BioVLAB-Cancer-Pharmacogenomics: tumor heterogeneity and pharmacogenomics analysis of multi-omics data from tumor on the cloud

被引:1
|
作者
Park, Sungjoon [1 ]
Lee, Dohoon [2 ]
Kim, Youngkuk [1 ]
Lim, Sangsoo [3 ]
Chae, Heejoon [4 ]
Kim, Sun [2 ,3 ,5 ]
机构
[1] Seoul Natl Univ, Dept Comp Sci & Engn, Seoul 08840, South Korea
[2] Seoul Natl Univ, Interdisciplinary Program Bioinformat, Seoul 08840, South Korea
[3] Seoul Natl Univ, Bioinformat Inst, Seoul 08840, South Korea
[4] Sookmyung Womens Univ, Div Comp Sci, Seoul 04310, South Korea
[5] Seoul Natl Univ, Inst Engn Res, Seoul 08840, South Korea
基金
新加坡国家研究基金会;
关键词
MICRORNA; MMIA;
D O I
10.1093/bioinformatics/btab478
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Motivation: Multi-omics data in molecular biology has accumulated rapidly over the years. Such data contains valuable information for research in medicine and drug discovery. Unfortunately, data-driven research in medicine and drug discovery is challenging for a majority of small research labs due to the large volume of data and the complexity of analysis pipeline. Results: We present BioVLAB-Cancer-Pharmacogenomics, a bioinformatics system that facilitates analysis of multi-omics data from breast cancer to analyze and investigate intratumor heterogeneity and pharmacogenomics on Amazon Web Services. Our system takes multi-omics data as input to perform tumor heterogeneity analysis in terms of TCGA data and deconvolve-and-match the tumor gene expression to cell line data in CCLE using DNA methylation profiles. We believe that our system can help small research labs perform analysis of tumor multi-omics without worrying about computational infrastructure and maintenance of databases and tools.
引用
收藏
页码:275 / 277
页数:3
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