| Dyczkowski J and Vingron M (2005) Comparative analysis of cell cycle regulated genes in eukaryotes. Genome Inform Ser Workshop Genome Inform 16(1):125-31 |
| Zheng J, et al. (2010) Epistatic relationships reveal the functional organization of yeast transcription factors. Mol Syst Biol 6():420 |
| Tahara S, et al. (1998) Functional domains of rep2, a transcriptional activator subunit for Res2-Cdc10, controlling the cell cycle "start". Mol Biol Cell 9(6):1577-88 |
| Rojas M, et al. (2008) Selective inhibition of yeast regulons by daunorubicin: a transcriptome-wide analysis. BMC Genomics 9:358 |
| Shaner L, et al. (2008) The Hsp110 protein chaperone Sse1 is required for yeast cell wall integrity and morphogenesis. Curr Genet 54(1):1-11 |
| Zhu Y, et al. (1994) pct1+, which encodes a new DNA-binding partner of p85cdc10, is required for meiosis in the fission yeast Schizosaccharomyces pombe. Genes Dev 8(8):885-98 |
| Ewaskow SP, et al. (1998) Mutation and modeling analysis of the Saccharomyces cerevisiae Swi6 ankyrin repeats. Biochemistry 37(13):4437-50 |
| Lai FJ, et al. (2014) A comprehensive performance evaluation on the prediction results of existing cooperative transcription factors identification algorithms. BMC Syst Biol 8 Suppl 4():S9 |
| Wang H, et al. (2011) Yeast cell cycle transcription factors identification by variable selection criteria. Gene 485(2):172-6 |
| Zhao Y, et al. (2015) The APSES family proteins in fungi: Characterizations, evolution and functions. Fungal Genet Biol 81():271-80 |
| Xiao Y and Segal MR (2009) Identification of yeast transcriptional regulation networks using multivariate random forests. PLoS Comput Biol 5(6):e1000414 |
| Gimeno CJ and Fink GR (1994) Induction of pseudohyphal growth by overexpression of PHD1, a Saccharomyces cerevisiae gene related to transcriptional regulators of fungal development. Mol Cell Biol 14(3):2100-12 |
| Mathiasen DP and Lisby M (2014) Cell cycle regulation of homologous recombination in Saccharomyces cerevisiae. FEMS Microbiol Rev 38(2):172-84 |
| Dirick L, et al. (1995) Roles and regulation of Cln-Cdc28 kinases at the start of the cell cycle of Saccharomyces cerevisiae. EMBO J 14(19):4803-13 |
| Ferrezuelo F, et al. (2012) The critical size is set at a single-cell level by growth rate to attain homeostasis and adaptation. Nat Commun 3():1012 |
| Sedgwick SG, et al. (1998) Structural and functional architecture of the yeast cell-cycle transcription factor swi6. J Mol Biol 281(5):763-75 |
| Travesa A, et al. (2013) Repression of G1/S transcription is mediated via interaction of the GTB motifs of Nrm1 and Whi5 with Swi6. Mol Cell Biol 33(8):1476-86 |
| Ferrezuelo F, et al. (2010) The transcriptional network activated by Cln3 cyclin at the G1-to-S transition of the yeast cell cycle. Genome Biol 11(6):R67 |
| Aranda A and Proudfoot N (2001) Transcriptional termination factors for RNA polymerase II in yeast. Mol Cell 7(5):1003-11 |
| Taberner FJ and Igual JC (2010) Yeast karyopherin Kap95 is required for cell cycle progression at Start. BMC Cell Biol 11():47 |
| Mai B and Breeden L (1997) Xbp1, a stress-induced transcriptional repressor of the Saccharomyces cerevisiae Swi4/Mbp1 family. Mol Cell Biol 17(11):6491-501 |
| Jorgensen P and Tyers M (2004) How cells coordinate growth and division. Curr Biol 14(23):R1014-27 |
| Turner JJ, et al. (2012) Cell size control in yeast. Curr Biol 22(9):R350-9 |
| Lai LC, et al. (2008) Comparison of the transcriptomic "stress response" evoked by antimycin A and oxygen deprivation in saccharomyces cerevisiae. BMC Genomics 9:627 |
