Integrated Bio-Search: Challenges and trends for the integration, search and comprehensive processing of biological information

Marco Masseroli, Barend Mons, Erik Bongcam-Rudloff, Stefano Ceri, Alexander Kel, François Rechenmann, Frederique Lisacek, Paolo Romano

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

Many efforts exist to design and implement approaches and tools for data capture, integration and analysis in the life sciences. Challenges are not only the heterogeneity, size and distribution of information sources, but also the danger of producing too many solutions for the same problem. Methodological, technological, infrastructural and social aspects appear to be essential for the development of a new generation of best practices and tools. In this paper, we analyse and discuss these aspects from different perspectives, by extending some of the ideas that arose during the NETTAB 2012 Workshop, making reference especially to the European context. First, relevance of using data and software models for the management and analysis of biological data is stressed. Second, some of the most relevant community achievements of the recent years, which should be taken as a starting point for future efforts in this research domain, are presented. Third, some of the main outstanding issues, challenges and trends are analysed. The challenges related to the tendency to fund and create large scale international research infrastructures and public-private partnerships in order to address the complex challenges of data intensive science are especially discussed. The needs and opportunities of Genomic Computing (the integration, search and display of genomic information at a very specific level, e.g. at the level of a single DNA region) are then considered. In the current data and network-driven era, social aspects can become crucial bottlenecks. How these may best be tackled to unleash the technical abilities for effective data integration and validation efforts is then discussed. Especially the apparent lack of incentives for already overwhelmed researchers appears to be a limitation for sharing information and knowledge with other scientists. We point out as well how the bioinformatics market is growing at an unprecedented speed due to the impact that new powerful in silico analysis promises to have on better diagnosis, prognosis, drug discovery and treatment, towards personalized medicine. An open business model for bioinformatics, which appears to be able to reduce undue duplication of efforts and support the increased reuse of valuable data sets, tools and platforms, is finally discussed.

Original languageEnglish
Article numberS2
JournalBMC Bioinformatics
Volume15
DOIs
Publication statusPublished - 2014

Fingerprint

Information Dissemination
Computational Biology
Automatic Data Processing
Social aspects
Public-Private Sector Partnerships
Bioinformatics
Data Display
Precision Medicine
Aptitude
Biological Science Disciplines
Financial Management
Drug Discovery
Processing
Practice Guidelines
Research
Computer Simulation
Drug therapy
Motivation
Software
Data integration

ASJC Scopus subject areas

  • Applied Mathematics
  • Structural Biology
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications

Cite this

Integrated Bio-Search : Challenges and trends for the integration, search and comprehensive processing of biological information. / Masseroli, Marco; Mons, Barend; Bongcam-Rudloff, Erik; Ceri, Stefano; Kel, Alexander; Rechenmann, François; Lisacek, Frederique; Romano, Paolo.

In: BMC Bioinformatics, Vol. 15, S2, 2014.

Research output: Contribution to journalArticle

Masseroli, Marco ; Mons, Barend ; Bongcam-Rudloff, Erik ; Ceri, Stefano ; Kel, Alexander ; Rechenmann, François ; Lisacek, Frederique ; Romano, Paolo. / Integrated Bio-Search : Challenges and trends for the integration, search and comprehensive processing of biological information. In: BMC Bioinformatics. 2014 ; Vol. 15.
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