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Nucleic Acids Res. 2018 Jul 2;46(W1):W65-W70. doi: 10.1093/nar/gky408.

GIANT 2.0: genome-scale integrated analysis of gene networks in tissues.

Author information

1
Center for Computational Biology, Flatiron Institute, Simons Foundation, New York, NY 10010, USA.
2
Department of Computational Mathematics, Science and Engineering, Michigan State University, East Lansing, MI 48824, USA.
3
Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824, USA.
4
Department of Computer Science, Princeton University, Princeton, NJ 08544, USA.
5
Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ 08544, USA.

Abstract

GIANT2 (Genome-wide Integrated Analysis of gene Networks in Tissues) is an interactive web server that enables biomedical researchers to analyze their proteins and pathways of interest and generate hypotheses in the context of genome-scale functional maps of human tissues. The precise actions of genes are frequently dependent on their tissue context, yet direct assay of tissue-specific protein function and interactions remains infeasible in many normal human tissues and cell-types. With GIANT2, researchers can explore predicted tissue-specific functional roles of genes and reveal changes in those roles across tissues, all through interactive multi-network visualizations and analyses. Additionally, the NetWAS approach available through the server uses tissue-specific/cell-type networks predicted by GIANT2 to re-prioritize statistical associations from GWAS studies and identify disease-associated genes. GIANT2 predicts tissue-specific interactions by integrating diverse functional genomics data from now over 61 400 experiments for 283 diverse tissues and cell-types. GIANT2 does not require any registration or installation and is freely available for use at http://giant-v2.princeton.edu.

PMID:
29800226
PMCID:
PMC6030827
DOI:
10.1093/nar/gky408
[Indexed for MEDLINE]
Free PMC Article

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