| Huang SS and Fraenkel E (2009) Integrating proteomic, transcriptional, and interactome data reveals hidden components of signaling and regulatory networks. Sci Signal 2(81):ra40 |
| Lau KY, et al. (2007) Function constrains network architecture and dynamics: a case study on the yeast cell cycle Boolean network. Phys Rev E Stat Nonlin Soft Matter Phys 75(5 Pt 1):051907 |
| Breeden LL (2003) Periodic transcription: a cycle within a cycle. Curr Biol 13(1):R31-8 |
| de Bruin RA, et al. (2008) Stb1 collaborates with other regulators to modulate the G1-specific transcriptional circuit. Mol Cell Biol 28(22):6919-28 |
| Taylor IA, et al. (2000) Characterization of the DNA-binding domains from the yeast cell-cycle transcription factors Mbp1 and Swi4. Biochemistry 39(14):3943-54 |
| Bean JM, et al. (2006) Coherence and timing of cell cycle start examined at single-cell resolution. Mol Cell 21(1):3-14 |
| Gong J and Siede W (2009) SBF transcription factor complex positively regulates UV mutagenesis in Saccharomyces cerevisiae. Biochem Biophys Res Commun 379(4):1009-14 |
| Chin SL, et al. (2012) Dynamics of oscillatory phenotypes in Saccharomyces cerevisiae reveal a network of genome-wide transcriptional oscillators. FEBS J 279(6):1119-30 |
| Ye C, et al. (2009) Using network component analysis to dissect regulatory networks mediated by transcription factors in yeast. PLoS Comput Biol 5(3):e1000311 |
| Simon I, et al. (2001) Serial regulation of transcriptional regulators in the yeast cell cycle. Cell 106(6):697-708 |
| Tuglus C and van der Laan MJ (2011) Repeated measures semiparametric regression using targeted maximum likelihood methodology with application to transcription factor activity discovery. Stat Appl Genet Mol Biol 10(1):Article2 |
| Babbitt GA (2010) Relaxed selection against accidental binding of transcription factors with conserved chromatin contexts. Gene 466(1-2):43-8 |
| Kurat CF, et al. (2014) Regulation of histone gene transcription in yeast. Cell Mol Life Sci 71(4):599-613 |
| Wu WS and Li WH (2008) Systematic identification of yeast cell cycle transcription factors using multiple data sources. BMC Bioinformatics 9:522 |
| Tennen RI, et al. (2013) Cell-cycle and DNA damage regulation of the DNA mismatch repair protein Msh2 occurs at the transcriptional and post-transcriptional level. DNA Repair (Amst) 12(2):97-109 |
| Bean JM, et al. (2005) High functional overlap between MluI cell-cycle box binding factor and Swi4/6 cell-cycle box binding factor in the G1/S transcriptional program in Saccharomyces cerevisiae. Genetics 171(1):49-61 |
| Morgan BA, et al. (1995) A yeast transcription factor bypassing the requirement for SBF and DSC1/MBF in budding yeast has homology to bacterial signal transduction proteins. EMBO J 14(22):5679-89 |
| Noor A, et al. (2013) ROBNCA: robust network component analysis for recovering transcription factor activities. Bioinformatics 29(19):2410-8 |
| Moll T, et al. (1992) SWI6 is a regulatory subunit of two different cell cycle START-dependent transcription factors in Saccharomyces cerevisiae. J Cell Sci Suppl 16:87-96 |
| Moll T, et al. (1993) Transcription factors important for starting the cell cycle in yeast. Philos Trans R Soc Lond B Biol Sci 340(1293):351-60 |
| Cote P, et al. (2009) Transcriptional analysis of the Candida albicans cell cycle. Mol Biol Cell 20(14):3363-73 |
| Stevens SW, et al. (2002) Composition and functional characterization of the yeast spliceosomal penta-snRNP. Mol Cell 9(1):31-44 |
