The 256 papers which experimentally study the biological roles of both TFs of the PCTFP (Swi4-Swi6)
Taba MR, et al. (1991) Changes in a SWI4,6-DNA-binding complex occur at the time of HO gene activation in yeast. Genes Dev 5(11):2000-13
Poirel CL, et al. (2013) Top-down network analysis to drive bottom-up modeling of physiological processes. J Comput Biol 20(5):409-18
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
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
Zheng J, et al. (2010) Epistatic relationships reveal the functional organization of yeast transcription factors. Mol Syst Biol 6():420
Haase SB and Wittenberg C (2014) Topology and control of the cell-cycle-regulated transcriptional circuitry. Genetics 196(1):65-90
Mager WH and Siderius M (2002) Novel insights into the osmotic stress response of yeast. FEMS Yeast Res 2(3):251-7
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
Andrews BJ and Herskowitz I (1989) The yeast SWI4 protein contains a motif present in developmental regulators and is part of a complex involved in cell-cycle-dependent transcription. Nature 342(6251):830-3
Breeden L and Nasmyth K (1987) Similarity between cell-cycle genes of budding yeast and fission yeast and the Notch gene of Drosophila. Nature 329(6140):651-4
Cross FR, et al. (1994) Role of Swi4 in cell cycle regulation of CLN2 expression. Mol Cell Biol 14(7):4779-87
Ewaskow SP, et al. (1998) Mutation and modeling analysis of the Saccharomyces cerevisiae Swi6 ankyrin repeats. Biochemistry 37(13):4437-50
Levine K, et al. (1996) Saccharomyces cerevisiae G1 cyclins differ in their intrinsic functional specificities. Mol Cell Biol 16(12):6794-803
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
Mathiasen DP and Lisby M (2014) Cell cycle regulation of homologous recombination in Saccharomyces cerevisiae. FEMS Microbiol Rev 38(2):172-84
Cook M and Tyers M (2007) Size control goes global. Curr Opin Biotechnol 18(4):341-50
Sidorova J and Breeden L (1993) Analysis of the SWI4/SWI6 protein complex, which directs G1/S-specific transcription in Saccharomyces cerevisiae. Mol Cell Biol 13(2):1069-77
Busnelli S, et al. (2013) Snf1/AMPK promotes SBF and MBF-dependent transcription in budding yeast. Biochim Biophys Acta 1833(12):3254-64
Imamura Y, et al. (2014) 3,6-Epidioxy-1,10-bisaboladiene inhibits G1 -specific transcription through Swi4/Swi6 and Mbp1/Swi6 via the Hog1 stress pathway in yeast. FEBS J 281(20):4612-21
Merrill GF, et al. (1992) DNA synthesis control in yeast: an evolutionarily conserved mechanism for regulating DNA synthesis genes? Bioessays 14(12):823-30
Iyer VR, et al. (2001) Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature 409(6819):533-8
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
Hamann T (2015) The plant cell wall integrity maintenance mechanism - A case study of a cell wall plasma membrane signaling network. Phytochemistry 112():100-109
Taberner FJ and Igual JC (2010) Yeast karyopherin Kap95 is required for cell cycle progression at Start. BMC Cell Biol 11():47
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
Harrington LA and Andrews BJ (1996) Binding to the yeast SwI4,6-dependent cell cycle box, CACGAAA, is cell cycle regulated in vivo. Nucleic Acids Res 24(4):558-65
Cross F and McKinney J (1992) Is START a switch? Ciba Found Symp 170:20-5; discussion 25-9
Jorgensen P and Tyers M (2004) How cells coordinate growth and division. Curr Biol 14(23):R1014-27
Tsankov AM, et al. (2010) The role of nucleosome positioning in the evolution of gene regulation. PLoS Biol 8(7):e1000414
Elsztein C, et al. (2011) The resistance of the yeast Saccharomyces cerevisiae to the biocide polyhexamethylene biguanide: involvement of cell wall integrity pathway and emerging role for YAP1. BMC Mol Biol 12(1):38
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
Enserink JM, et al. (2006) Checkpoint proteins control morphogenetic events during DNA replication stress in Saccharomyces cerevisiae. J Cell Biol 175(5):729-41
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
Malagon F and Jensen TH (2008) The T body, a new cytoplasmic RNA granule in Saccharomyces cerevisiae. Mol Cell Biol 28(19):6022-32
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
