestein, P. C.; Wang, M.

2021-04-06 bioinformatics
10.1101/2021.04.05.438475 bioRxiv
Show 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.

Matching journals

The top 3 journals account for 50% of the predicted probability mass.

1
Journal of Proteome Research
● 234 papers in training set
Top 0.2%
23.0%
Similar papers in this journal
2
Nature Methods
○ 385 papers in training set
Top 0.5%
16.0%
Similar papers in this journal
3
Analytical Chemistry
● 218 papers in training set
Top 0.3%
13.7%
Similar papers in this journal
50% of probability mass above
4
Bioinformatics
◐ 1204 papers in training set
Top 2%
10.2%
Similar papers in this journal
5
Journal of the American Society for Mass Spectrometry
● 37 papers in training set
Top 0.1%
10.1%
Similar papers in this journal
6
Nature Protocols
○ 33 papers in training set
Top 0.2%
3.4%
7
Nature Communications
○ 5641 papers in training set
Top 34%
3.4%
8
PROTEOMICS
○ 43 papers in training set
Top 0.4%
1.4%
9
Patterns
○ 78 papers in training set
Top 2%
1.2%
10
Scientific Data
○ 209 papers in training set
Top 2%
1.1%
11
Computational and Structural Biotechnology Journal
● 242 papers in training set
Top 5%
1.0%
12
Nucleic Acids Research
◐ 1281 papers in training set
Top 13%
0.9%
13
Protein Science
○ 246 papers in training set
Top 3%
0.9%
14
Bioinformatics Advances
◐ 203 papers in training set
Top 4%
0.9%
15
Briefings in Bioinformatics
◐ 354 papers in training set
Top 7%
0.9%
16
Molecular & Cellular Proteomics
183 papers in training set
Top 2%
0.7%
17
BMC Bioinformatics
○ 457 papers in training set
Top 6%
0.6%
18
GigaScience
◐ 212 papers in training set
Top 5%
0.5%
19
Metabolites
○ 53 papers in training set
Top 1%
0.5%
20
SoftwareX
○ 15 papers in training set
Top 0.4%
0.5%

"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.