| Vohradsky J (2012) Stochastic simulation for the inference of transcriptional control network of yeast cyclins genes. Nucleic Acids Res 40(15):7096-103 |
| Queralt E and Igual JC (2005) Functional connection between the Clb5 cyclin, the protein kinase C pathway and the Swi4 transcription factor in Saccharomyces cerevisiae. Genetics 171(4):1485-98 |
| Lotito L, et al. (2009) A specific transcriptional response of yeast cells to camptothecin dependent on the Swi4 and Mbp1 factors. Eur J Pharmacol 603(1-3):29-36 |
| Galdieri L, et al. (2016) Reduced histone expression or defect in chromatin assembly induce respiration. Mol Cell Biol () |
| Chua G, et al. (2006) Identifying transcription factor functions and targets by phenotypic activation. Proc Natl Acad Sci U S A 103(32):12045-50 |
| Huang SS and Fraenkel E (2012) Swimming Upstream: Identifying Proteomic Signals that Drive Transcriptional Changes using the Interactome and Multiple "-Omics" Datasets. Methods Cell Biol 110():57-80 |
| Elemento O, et al. (2007) A Universal Framework for Regulatory Element Discovery across All Genomes and Data Types. Mol Cell 28(2):337-50 |
| Harris MR, et al. (2013) Binding specificity of the G1/S transcriptional regulators in budding yeast. PLoS One 8(4):e61059 |
| Breeden L (1996) Start-specific transcription in yeast. Curr Top Microbiol Immunol 208():95-127 |
| Beskow A and Wright AP (2006) Comparative analysis of regulatory transcription factors in Schizosaccharomyces pombe and budding yeasts. Yeast 23(13):929-35 |
| Artiles K, et al. (2009) The Rts1 regulatory subunit of protein phosphatase 2A is required for control of G1 cyclin transcription and nutrient modulation of cell size. PLoS Genet 5(11):e1000727 |
| Lai LC, et al. (2006) Metabolic-state-dependent remodeling of the transcriptome in response to anoxia and subsequent reoxygenation in Saccharomyces cerevisiae. Eukaryot Cell 5(9):1468-89 |
| Flick K, et al. (1998) Regulation of cell size by glucose is exerted via repression of the CLN1 promoter. Mol Cell Biol 18(5):2492-501 |
| Ernst J, et al. (2007) Reconstructing dynamic regulatory maps. Mol Syst Biol 3():74 |
| Wu WS, et al. (2006) Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle. BMC Bioinformatics 7(1):421 |
| Nachman I, et al. (2004) Inferring quantitative models of regulatory networks from expression data. Bioinformatics 20 Suppl 1:I248-I256 |
| Cross FR, et al. (1994) Role of Swi4 in cell cycle regulation of CLN2 expression. Mol Cell Biol 14(7):4779-87 |
| Chen KC, et al. (2000) Kinetic analysis of a molecular model of the budding yeast cell cycle. Mol Biol Cell 11(1):369-91 |
| Iyer VR, et al. (2001) Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature 409(6819):533-8 |
| Aramayo R, et al. (1996) Asm-1+, a Neurospora crassa gene related to transcriptional regulators of fungal development. Genetics 144(3):991-1003 |
| Zhu Z, et al. (2002) Computational identification of transcription factor binding sites via a transcription-factor-centric clustering (TFCC) algorithm. J Mol Biol 318(1):71-81 |
| Lu CC, et al. (2008) Extracting transcription factor binding sites from unaligned gene sequences with statistical models. BMC Bioinformatics 9 Suppl 12:S7 |
| Banerjee N and Zhang MQ (2003) Identifying cooperativity among transcription factors controlling the cell cycle in yeast. Nucleic Acids Res 31(23):7024-31 |
| Tanaka K and Okayama H (2000) A pcl-like cyclin activates the Res2p-Cdc10p cell cycle "start" transcriptional factor complex in fission yeast. Mol Biol Cell 11(9):2845-62 |