Holloway DT, et al. (2007) Machine learning for regulatory analysis and transcription factor target prediction in yeast. Syst Synth Biol 1(1):25-46
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
Tong AH, et al. (2004) Global mapping of the yeast genetic interaction network. Science 303(5659):808-13
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
Kim KY, et al. (2010) Yeast Mpk1 cell wall integrity mitogen-activated protein kinase regulates nucleocytoplasmic shuttling of the Swi6 transcriptional regulator. Mol Biol Cell 21(9):1609-19
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
Amon A, et al. (1993) Mechanisms that help the yeast cell cycle clock tick: G2 cyclins transcriptionally activate G2 cyclins and repress G1 cyclins. Cell 74(6):993-1007
Simon I, et al. (2001) Serial regulation of transcriptional regulators in the yeast cell cycle. Cell 106(6):697-708
Andrews BJ and Moore LA (1992) Interaction of the yeast Swi4 and Swi6 cell cycle regulatory proteins in vitro. Proc Natl Acad Sci U S A 89(24):11852-6
Tripodi F, et al. (2013) Protein Kinase CK2 Holoenzyme Promotes Start-Specific Transcription in Saccharomyces cerevisiae. Eukaryot Cell 12(9):1271-80
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
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
Flick K and Wittenberg C (2005) Multiple pathways for suppression of mutants affecting G1-specific transcription in Saccharomyces cerevisiae. Genetics 169(1):37-49
Li L, et al. (2005) Genetic interactions between mediator and the late G1-specific transcription factor Swi6 in Saccharomyces cerevisiae. Genetics 171(2):477-88
Cosma MP, et al. (1999) Ordered recruitment of transcription and chromatin remodeling factors to a cell cycle- and developmentally regulated promoter. Cell 97(3):299-311
Becskei A, et al. (2005) Contributions of low molecule number and chromosomal positioning to stochastic gene expression. Nat Genet 37(9):937-44
Garcia R, et al. (2004) The global transcriptional response to transient cell wall damage in Saccharomyces cerevisiae and its regulation by the cell integrity signaling pathway. J Biol Chem 279(15):15183-95
Epstein CB and Cross FR (1994) Genes that can bypass the CLN requirement for Saccharomyces cerevisiae cell cycle START. Mol Cell Biol 14(3):2041-7
Wu WS and Li WH (2008) Systematic identification of yeast cell cycle transcription factors using multiple data sources. BMC Bioinformatics 9:522
Toone WM, et al. (1995) Rme1, a negative regulator of meiosis, is also a positive activator of G1 cyclin gene expression. EMBO J 14(23):5824-32
Tanaka K, et al. (1992) A new cdc gene required for S phase entry of Schizosaccharomyces pombe encodes a protein similar to the cdc 10+ and SWI4 gene products. EMBO J 11(13):4923-32
Yarrington RM, et al. (2015) Spatiotemporal cascade of transcription factor binding required for promoter activation. Mol Cell Biol 35(4):688-98
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
Golla U, et al. (2015) Molecular Cytotoxicity Mechanisms of Allyl Alcohol (Acrolein) in Budding Yeast. Chem Res Toxicol 28(6):1246-64
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
Chavel CA, et al. (2010) Multiple signals converge on a differentiation MAPK pathway. PLoS Genet 6(3):e1000883
Stevens SW, et al. (2002) Composition and functional characterization of the yeast spliceosomal penta-snRNP. Mol Cell 9(1):31-44
Breeden LL (2003) Periodic transcription: a cycle within a cycle. Curr Biol 13(1):R31-8
Vohradsky J (2012) Stochastic simulation for the inference of transcriptional control network of yeast cyclins genes. Nucleic Acids Res 40(15):7096-103
Breeden L and Nasmyth K (1987) Cell cycle control of the yeast HO gene: cis- and trans-acting regulators. Cell 48(3):389-97
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
Gormley M, et al. (2011) An integrated framework to model cellular phenotype as a component of biochemical networks. Adv Bioinformatics 2011():608295
Haarer B, et al. (2013) Actin dosage lethality screening in yeast mediated by selective ploidy ablation reveals links to urmylation/wobble codon recognition and chromosome stability. G3 (Bethesda) 3(3):553-61
Galdieri L, et al. (2016) Reduced histone expression or defect in chromatin assembly induce respiration. Mol Cell Biol ()
