Rcircle: A gene-oriented R package for integrating multiple ‘-omics’ data to prioritize disease related hub genes and network

Journal of Applied & Computational Mathematics

ISSN: 2168-9679

Open Access

Rcircle: A gene-oriented R package for integrating multiple ‘-omics’ data to prioritize disease related hub genes and network

4th International Conference and Exhibition on Biometrics & Biostatistics

November 16-18, 2015 San Antonio, USA

Xing Li

Mayo Clinic, USA

Keynote: J Appl Computat Math

Abstract :

Biomedical Science has entered the big data era and biologists today have access to an overwhelming abundance of data due to the rapid advancement of high-throughput technology in sequencing and microarray during last decade. The tremendous volume, high dimensions and different types of data pose an unprecedented challenge on data visualization and integration for efficient data exploration and effective scientific communication. Herein, we developed an extendable gene-oriented R package to integrate and visualize interactome (especially for gene interaction networks with large number of nodes), time-course transcriptome data (especially for transcriptional data with more than three time points up to dozens of stages), disease related genetic factors, and disease affected pathways/networks to facilitate the gene prioritization and knowledge discovery. This geneoriented R package is powerful for visualizing and integrating multiple â??-omicsâ?? data to prioritize actionable genes and facilitate biomedical knowledge discovery. Package is freely available on R website. One paper with the application of Rcircle package in human Dilated Cardiomyopathy study is featured as cover story on the Journal of Human Molecular Genetics and another paper is recommended as featured article by the Editor of Physiological Genomics. In this workshop, I will demonstrate the usage of this package in prioritizing disease-related genes in Congenital Heart Defects by integrating time-course transcriptome data, interactome data (gene interaction information), disease information, and involved pathway function groups, etc. In addition, the package is flexible to integrate other types of â??â??omicsâ?? data as well, including whole genome sequencing, exome-seq, etc.

Biography :

Xing Li has completed his PhD in Bioinformatics from The University of Michigan at Ann Arbor. He is an Assistant Professor in Division of Biomedical Statistics and Informatics, Department of Health Science Research at Mayo Clinic which has been recognized as the best hospital for 2014-2015 by US News & World Report. He has published more than 18 papers in reputed journals and has been serving as Peer Reviewers of over a dozen of journals, such as Genomics, BMC Bioinformatics, Stem Cell Research, PLOS ONE, Physiological Genomics, etc.


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