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The online Tabloid Proteome : an annotated database of protein associations

Surya Gupta (UGent) , Demet Turan (UGent) , Jan Tavernier (UGent) and Lennart Martens (UGent)
(2018) NUCLEIC ACIDS RESEARCH. 46(D1). p.D581-D585
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Abstract
A complete knowledge of the proteome can only be attained by determining the associations between proteins, along with the nature of these associations (e.g. physical contact in protein–protein interactions, participation in complex formation or different roles in the same pathway). Despite extensive efforts in elucidating direct protein interactions, our knowledge on the complete spectrum of protein associations remains limited. We therefore developed a new approach that detects protein associations from identifications obtained after re-processing of large-scale, public mass spectrometry-based proteomics data. Our approach infers protein association based on the co-occurrence of proteins across many different proteomics experiments, and provides information that is almost completely complementary to traditional direct protein interaction studies. We here present a web interface to query and explore the associations derived from this method, called the online Tabloid Proteome. The online Tabloid Proteome also integrates biological knowledge from several existing resources to annotate our derived protein associations. The online Tabloid Proteome is freely available through a user-friendly web interface, which provides intuitive navigation and data exploration options for the user at http://iomics.ugent.be/tabloidproteome.
Keywords
BIOINFORMATICS, KNOWLEDGEBASE, STRATEGIES, PLATFORM, UPDATE, CANCER

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Citation

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MLA
Gupta, Surya, Demet Turan, Jan Tavernier, et al. “The Online Tabloid Proteome : an Annotated Database of Protein Associations.” NUCLEIC ACIDS RESEARCH 46.D1 (2018): D581–D585. Print.
APA
Gupta, Surya, Turan, D., Tavernier, J., & Martens, L. (2018). The online Tabloid Proteome : an annotated database of protein associations. NUCLEIC ACIDS RESEARCH, 46(D1), D581–D585.
Chicago author-date
Gupta, Surya, Demet Turan, Jan Tavernier, and Lennart Martens. 2018. “The Online Tabloid Proteome : an Annotated Database of Protein Associations.” Nucleic Acids Research 46 (D1): D581–D585.
Chicago author-date (all authors)
Gupta, Surya, Demet Turan, Jan Tavernier, and Lennart Martens. 2018. “The Online Tabloid Proteome : an Annotated Database of Protein Associations.” Nucleic Acids Research 46 (D1): D581–D585.
Vancouver
1.
Gupta S, Turan D, Tavernier J, Martens L. The online Tabloid Proteome : an annotated database of protein associations. NUCLEIC ACIDS RESEARCH. 2018;46(D1):D581–D585.
IEEE
[1]
S. Gupta, D. Turan, J. Tavernier, and L. Martens, “The online Tabloid Proteome : an annotated database of protein associations,” NUCLEIC ACIDS RESEARCH, vol. 46, no. D1, pp. D581–D585, 2018.
@article{8534624,
  abstract     = {A complete knowledge of the proteome can only be attained by determining the associations between proteins, along with the nature of these associations (e.g. physical contact in protein–protein interactions, participation in complex formation or different roles in the same pathway). Despite extensive efforts in elucidating direct protein interactions, our knowledge on the complete spectrum of protein associations remains limited. We therefore developed a new approach that detects protein associations from identifications obtained after re-processing of large-scale, public mass spectrometry-based proteomics data. Our approach infers protein association based on the co-occurrence of proteins across many different proteomics experiments, and provides information that is almost completely complementary to traditional direct protein interaction studies. We here present a web interface to query and explore the associations derived from this method, called the online Tabloid Proteome. The online Tabloid Proteome also integrates biological knowledge from several existing resources to annotate our derived protein associations. The online Tabloid Proteome is freely available through a user-friendly web interface, which provides intuitive navigation and data exploration options for the user at http://iomics.ugent.be/tabloidproteome.},
  author       = {Gupta, Surya and Turan, Demet and Tavernier, Jan and Martens, Lennart},
  issn         = {0305-1048},
  journal      = {NUCLEIC ACIDS RESEARCH},
  keywords     = {BIOINFORMATICS,KNOWLEDGEBASE,STRATEGIES,PLATFORM,UPDATE,CANCER},
  language     = {eng},
  number       = {D1},
  pages        = {D581--D585},
  title        = {The online Tabloid Proteome : an annotated database of protein associations},
  url          = {http://dx.doi.org/10.1093/nar/gkx930},
  volume       = {46},
  year         = {2018},
}

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