| Kato M, et al. (2004) Identifying combinatorial regulation of transcription factors and binding motifs. Genome Biol 5(8):R56 |
| Wijnen H, et al. (2002) The G(1) cyclin Cln3 promotes cell cycle entry via the transcription factor Swi6. Mol Cell Biol 22(12):4402-18 |
| Hansen L, et al. (2012) Differences in local genomic context of bound and unbound motifs. Gene 506(1):125-34 |
| Ho U, et al. (1997) Role of the casein kinase I isoform, Hrr25, and the cell cycle-regulatory transcription factor, SBF, in the transcriptional response to DNA damage in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A 94(2):581-6 |
| Alarcon T and Tindall MJ (2007) Modelling cell growth and its modulation of the G1/S transition. Bull Math Biol 69(1):197-214 |
| Wijnen H and Futcher B (1999) Genetic analysis of the shared role of CLN3 and BCK2 at the G(1)-S transition in Saccharomyces cerevisiae. Genetics 153(3):1131-43 |
| Igual JC, et al. (1996) Coordinated regulation of gene expression by the cell cycle transcription factor Swi4 and the protein kinase C MAP kinase pathway for yeast cell integrity. EMBO J 15(18):5001-13 |
| Haase SB and Wittenberg C (2014) Topology and control of the cell-cycle-regulated transcriptional circuitry. Genetics 196(1):65-90 |
| Dionne I, et al. (2013) Cell cycle-dependent transcription factors control the expression of yeast telomerase RNA. RNA 19(7):992-1002 |
| Bastos de Oliveira FM, et al. (2012) Linking DNA replication checkpoint to MBF cell-cycle transcription reveals a distinct class of G1/S genes. EMBO J 31(7):1798-810 |
| Brush GS, et al. (2012) Yeast IME2 Functions Early in Meiosis Upstream of Cell Cycle-Regulated SBF and MBF Targets. PLoS One 7(2):e31575 |
| Maraziotis I, et al. (2005) Gene networks inference from expression data using a recurrent neuro-fuzzy approach. Conf Proc IEEE Eng Med Biol Soc 5:4834-7 |
| Porter SE, et al. (2002) The yeast pafl-rNA polymerase II complex is required for full expression of a subset of cell cycle-regulated genes. Eukaryot Cell 1(5):830-42 |
| Yu H and Gerstein M (2006) Genomic analysis of the hierarchical structure of regulatory networks. Proc Natl Acad Sci U S A 103(40):14724-31 |
| Siegmund RF and Nasmyth KA (1996) The Saccharomyces cerevisiae Start-specific transcription factor Swi4 interacts through the ankyrin repeats with the mitotic Clb2/Cdc28 kinase and through its conserved carboxy terminus with Swi6. Mol Cell Biol 16(6):2647 |
| Yu X, et al. (2006) Genome-wide prediction and characterization of interactions between transcription factors in Saccharomyces cerevisiae. Nucleic Acids Res 34(3):917-27 |
| Dirick L, et al. (1992) A central role for SWI6 in modulating cell cycle Start-specific transcription in yeast. Nature 357(6378):508-13 |
| Horak CE, et al. (2002) Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae. Genes Dev 16(23):3017-33 |
| Chen T and Li F (2009) Identifying cell cycle regulators and combinatorial interactions among transcription factors with microarray data and ChIP-chip data. Int J Bioinform Res Appl 5(6):625-46 |
| Toone WM, et al. (1997) Getting started: regulating the initiation of DNA replication in yeast. Annu Rev Microbiol 51:125-49 |
| Ho Y, et al. (1999) Regulation of transcription at the Saccharomyces cerevisiae start transition by Stb1, a Swi6-binding protein. Mol Cell Biol 19(8):5267-78 |
| Gordan R, et al. (2011) Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights. Genome Biol 12(12):R125 |
