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Title: Estimating optimal sparseness of developmental gene networks using a semi-quantitative model
Authors: Ichinose, Natsuhiro  kyouindb  KAKEN_id
Yada, Tetsushi
Wada, Hiroshi
Author's alias: 市瀬, 夏洋
Issue Date: 21-Apr-2017
Publisher: Public Library of Science (PLoS)
Journal title: PLOS ONE
Volume: 12
Issue: 4
Thesis number: e0176492
Abstract: To estimate gene regulatory networks, it is important that we know the number of connections, or sparseness of the networks. It can be expected that the robustness to perturbations is one of the factors determining the sparseness. We reconstruct a semi-quantitative model of gene networks from gene expression data in embryonic development and detect the optimal sparseness against perturbations. The dense networks are robust to connection-removal perturbation, whereas the sparse networks are robust to misexpression perturbation. We show that there is an optimal sparseness that serves as a trade-off between these perturbations, in agreement with the optimal result of validation for testing data. These results suggest that the robustness to the two types of perturbations determines the sparseness of gene network.
Rights: © 2017 Ichinose et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
URI: http://hdl.handle.net/2433/225288
DOI(Published Version): 10.1371/journal.pone.0176492
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