STRUCTURAL MOTIF ENUMERATION IN TRANSCRIPTIONAL REGULATION NETWORKS

Claire Luciano; Chun-Hsi Huang

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Paper

STRUCTURAL MOTIF ENUMERATION IN TRANSCRIPTIONAL REGULATION NETWORKS

Topics: Structural Bioinformatics

In Proceedings of the First International Conference on Bioinformatics - Volume 1: BIOINFORMATICS, 187-192, 2010 , Valencia, Spain

Authors: Claire Luciano ¹ and Chun-Hsi Huang ²

Affiliations: ¹ UC San Diego, United States ; ² University of Connecticut, United States

ISBN: 978-989-674-019-1

ISSN: 2184-4305

Keyword(s): Network motif, Transcriptional regulation network, Sampling.

Related Ontology Subjects/Areas/Topics: Bioinformatics ; Biomedical Engineering ; Structural Bioinformatics

Abstract: Network motifs are small connected subnetworks within a larger network that occur in statistically significant quantities and may indicate functional regions of the network. Network motif software tools employ algorithms that compare a network to randomly generated networks in order to identify subnetworks that occur in frequencies higher than would be expected by random chance. The transcriptional regulation network of E. coli has been represented as a network and evaluated using both full enumeration and an edge sampling algorithm. Several significant network motifs were identified, including feedforward loops and bipartite graphs. This paper applies both full enumeration and a different sampling algorithm, randomized enumeration, to the E. coli network using the newer software tool FANMOD. Evaluating the E. coli transcriptional regulation network with FANMOD also identified feedforward loops and bipartite graphs as significant network motifs. Sampling identified fewer and les s significant motifs than full enumeration, however, sampling enables the evaluation of larger subgraph sizes. (More)

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Paper citation in several formats:

Luciano, C. and Huang, C. (2010). STRUCTURAL MOTIF ENUMERATION IN TRANSCRIPTIONAL REGULATION NETWORKS.In Proceedings of the First International Conference on Bioinformatics - Volume 1: BIOINFORMATICS, (BIOSTEC 2010) ISBN 978-989-674-019-1, pages 187-192. DOI: 10.5220/0002760001870192

@conference{bioinformatics10,
author={Claire Luciano and Chun{-}Hsi Huang},
title={STRUCTURAL MOTIF ENUMERATION IN TRANSCRIPTIONAL REGULATION NETWORKS},
booktitle={Proceedings of the First International Conference on Bioinformatics - Volume 1: BIOINFORMATICS, (BIOSTEC 2010)},
year={2010},
pages={187-192},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0002760001870192},
isbn={978-989-674-019-1},
}

TY - CONF

JO - Proceedings of the First International Conference on Bioinformatics - Volume 1: BIOINFORMATICS, (BIOSTEC 2010)
TI - STRUCTURAL MOTIF ENUMERATION IN TRANSCRIPTIONAL REGULATION NETWORKS
SN - 978-989-674-019-1
AU - Luciano, C.
AU - Huang, C.
PY - 2010
SP - 187
EP - 192
DO - 10.5220/0002760001870192