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A golden age for working with public proteomics data

(2017) TRENDS IN BIOCHEMICAL SCIENCES. 42(5). p.333-341
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Abstract
Data sharing in mass spectrometry (MS)-based proteomics is becoming a common scientific practice, as is now common in the case of other, more mature 'omics' disciplines like genomics and transcriptomics. We want to highlight that this situation, unprecedented in the field, opens a plethora of opportunities for data scientists. First, we explain in some detail some of the work already achieved, such as systematic reanalysis efforts. We also explain existing applications of public proteomics data, such as proteogenomics and the creation of spectral libraries and spectral archives. Finally, we discuss the main existing challenges and mention the first attempts to combine public proteomics data with other types of omics data sets.
Keywords
MASS-SPECTROMETRY, PROTEOGENOMIC CHARACTERIZATION, PROTEIN IDENTIFICATION, PEPTIDE IDENTIFICATION, PHOSPHOPROTEOMICS DATA, QUALITY ASSESSMENT, PRIDE INSPECTOR, DATA STANDARD, GENOME, PROTEOMEXCHANGE

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Citation

Please use this url to cite or link to this publication:

Chicago
Martens, Lennart, and Juan Antonio Vizcaíno. 2017. “A Golden Age for Working with Public Proteomics Data.” Trends in Biochemical Sciences 42 (5): 333–341.
APA
Martens, Lennart, & Vizcaíno, J. A. (2017). A golden age for working with public proteomics data. TRENDS IN BIOCHEMICAL SCIENCES, 42(5), 333–341.
Vancouver
1.
Martens L, Vizcaíno JA. A golden age for working with public proteomics data. TRENDS IN BIOCHEMICAL SCIENCES. 2017;42(5):333–41.
MLA
Martens, Lennart, and Juan Antonio Vizcaíno. “A Golden Age for Working with Public Proteomics Data.” TRENDS IN BIOCHEMICAL SCIENCES 42.5 (2017): 333–341. Print.
@article{8524756,
  abstract     = {Data sharing in mass spectrometry (MS)-based proteomics is becoming a common scientific practice, as is now common in the case of other, more mature 'omics' disciplines like genomics and transcriptomics. We want to highlight that this situation, unprecedented in the field, opens a plethora of opportunities for data scientists. First, we explain in some detail some of the work already achieved, such as systematic reanalysis efforts. We also explain existing applications of public proteomics data, such as proteogenomics and the creation of spectral libraries and spectral archives. Finally, we discuss the main existing challenges and mention the first attempts to combine public proteomics data with other types of omics data sets.},
  author       = {Martens, Lennart and Vizca{\'i}no, Juan Antonio},
  issn         = {0968-0004},
  journal      = {TRENDS IN BIOCHEMICAL SCIENCES},
  keyword      = {MASS-SPECTROMETRY,PROTEOGENOMIC CHARACTERIZATION,PROTEIN IDENTIFICATION,PEPTIDE IDENTIFICATION,PHOSPHOPROTEOMICS DATA,QUALITY ASSESSMENT,PRIDE INSPECTOR,DATA STANDARD,GENOME,PROTEOMEXCHANGE},
  language     = {eng},
  number       = {5},
  pages        = {333--341},
  title        = {A golden age for working with public proteomics data},
  url          = {http://dx.doi.org/10.1016/j.tibs.2017.01.001},
  volume       = {42},
  year         = {2017},
}

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