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Datalog Extensions for Bioinformatic Data Analysis
- Authors
- Seo, Jiwon
- Issue Date
- Oct-2018
- Publisher
- IEEE Service Center
- Citation
- Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings, v.2018-July, pp 1303 - 1306
- Pages
- 4
- Indexed
- SCOPUS
- Journal Title
- Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings
- Volume
- 2018-July
- Start Page
- 1303
- End Page
- 1306
- ISSN
- 1557-170X
0589-1019
- Abstract
- Recent growth in public bioinformatic databases has facilitated the analysis of genomic and proteomic data. However, the large size of the datasets makes it hard for nonexpert programmers to perform the analysis. In this paper we present B-Log, a high-level query language for bioinformatic data analysis. Based on Datalog, B-Log can simply express graph analysis algorithms; it is extended with nested tables, recursive aggregations, and foreign functions, which helps quick exploratory analyses. We implemented several analysis algorithms in B-Log; we also implemented a prototype system to explore TCGA dataset. We find B-Log to be useful for exploratory analysis and quick prototyping.
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