Koch C, et al. (1999) A role for Ctr9p and Paf1p in the regulation G1 cyclin expression in yeast. Nucleic Acids Res 27(10):2126-34
Corcoles-Saez I, et al. (2012) Low temperature highlights the functional role of the cell wall integrity pathway in the regulation of growth in Saccharomyces cerevisiae. Biochem J 446(3):477-88
Yu T and Li KC (2005) Inference of transcriptional regulatory network by two-stage constrained space factor analysis. Bioinformatics 21(21):4033-8
Wang G, et al. (2010) Process-based network decomposition reveals backbone motif structure. Proc Natl Acad Sci U S A 107(23):10478-83
Foster R, et al. (1993) Multiple SWI6-dependent cis-acting elements control SWI4 transcription through the cell cycle. Mol Cell Biol 13(6):3792-801
Heinisch JJ, et al. (1999) The protein kinase C-mediated MAP kinase pathway involved in the maintenance of cellular integrity in Saccharomyces cerevisiae. Mol Microbiol 32(4):671-80
Yu Y, et al. (2003) Regulation of TATA-binding protein binding by the SAGA complex and the Nhp6 high-mobility group protein. Mol Cell Biol 23(6):1910-21
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
Ruotolo R, et al. (2010) Chemogenomic profiling of the cellular effects associated with histone H3 acetylation impairment by a quinoline-derived compound. Genomics 96(5):272-80
Miller C, et al. (2011) Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast. Mol Syst Biol 7():458
Taoka M, et al. (1992) A rat cerebellar protein containing the cdc10/SWI6 motif. Eur J Biochem 207(2):615-20
Andrews BJ and Herskowitz I (1989) Identification of a DNA binding factor involved in cell-cycle control of the yeast HO gene. Cell 57(1):21-9
Chen H, et al. (2014) Highly sensitive inference of time-delayed gene regulation by network deconvolution. BMC Syst Biol 8 Suppl 4():S6
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
Rodriguez-Pena JM, et al. (2010) The high-osmolarity glycerol (HOG) and cell wall integrity (CWI) signalling pathways interplay: a yeast dialogue between MAPK routes. Yeast 27(8):495-502
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
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
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
Serrano R, et al. (2006) Signaling alkaline pH stress in the yeast Saccharomyces cerevisiae through the Wsc1 cell surface sensor and the Slt2 MAPK pathway. J Biol Chem 281(52):39785-95
Chen KC, et al. (2000) Kinetic analysis of a molecular model of the budding yeast cell cycle. Mol Biol Cell 11(1):369-91
Dohrmann PR, et al. (1992) Parallel pathways of gene regulation: homologous regulators SWI5 and ACE2 differentially control transcription of HO and chitinase. Genes Dev 6(1):93-104
Moretto F, et al. (2013) A pharmaco-epistasis strategy reveals a new cell size controlling pathway in yeast. Mol Syst Biol 9():707
Choy JS, et al. (2015) A Genome-Wide Screen with Nicotinamide to Identify Sirtuin-Dependent Pathways in Saccharomyces cerevisiae. G3 (Bethesda) 6(2):485-94
Nadeem FK, et al. (2006) Pol5p, a novel binding partner to Cdc10p in fission yeast involved in rRNA production. Mol Genet Genomics 276(4):391-401
Koc A, et al. (2003) Replication-independent MCB gene induction and deoxyribonucleotide accumulation at G1/S in Saccharomyces cerevisiae. J Biol Chem 278(11):9345-52
Bermejo C, et al. (2008) The Sequential Activation of the Yeast HOG and SLT2 Pathways Is Required for Cell Survival to Cell Wall Stress. Mol Biol Cell 19(3):1113-24
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
Ouedraogo JP, et al. (2011) Survival Strategies of Yeast and Filamentous Fungi against the Antifungal Protein AFP. J Biol Chem 286(16):13859-68
Horak CE, et al. (2002) Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae. Genes Dev 16(23):3017-33
de Lichtenberg U, et al. (2005) New weakly expressed cell cycle-regulated genes in yeast. Yeast 22(15):1191-201
Coic E, et al. (2006) Cell cycle-dependent regulation of Saccharomyces cerevisiae donor preference during mating-type switching by SBF (Swi4/Swi6) and Fkh1. Mol Cell Biol 26(14):5470-80
Wang H, et al. (2009) Recruitment of Cln3 cyclin to promoters controls cell cycle entry via histone deacetylase and other targets. PLoS Biol 7(9):e1000189
Huang D, et al. (2009) Dual regulation by pairs of cyclin-dependent protein kinases and histone deacetylases controls G1 transcription in budding yeast. PLoS Biol 7(9):e1000188
