Genomic and proteomic data integration for comprehensive biodata search

Canakoglu, Arif; Masseroli, Marco

doi:10.14806/ej.18.b.561

Cited by 1 publication

(1 citation statement)

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“…This work complements a previous study [ 21 ] of the envisaged relevance of Search Computing to the Life Sciences, in particular to information integration and support for Life Sciences ordered data. The foundation of the extension of Search Computing in support of explorative searches in the complex biomedical-molecular scenarios was shortly introduced in [ 22 ] and [ 23 ]; here such extension is thoroughly illustrated and discussed, focusing on a paradigmatic bioinformatics use case. By supporting interactive explorative multi-topic data searches, the work here presented significantly extends a previous approach [ 24 ] focused only on the efficient execution of predefined single global multi-topic queries over multiple ranked search services.…”

Section: Introductionmentioning

confidence: 99%

Explorative search of distributed bio-data to answer complex biomedical questions

et al. 2014

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BackgroundThe huge amount of biomedical-molecular data increasingly produced is providing scientists with potentially valuable information. Yet, such data quantity makes difficult to find and extract those data that are most reliable and most related to the biomedical questions to be answered, which are increasingly complex and often involve many different biomedical-molecular aspects. Such questions can be addressed only by comprehensively searching and exploring different types of data, which frequently are ordered and provided by different data sources. Search Computing has been proposed for the management and integration of ranked results from heterogeneous search services. Here, we present its novel application to the explorative search of distributed biomedical-molecular data and the integration of the search results to answer complex biomedical questions.ResultsA set of available bioinformatics search services has been modelled and registered in the Search Computing framework, and a Bioinformatics Search Computing application (Bio-SeCo) using such services has been created and made publicly available at http://www.bioinformatics.deib.polimi.it/bio-seco/seco/. It offers an integrated environment which eases search, exploration and ranking-aware combination of heterogeneous data provided by the available registered services, and supplies global results that can support answering complex multi-topic biomedical questions.ConclusionsBy using Bio-SeCo, scientists can explore the very large and very heterogeneous biomedical-molecular data available. They can easily make different explorative search attempts, inspect obtained results, select the most appropriate, expand or refine them and move forward and backward in the construction of a global complex biomedical query on multiple distributed sources that could eventually find the most relevant results. Thus, it provides an extremely useful automated support for exploratory integrated bio search, which is fundamental for Life Science data driven knowledge discovery.

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Section: Introductionmentioning

confidence: 99%