| Andrews BJ and Mason SW (1993) Gene expression and the cell cycle: a family affair. Science 261(5128):1543-4 |
| Sopko R, et al. (2006) Mapping pathways and phenotypes by systematic gene overexpression. Mol Cell 21(3):319-30 |
| Koch C, et al. (1993) A role for the transcription factors Mbp1 and Swi4 in progression from G1 to S phase. Science 261(5128):1551-7 |
| Hart CE, et al. (2005) A mathematical and computational framework for quantitative comparison and integration of large-scale gene expression data. Nucleic Acids Res 33(8):2580-94 |
| Bertoli C, et al. (2013) Control of cell cycle transcription during G1 and S phases. Nat Rev Mol Cell Biol 14(8):518-28 |
| Manioudaki ME and Poirazi P (2013) Modeling regulatory cascades using Artificial Neural Networks: the case of transcriptional regulatory networks shaped during the yeast stress response. Front Genet 4():110 |
| To CC and Vohradsky J (2010) Measurement variation determines the gene network topology reconstructed from experimental data: a case study of the yeast cyclin network. FASEB J 24(9):3468-78 |
| Jothi R, et al. (2009) Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture. Mol Syst Biol 5:294 |
| Lu Y, et al. (2007) Combined analysis reveals a core set of cycling genes. Genome Biol 8(7):R146 |
| Asif HM and Sanguinetti G (2013) Simultaneous inference and clustering of transcriptional dynamics in gene regulatory networks. Stat Appl Genet Mol Biol 12(5):545-57 |
| Stillman DJ (2013) Dancing the cell cycle two-step: regulation of yeast G1-cell-cycle genes by chromatin structure. Trends Biochem Sci 38(9):467-75 |
| de Bruin RA, et al. (2004) Cln3 activates G1-specific transcription via phosphorylation of the SBF bound repressor Whi5. Cell 117(7):887-98 |
| Moriya H, et al. (2011) Overexpression limits of fission yeast cell-cycle regulators in vivo and in silico. Mol Syst Biol 7():556 |
| Gallo CA, et al. (2011) Discovering Time-Lagged Rules from Microarray Data using Gene Profile Classifiers. BMC Bioinformatics 12(1):123 |
| Petti AA and Church GM (2005) A network of transcriptionally coordinated functional modules in Saccharomyces cerevisiae. Genome Res 15(9):1298-306 |
| Laman H, et al. (1995) Disturbance of normal cell cycle progression enhances the establishment of transcriptional silencing in Saccharomyces cerevisiae. Mol Cell Biol 15(7):3608-17 |
| Smolka MB, et al. (2006) An FHA domain-mediated protein interaction network of Rad53 reveals its role in polarized cell growth. J Cell Biol 175(5):743-53 |
| Liu N, et al. (2013) The transcription cofactor FgSwi6 plays a role in growth and development, carbendazim sensitivity, cellulose utilization, lithium tolerance, deoxynivalenol production and virulence in the filamentous fungus Fusarium graminearum. Funga |
| Galbraith SJ, et al. (2006) Transcriptome network component analysis with limited microarray data. Bioinformatics 22(15):1886-94 |
| Kumar A and Snyder M (2001) Emerging technologies in yeast genomics. Nat Rev Genet 2(4):302-12 |
| Betz JL, et al. (2002) Phenotypic analysis of Paf1/RNA polymerase II complex mutations reveals connections to cell cycle regulation, protein synthesis, and lipid and nucleic acid metabolism. Mol Genet Genomics 268(2):272-85 |
| Chen H, et al. (2014) Highly sensitive inference of time-delayed gene regulation by network deconvolution. BMC Syst Biol 8 Suppl 4():S6 |
| Wang RS, et al. (2007) Inferring transcriptional regulatory networks from high-throughput data. Bioinformatics 23(22):3056-3064 |
