Computational proteomics pitfalls and challenges: HavanaBioinfo 2012 Workshop report

The workshop “Bioinformatics for Biotechnology Applications (HavanaBioinfo 2012)”, held December 8–11, 2012 in Havana, aimed at exploring new bioinformatics tools and approaches for large-scale proteomics, genomics and chemoinformatics. Major conclusions of the workshop include the following: (i) de...

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Bibliographic Details
Published in:Journal of proteomics 2013-07, Vol.87, p.134-138
Main Authors: Perez-Riverol, Yasset, Hermjakob, Henning, Kohlbacher, Oliver, Martens, Lennart, Creasy, David, Cox, Jürgen, Leprevost, Felipe, Shan, Baozhen Paul, Pérez-Nueno, Violeta I., Blazejczyk, Michal, Punta, Marco, Vierlinger, Klemens, Valiente, Pedro A., Leon, Kalet, Chinea, Glay, Guirola, Osmany, Bringas, Ricardo, Cabrera, Gleysin, Guillen, Gerardo, Padron, Gabriel, Gonzalez, Luis Javier, Besada, Vladimir
Format: Article
Language:English
Subjects:
bioinformatics
Bioinformatics workshop
biologists
biotechnology
computer software
Course
Database searching
education
genomics
Mass spectrometry
Protein identification
Proteomic repositories
proteomics
statistics
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Summary:The workshop “Bioinformatics for Biotechnology Applications (HavanaBioinfo 2012)”, held December 8–11, 2012 in Havana, aimed at exploring new bioinformatics tools and approaches for large-scale proteomics, genomics and chemoinformatics. Major conclusions of the workshop include the following: (i) development of new applications and bioinformatics tools for proteomic repository analysis is crucial; current proteomic repositories contain enough data (spectra/identifications) that can be used to increase the annotations in protein databases and to generate new tools for protein identification; (ii) spectral libraries, de novo sequencing and database search tools should be combined to increase the number of protein identifications; (iii) protein probabilities and FDR are not yet sufficiently mature; (iv) computational proteomics software needs to become more intuitive; and at the same time appropriate education and training should be provided to help in the efficient exchange of knowledge between mass spectrometrists and experimental biologists and bioinformaticians in order to increase their bioinformatics background, especially statistics knowledge.
ISSN:1874-3919
DOI:10.1016/j.jprot.2013.01.019