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Using 2-node hypergraph clustering coefficients to analyze disease-gene networks

Published: 20 September 2014 Publication History

Abstract

Disease-gene networks are bipartite networks that connect diseases to the genes with which they are associated. Due to the absence of tools to analyze bipartite networks, however, they are usually analyzed by "projecting" the bipartite network into a unipartite one by taking one side of the bipartition as the nodes and connecting two nodes if they share a common neighbor in the bipartite network. This projection, however, loses information, such as exactly which groups of diseases share a common gene.
Here, we present an alternative method to analyze these networks by using hypergraph techniques. We review several metrics from previous work and demonstrate their ability to find related diseases in disease-gene network.

References

[1]
A. Bauer-Mehren, M. Bundschus, M. Rautschka, M. A. Mayer, F. Sanz and L. I. Furlong. Gene-Disease Network Analysis Reveals Functional Modules in Mendelian, Complex and Environmental Diseases. PLOS ONE, 6(6):e20284, JUN 14 2011.
[2]
J. Cohen. A coefficient of agreement for nominal scales. EDUCATIONAL AND PSYCHOLOGICAL MEASUREMENT, 20(1):37--46, APR 1960
[3]
S. R. Gallagher and D. S. Goldberg. Clustering Coefficients in Protein Interaction Hypernetworks. PROCEEDINGS OF THE INTERNATIONAL CONFERENCE ON BIOINFORMATICS, COMPUTATIONAL BIOLOGY AND BIOMEDICAL INFORMATICS, SEP 9 2013.
[4]
K.-I. Goh, M. E. Cusick, D. Valle, B. Childs, M. Vidal and A.-L. Barabasi. The human disease network. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 104(21):8685--8690, MAY 22 2007.
[5]
L. M. Schriml, C. Arze, S. Nadendla, Y.-W. W. Chang, M. Mazaitis, V. Felix, G. Feng and W. A. Kibbe. Disease Ontology: a backbone for disease semantic integration. NUCLEIC ACIDS RESEARCH, 40(Database issue):D940--D946, JAN 2012

Cited By

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  • (2023)Sparse Symmetric Format for Tucker DecompositionIEEE Transactions on Parallel and Distributed Systems10.1109/TPDS.2023.326312434:6(1743-1756)Online publication date: Jun-2023
  • (2019)MESH: A Flexible Distributed Hypergraph Processing System2019 IEEE International Conference on Cloud Engineering (IC2E)10.1109/IC2E.2019.00-11(12-22)Online publication date: Jun-2019

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Published In

cover image ACM Conferences
BCB '14: Proceedings of the 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics
September 2014
851 pages
ISBN:9781450328944
DOI:10.1145/2649387
  • General Chairs:
  • Pierre Baldi,
  • Wei Wang
Permission to make digital or hard copies of part or all of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for third-party components of this work must be honored. For all other uses, contact the Owner/Author.

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Association for Computing Machinery

New York, NY, United States

Publication History

Published: 20 September 2014

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Author Tags

  1. clustering coefficients
  2. disease-gene networks
  3. hypergraphs

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BCB '14
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BCB '14: ACM-BCB '14
September 20 - 23, 2014
California, Newport Beach

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Overall Acceptance Rate 254 of 885 submissions, 29%

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Cited By

View all
  • (2023)Sparse Symmetric Format for Tucker DecompositionIEEE Transactions on Parallel and Distributed Systems10.1109/TPDS.2023.326312434:6(1743-1756)Online publication date: Jun-2023
  • (2019)MESH: A Flexible Distributed Hypergraph Processing System2019 IEEE International Conference on Cloud Engineering (IC2E)10.1109/IC2E.2019.00-11(12-22)Online publication date: Jun-2019

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