Verma R, et al. (1992) Regulation of the yeast DNA replication genes through the Mlu I cell cycle box is dependent on SWI6. Proc Natl Acad Sci U S A 89(20):9479-83
LaFayette SL, et al. (2010) PKC signaling regulates drug resistance of the fungal pathogen Candida albicans via circuitry comprised of Mkc1, calcineurin, and Hsp90.LID - e1001069 [pii] PLoS Pathog 6(8)
Levin DE (2011) Regulation of Cell Wall Biogenesis in Saccharomyces cerevisiae: The Cell Wall Integrity Signaling Pathway. Genetics 189(4):1145-75
Taberner FJ, et al. (2009) Spatial regulation of the start repressor Whi5. Cell Cycle 8(18):3010-8
Heinisch JJ and Dufrene YF (2010) Is there anyone out there?-Single-molecule atomic force microscopy meets yeast genetics to study sensor functions. Integr Biol (Camb) 2(9):408-15
Yu Y, et al. (2000) Architectural transcription factors and the SAGA complex function in parallel pathways to activate transcription. Mol Cell Biol 20(7):2350-7
Madden K, et al. (1997) SBF cell cycle regulator as a target of the yeast PKC-MAP kinase pathway. Science 275(5307):1781-4
Rodicio R and Heinisch JJ (2010) Together we are strong-cell wall integrity sensors in yeasts. Yeast 27(8):531-40
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
Workman CT, et al. (2006) A systems approach to mapping DNA damage response pathways. Science 312(5776):1054-9
Alarcon T and Tindall MJ (2007) Modelling cell growth and its modulation of the G1/S transition. Bull Math Biol 69(1):197-214
de Nadal E and Posas F (2011) Elongating under Stress. Genet Res Int 2011():326286
Venters BJ, et al. (2011) A comprehensive genomic binding map of gene and chromatin regulatory proteins in Saccharomyces. Mol Cell 41(4):480-92
Qi Y, et al. (2008) Finding friends and enemies in an enemies-only network: A graph diffusion kernel for predicting novel genetic interactions and co-complex membership from yeast genetic interactions. Genome Res 18(12):1991-2004
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
Sillje HH, et al. (1997) Effects of different carbon fluxes on G1 phase duration, cyclin expression, and reserve carbohydrate metabolism in Saccharomyces cerevisiae. J Bacteriol 179(21):6560-5
Urnov FD (2002) A feel for the template: zinc finger protein transcription factors and chromatin. Biochem Cell Biol 80(3):321-33
Dionne I, et al. (2013) Cell cycle-dependent transcription factors control the expression of yeast telomerase RNA. RNA 19(7):992-1002
Schmoller KM and Skotheim JM (2015) The Biosynthetic Basis of Cell Size Control. Trends Cell Biol 25(12):793-802
Queralt E and Igual JC (2004) Functional distinction between Cln1p and Cln2p cyclins in the control of the Saccharomyces cerevisiae mitotic cycle. Genetics 168(1):129-40
Mao K, et al. (2011) Two MAPK-signaling pathways are required for mitophagy in Saccharomyces cerevisiae. J Cell Biol 193(4):755-67
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
Gustin MC, et al. (1998) MAP kinase pathways in the yeast Saccharomyces cerevisiae. Microbiol Mol Biol Rev 62(4):1264-300
Bristow SL, et al. (2014) Cell cycle-regulated transcription: effectively using a genomics toolbox. Methods Mol Biol 1170():3-27
Kim KY, et al. (2008) Yeast Mpk1 mitogen-activated protein kinase activates transcription through Swi4/Swi6 by a noncatalytic mechanism that requires upstream signal. Mol Cell Biol 28(8):2579-89
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
Zhao XM, et al. (2008) Uncovering signal transduction networks from high-throughput data by integer linear programming. Nucleic Acids Res 36(9):e48
Stuart D and Wittenberg C (1994) Cell cycle-dependent transcription of CLN2 is conferred by multiple distinct cis-acting regulatory elements. Mol Cell Biol 14(7):4788-801
Dirick L, et al. (1992) A central role for SWI6 in modulating cell cycle Start-specific transcription in yeast. Nature 357(6378):508-13
Lowndes NF, et al. (1992) SWI6 protein is required for transcription of the periodically expressed DNA synthesis genes in budding yeast. Nature 357(6378):505-8
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
Banerjee N and Zhang MQ (2003) Identifying cooperativity among transcription factors controlling the cell cycle in yeast. Nucleic Acids Res 31(23):7024-31
