On the impact of granularity in extracting knowledge from bioinformatics data

Sean West; Hesham Ali

doi:10.5220/0005778700920103

On the impact of granularity in extracting knowledge from bioinformatics data

Sean West, Hesham Ali

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

2 Scopus citations

Abstract

With the rapidly increasing amount of various types of biological data currently available to researchers, the focus of the biomedical research community has been shifting from pure data generation towards the development of new methodologies for data analytics. Although many researchers continue to focus on approaches developed for analyzing single types of biological data, recent attempts have been made to utilize the availability of heterogeneous data sets that contain various types of data and try to establish tools for data integration and analysis in many bioinformatics applications. Such attempts are expected to increase significantly in this coming decade. While this can be viewed as a positive step towards advancing big data analytics in bioinformatics, it is critical that these integration methodologies are meticulously studied to ensure high quality of the knowledge extracted from the integrated data. In this work, we employ data integration methods to analyze biological data obtained from protein interaction networks and gene expression data. We conduct a study to show that potential problems can arise from integrating or fusing data obtained at different granularity levels and highlight the importance of developing advanced data fusing techniques to integrate various types of biological data for analytical purposes. Further, we explore the impact of granularity from a more formulized approach and the granularity levels significantly impact the quality of knowledge extracted from the integrated data.

Original language	English (US)
Title of host publication	BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016
Editors	James Gilbert, Haim Azhari, Hesham Ali, Carla Quintao, Jan Sliwa, Carolina Ruiz, Ana Fred, Hugo Gamboa
Publisher	SciTePress
Pages	92-103
Number of pages	12
ISBN (Electronic)	9789897581700
DOIs	https://doi.org/10.5220/0005778700920103
State	Published - 2016
Event	7th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2016 - Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016 - Rome, Italy Duration: Feb 21 2016 → Feb 23 2016

Publication series

Name	BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016

Other

Other	7th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2016 - Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016
Country/Territory	Italy
City	Rome
Period	2/21/16 → 2/23/16

Keywords

And clusters
Co-regulation
Correlation networks
Data integration
Gene expression data
Knowledge extraction
Protein-protein interaction

ASJC Scopus subject areas

Biomedical Engineering
Electrical and Electronic Engineering

Access to Document

10.5220/0005778700920103

Cite this

West, S., & Ali, H. (2016). On the impact of granularity in extracting knowledge from bioinformatics data. In J. Gilbert, H. Azhari, H. Ali, C. Quintao, J. Sliwa, C. Ruiz, A. Fred, & H. Gamboa (Eds.), BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016 (pp. 92-103). (BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016). SciTePress. https://doi.org/10.5220/0005778700920103

On the impact of granularity in extracting knowledge from bioinformatics data. / West, Sean; Ali, Hesham.
BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016. ed. / James Gilbert; Haim Azhari; Hesham Ali; Carla Quintao; Jan Sliwa; Carolina Ruiz; Ana Fred; Hugo Gamboa. SciTePress, 2016. p. 92-103 (BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

West, S & Ali, H 2016, On the impact of granularity in extracting knowledge from bioinformatics data. in J Gilbert, H Azhari, H Ali, C Quintao, J Sliwa, C Ruiz, A Fred & H Gamboa (eds), BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016. BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016, SciTePress, pp. 92-103, 7th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2016 - Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016, Rome, Italy, 2/21/16. https://doi.org/10.5220/0005778700920103

West S, Ali H. On the impact of granularity in extracting knowledge from bioinformatics data. In Gilbert J, Azhari H, Ali H, Quintao C, Sliwa J, Ruiz C, Fred A, Gamboa H, editors, BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016. SciTePress. 2016. p. 92-103. (BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016). doi: 10.5220/0005778700920103

West, Sean ; Ali, Hesham. / On the impact of granularity in extracting knowledge from bioinformatics data. BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016. editor / James Gilbert ; Haim Azhari ; Hesham Ali ; Carla Quintao ; Jan Sliwa ; Carolina Ruiz ; Ana Fred ; Hugo Gamboa. SciTePress, 2016. pp. 92-103 (BIOINFORMATICS 2016 - 7th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 9th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2016).

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On the impact of granularity in extracting knowledge from bioinformatics data

Abstract

Publication series

Other

Keywords

ASJC Scopus subject areas

Access to Document

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Cite this