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Harnessing diversity towards the reconstructing of large scale gene regulatory networks.
Hase T, Ghosh S, Yamanaka R, Kitano H. Hase T, et al. PLoS Comput Biol. 2013;9(11):e1003361. doi: 10.1371/journal.pcbi.1003361. Epub 2013 Nov 21. PLoS Comput Biol. 2013. PMID: 24278007 Free PMC article.
Difference in gene duplicability may explain the difference in overall structure of protein-protein interaction networks among eukaryotes.
Hase T, Niimura Y, Tanaka H. Hase T, et al. BMC Evol Biol. 2010 Nov 18;10:358. doi: 10.1186/1471-2148-10-358. BMC Evol Biol. 2010. PMID: 21087510 Free PMC article.
Structure of protein interaction networks and their implications on drug design.
Hase T, Tanaka H, Suzuki Y, Nakagawa S, Kitano H. Hase T, et al. PLoS Comput Biol. 2009 Oct;5(10):e1000550. doi: 10.1371/journal.pcbi.1000550. Epub 2009 Oct 30. PLoS Comput Biol. 2009. PMID: 19876376 Free PMC article.
A comprehensive map of the influenza A virus replication cycle.
Matsuoka Y, Matsumae H, Katoh M, Eisfeld AJ, Neumann G, Hase T, Ghosh S, Shoemaker JE, Lopes TJ, Watanabe T, Watanabe S, Fukuyama S, Kitano H, Kawaoka Y. Matsuoka Y, et al. Among authors: hase t. BMC Syst Biol. 2013 Oct 2;7:97. doi: 10.1186/1752-0509-7-97. BMC Syst Biol. 2013. PMID: 24088197 Free PMC article.
Network analyses based on comprehensive molecular interaction maps reveal robust control structures in yeast stress response pathways.
Kawakami E, Singh VK, Matsubara K, Ishii T, Matsuoka Y, Hase T, Kulkarni P, Siddiqui K, Kodilkar J, Danve N, Subramanian I, Katoh M, Shimizu-Yoshida Y, Ghosh S, Jere A, Kitano H. Kawakami E, et al. Among authors: hase t. NPJ Syst Biol Appl. 2016 Jan 7;2:15018. doi: 10.1038/npjsba.2015.18. eCollection 2016. NPJ Syst Biol Appl. 2016. PMID: 28725465 Free PMC article.
A machine learning approach for the identification of key markers involved in brain development from single-cell transcriptomic data.
Hu Y, Hase T, Li HP, Prabhakar S, Kitano H, Ng SK, Ghosh S, Wee LJ. Hu Y, et al. Among authors: hase t. BMC Genomics. 2016 Dec 22;17(Suppl 13):1025. doi: 10.1186/s12864-016-3317-7. BMC Genomics. 2016. PMID: 28155657 Free PMC article.
Origin and evolution of genes related to ABA metabolism and its signaling pathways.
Hanada K, Hase T, Toyoda T, Shinozaki K, Okamoto M. Hanada K, et al. Among authors: hase t. J Plant Res. 2011 Jul;124(4):455-65. doi: 10.1007/s10265-011-0431-0. Epub 2011 May 28. J Plant Res. 2011. PMID: 21626211
A dual controllability analysis of influenza virus-host protein-protein interaction networks for antiviral drug target discovery.
Ackerman EE, Alcorn JF, Hase T, Shoemaker JE. Ackerman EE, et al. Among authors: hase t. BMC Bioinformatics. 2019 Jun 3;20(1):297. doi: 10.1186/s12859-019-2917-z. BMC Bioinformatics. 2019. PMID: 31159726 Free PMC article.
Non-uniform survival rate of heterodimerization links in the evolution of the yeast protein-protein interaction network.
Hase T, Niimura Y, Kaminuma T, Tanaka H. Hase T, et al. PLoS One. 2008 Feb 27;3(2):e1667. doi: 10.1371/journal.pone.0001667. PLoS One. 2008. PMID: 18301745 Free PMC article.
Precise Temporal Profiling of Signaling Complexes in Primary Cells Using SWATH Mass Spectrometry.
Caron E, Roncagalli R, Hase T, Wolski WE, Choi M, Menoita MG, Durand S, García-Blesa A, Fierro-Monti I, Sajic T, Heusel M, Weiss T, Malissen M, Schlapbach R, Collins BC, Ghosh S, Kitano H, Aebersold R, Malissen B, Gstaiger M. Caron E, et al. Among authors: hase t. Cell Rep. 2017 Mar 28;18(13):3219-3226. doi: 10.1016/j.celrep.2017.03.019. Cell Rep. 2017. PMID: 28355572 Free PMC article.
In this study, we applied an advanced and robust workflow combining mouse genetics and affinity purification (AP)-SWATH mass spectrometry to profile the dynamics of 53 high-confidence protein interactions in primary T cells, using the scaffold protein GRB2 as a model. The …
In this study, we applied an advanced and robust workflow combining mouse genetics and affinity purification (AP)-SWATH mass spectrometry to …
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