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
Tomson BN and Arndt KM (2013) The many roles of the conserved eukaryotic Paf1 complex in regulating transcription, histone modifications, and disease states. Biochim Biophys Acta 1829(1):116-26
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
Bertoli C, et al. (2013) Control of cell cycle transcription during G1 and S phases. Nat Rev Mol Cell Biol 14(8):518-28
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
Wang RS, et al. (2007) Inferring transcriptional regulatory networks from high-throughput data. Bioinformatics 23(22):3056-3064
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
Santisteban MS, et al. (1997) Histone octamer function in vivo: mutations in the dimer-tetramer interfaces disrupt both gene activation and repression. EMBO J 16(9):2493-506
MacKay VL, et al. (2001) Early cell cycle box-mediated transcription of CLN3 and SWI4 contributes to the proper timing of the G(1)-to-S transition in budding yeast. Mol Cell Biol 21(13):4140-8
Lai WK and Buck MJ (2013) An integrative approach to understanding the combinatorial histone code at functional elements. Bioinformatics 29(18):2231-7
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
Breeden L (1996) Start-specific transcription in yeast. Curr Top Microbiol Immunol 208():95-127
Cote P, et al. (2009) Transcriptional analysis of the Candida albicans cell cycle. Mol Biol Cell 20(14):3363-73
Bhoite LT, et al. (2001) The Swi5 activator recruits the Mediator complex to the HO promoter without RNA polymerase II. Genes Dev 15(18):2457-69
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
Stephan O and Koch C (2009) Sin3 is involved in cell size control at Start in Saccharomyces cerevisiae. FEBS J 276(14):3810-24
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
Haber JE (2012) Mating-Type Genes and MAT Switching in Saccharomyces cerevisiae. Genetics 191(1):33-64
Kato M, et al. (2004) Identifying combinatorial regulation of transcription factors and binding motifs. Genome Biol 5(8):R56
Kang X, et al. (2014) Pump-free multi-well-based microfluidic system for high-throughput analysis of size-control relative genes in budding yeast. Integr Biol (Camb) 6(7):685-93
Primig M, et al. (1992) Anatomy of a transcription factor important for the start of the cell cycle in Saccharomyces cerevisiae. Nature 358(6387):593-7
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
Sidorova JM and Breeden LL (1997) Rad53-dependent phosphorylation of Swi6 and down-regulation of CLN1 and CLN2 transcription occur in response to DNA damage in Saccharomyces cerevisiae. Genes Dev 11(22):3032-45
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. (2011) Overexpression limits of fission yeast cell-cycle regulators in vivo and in silico. Mol Syst Biol 7():556
Baetz K, et al. (2001) Transcriptional coregulation by the cell integrity mitogen-activated protein kinase Slt2 and the cell cycle regulator Swi4. Mol Cell Biol 21(19):6515-28
Gallo CA, et al. (2011) Discovering Time-Lagged Rules from Microarray Data using Gene Profile Classifiers. BMC Bioinformatics 12(1):123
Harris MR, et al. (2013) Binding specificity of the G1/S transcriptional regulators in budding yeast. PLoS One 8(4):e61059
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
Nishida N, et al. (2014) Activation of signaling pathways related to cell wall integrity and multidrug resistance by organic solvent in Saccharomyces cerevisiae. Curr Genet 60(3):149-62
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
Kaluarachchi Duffy S, et al. (2012) Exploring the yeast acetylome using functional genomics. Cell 149(4):936-48
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
Zanders ED (2000) Gene expression analysis as an aid to the identification of drug targets. Pharmacogenomics 1(4):375-84
Nasmyth K and Dirick L (1991) The role of SWI4 and SWI6 in the activity of G1 cyclins in yeast. Cell 66(5):995-1013
Bai L, et al. (2010) Nucleosome-depleted regions in cell-cycle-regulated promoters ensure reliable gene expression in every cell cycle. Dev Cell 18(4):544-55
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
Andrews BJ and Mason SW (1993) Gene expression and the cell cycle: a family affair. Science 261(5128):1543-4
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