| Benanti JA (2015) Create, activate, destroy, repeat: Cdk1 controls proliferation by limiting transcription factor activity. Curr Genet () |
| Wagner A (2002) Asymmetric functional divergence of duplicate genes in yeast. Mol Biol Evol 19(10):1760-8 |
| Ozonov EA and van Nimwegen E (2013) Nucleosome free regions in yeast promoters result from competitive binding of transcription factors that interact with chromatin modifiers. PLoS Comput Biol 9(8):e1003181 |
| Chen G, et al. (2007) Clustering of genes into regulons using integrated modeling-COGRIM. Genome Biol 8(1):R4 |
| Ashe M, et al. (2008) The SBF- and MBF-associated Protein Msa1 Is Required for Proper Timing of G1-specific Transcription in Saccharomyces cerevisiae. J Biol Chem 283(10):6040-9 |
| Taylor IA, et al. (1997) The X-ray structure of the DNA-binding domain from the Saccharomyces cerevisiae cell-cycle transcription factor Mbp1 at 2.1 A resolution. J Mol Biol 272(1):1-8 |
| Alberghina L, et al. (2009) Molecular networks and system-level properties. J Biotechnol 144(3):224-33 |
| Millar JB (2002) A genomic approach to studying cell-size homeostasis in yeast. Genome Biol 3(10):REVIEWS1028 |
| Costanzo M, et al. (2003) G1 transcription factors are differentially regulated in Saccharomyces cerevisiae by the Swi6-binding protein Stb1. Mol Cell Biol 23(14):5064-77 |
| Wang G, et al. (2010) Process-based network decomposition reveals backbone motif structure. Proc Natl Acad Sci U S A 107(23):10478-83 |
| Queralt E and Igual JC (2003) Cell cycle activation of the Swi6p transcription factor is linked to nucleocytoplasmic shuttling. Mol Cell Biol 23(9):3126-40 |
| Mai B and Breeden L (2000) CLN1 and its repression by Xbp1 are important for efficient sporulation in budding yeast. Mol Cell Biol 20(2):478-87 |
| Goh WS, et al. (2010) Blurring of high-resolution data shows that the effect of intrinsic nucleosome occupancy on transcription factor binding is mostly regional, not local. PLoS Comput Biol 6(1):e1000649 |
| Yang X, et al. (2013) Design principles of the yeast g1/s switch. PLoS Biol 11(10):e1001673 |
| Wright J, et al. (2013) A growing role for hypertrophy in senescence. FEMS Yeast Res 13(1):2-6 |
| Wagner A (1997) A computational genomics approach to the identification of gene networks. Nucleic Acids Res 25(18):3594-604 |
| Lyu S (2009) Combining boolean method with delay times for determining behaviors of biological networks. Conf Proc IEEE Eng Med Biol Soc 1():4884-7 |
| Manderson EN, et al. (2008) A Novel Genetic Screen Implicates Elm1 in the Inactivation of the Yeast Transcription Factor SBF. PLoS One 3(1):e1500 |
| Busnelli S, et al. (2013) Snf1/AMPK promotes SBF and MBF-dependent transcription in budding yeast. Biochim Biophys Acta 1833(12):3254-64 |
| Gormley M, et al. (2011) An integrated framework to model cellular phenotype as a component of biochemical networks. Adv Bioinformatics 2011():608295 |
| Busti S, et al. (2010) Glucose signaling-mediated coordination of cell growth and cell cycle in Saccharomyces cerevisiae. Sensors (Basel) 10(6):6195-240 |
| Alter O and Golub GH (2004) Integrative analysis of genome-scale data by using pseudoinverse projection predicts novel correlation between DNA replication and RNA transcription. Proc Natl Acad Sci U S A 101(47):16577-82 |
| Machado AK, et al. (1997) Thioredoxin reductase-dependent inhibition of MCB cell cycle box activity in Saccharomyces cerevisiae. J Biol Chem 272(27):17045-54 |
| Eriksson PR, et al. (2012) Regulation of histone gene expression in budding yeast. Genetics 191(1):7-20 |
