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. 2013 Sep 5;9(9):e1003757. doi: 10.1371/journal.pgen.1003757

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© 2013 Li 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 properly credited.

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(A) Left panel: All genes that are significantly changed compared to the wild type upon deletion of subunits of the Sir Complex and kinases of Ste11-mediated MAPK cascading pathway. Right panel: Genes marked by green bar are <10 kb from the nearest telomeres, and genes marked by red bar are involved in mating process. (B) A novel predicted regulatory network that SIR complex and (Ste11-mediated) MAPK cascades pathway has functional overlap through kinase Fus3 (that were down regulated in the SIR complex) in mating. Known Ste11-mediated MAPK pathway is shown by Solid lines. Solid lines: known interactions, dashed lines: newly predicted interactions. (C) Novel causal relationships and undirected interactions predicted by DM_BN among STFs: Cst6, Sfp1, Bas1, Mac1, Gsm1, Ixr1, Haa1, Ume6 and Cad1, and some subunits of the SIR, SWI/SNF and SAGA complex, under parameter setting . Purple nodes: chromatin machinery components; Green nodes: sequence-specific DNA binding transcription factors.

Inline graphic — (A) Left panel: All genes that are significantly changed compared to the wild type upon deletion of subunits of the Sir Complex and kinases of Ste11-mediated MAPK cascading pathway. Right panel: Genes marked by green bar are <10 kb from the nearest telomeres, and genes marked by red bar are involved in mating process. (B) A novel predicted regulatory network that SIR complex and (Ste11-mediated) MAPK cascades pathway has functional overlap through kinase Fus3 (that were down regulated in the SIR complex) in mating. Known Ste11-mediated MAPK pathway is shown by Solid lines. Solid lines: known interactions, dashed lines: newly predicted interactions. (C) Novel causal relationships and undirected interactions predicted by DM_BN among STFs: Cst6, Sfp1, Bas1, Mac1, Gsm1, Ixr1, Haa1, Ume6 and Cad1, and some subunits of the SIR, SWI/SNF and SAGA complex, under parameter setting . Purple nodes: chromatin machinery components; Green nodes: sequence-specific DNA binding transcription factors.