| Hess D and Winston F (2005) Evidence that Spt10 and Spt21 of Saccharomyces cerevisiae play distinct roles in vivo and functionally interact with MCB-binding factor, SCB-binding factor and Snf1. Genetics 170(1):87-94 |
| McInerny CJ (2011) Cell cycle regulated gene expression in yeasts. Adv Genet 73():51-85 |
| O'Donnell AF, et al. (2009) New mutant versions of yeast FACT subunit Spt16 affect cell integrity. Mol Genet Genomics 282(5):487-502 |
| Braunewell S and Bornholdt S (2007) Superstability of the yeast cell-cycle dynamics: Ensuring causality in the presence of biochemical stochasticity. J Theor Biol 245(4):638-43 |
| Guan Y, et al. (2011) Nucleosome-coupled expression differences in closely-related species. BMC Genomics 12(1):466 |
| Partridge JF, et al. (1997) Cell cycle-dependent transcription of CLN1 involves swi4 binding to MCB-like elements. J Biol Chem 272(14):9071-7 |
| Dynlacht BD (1997) Regulation of transcription by proteins that control the cell cycle. Nature 389(6647):149-52 |
| Enserink JM and Kolodner RD (2012) What makes the engine hum: Rad6, a cell cycle supercharger. Cell Cycle 11(2):249-52 |
| Malagon F and Jensen TH (2008) The T body, a new cytoplasmic RNA granule in Saccharomyces cerevisiae. Mol Cell Biol 28(19):6022-32 |
| Wang Y, et al. (2009) Predicting eukaryotic transcriptional cooperativity by Bayesian network integration of genome-wide data. Nucleic Acids Res 37(18):5943-58 |
| Aucher W, et al. (2010) A Strategy for Interaction Site Prediction between Phospho-binding Modules and their Partners Identified from Proteomic Data. Mol Cell Proteomics 9(12):2745-59 |
| Luscombe NM, et al. (2004) Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 431(7006):308-12 |
| Costanzo M, et al. (2004) CDK activity antagonizes Whi5, an inhibitor of G1/S transcription in yeast. Cell 117(7):899-913 |
| Shohat-Tal A and Eshel D (2011) Cell cycle regulators interact with pathways that modulate microtubule stability in Saccharomyces cerevisiae. Eukaryot Cell 10(12):1705-13 |
| Ofir A, et al. (2012) Role of a Candida albicans Nrm1/Whi5 homologue in cell cycle gene expression and DNA replication stress response. Mol Microbiol 84(4):778-94 |
| Hussein B, et al. (2011) G1/S Transcription Factor Orthologues Swi4p and Swi6p Are Important but Not Essential for Cell Proliferation and Influence Hyphal Development in the Fungal Pathogen Candida albicans. Eukaryot Cell 10(3):384-97 |
| Moriya H, et al. (2006) In vivo robustness analysis of cell division cycle genes in Saccharomyces cerevisiae. PLoS Genet 2(7):e111 |
| van der Felden J, et al. (2014) The Transcription Factors Tec1 and Ste12 Interact with Coregulators Msa1 and Msa2 To Activate Adhesion and Multicellular Development. Mol Cell Biol 34(12):2283-2293 |
| Bahler J (2005) Cell-cycle control of gene expression in budding and fission yeast. Annu Rev Genet 39:69-94 |
| Verdicchio MP and Kim S (2011) Identifying targets for intervention by analyzing basins of attraction. Pac Symp Biocomput ():350-61 |
| Ear PH and Michnick SW (2009) A general life-death selection strategy for dissecting protein functions. Nat Methods 6(11):813-6 |
| de Bruin RA, et al. (2006) Constraining G1-specific transcription to late G1 phase: the MBF-associated corepressor Nrm1 acts via negative feedback. Mol Cell 23(4):483-96 |
| Galdieri L, et al. (2014) Protein acetylation and acetyl coenzyme a metabolism in budding yeast. Eukaryot Cell 13(12):1472-83 |
| Keles S, et al. (2004) Regulatory motif finding by logic regression. Bioinformatics 20(16):2799-811 |