Publications

• Lu, Y., Mahony, S., Benos, P., Rosenfeld, R., Simon, I., Breeden, LL, Bar-Joseph, Z. Combined analysis reveals a core set of cycling genes, Genome Biology (2007)  8:R146-R157 , Published

• Braun, K, Breeden, LL (2007) Nascent transcription of MCM2-7 is important for nuclear localizaation of the minichromosome maintenance complex in G1, Molecular Biology of the Cell, 18, 1447, Published

• Pramila, T, Wu, W, Miles, S, Noble, WS, Breeden, LL (2006) The Forkhead transcription factor Hcm1 regulates chromosome segregation genes and fills the S-phase gap in the transcriptional circuitry of the cell cycle, Genes Dev., 15(20)2266-78, Published

• Guo, Y, Breeden, LL (2006) Analysis of cellular responses to Aflatoxin B1in yeast expressing cytochrome P450 1A2 using cDNA microarrays, Mutation Research, 593, 121-142, Published

• Zhou, C., Wakefield, JC, Breeden, LL, Bayesian Analysis of Cell-Cycle Gene Expression Data, , 1 Jan 2006

• Zhou, C, Wakefield, J, Breeden, LL (2006) , Bayesian analysis of cell cycle gene expression data, Bayesian Inference for Gene Expression and Proteomics, Cambridge University Press, 1-24, Published

• Li, L, Quinton, T, Miles, S, Breeden, LL (2005) Genetic interactions between mediator and the late G1-specific transcription factor Swi6 in Saccharomyces cerevisiae, Genetics, 171(2)477-88, Published

• Guo Y, Breeden LL, Zarbl H, Preston BD, Eaton DL (Jul 2005) Expression of a human cytochrome p450 in yeast permits analysis of pathways for response to and repair of aflatoxin-induced DNA damage, Molecular and Cellular Biology, 25(14)5823-33 

• Mai, B., Breeden, LL (2005) , Identification of target genes of a yeast transcriptional repressor, Methods in Molecular Biology, Published

• Schaefer JB, Breeden LL (Jun 2004) RB from a bud's eye view, Cell, 117(7)849-50 

• Sidorova JM, Breeden LL (Nov 2003) Precocious G1/S transitions and genomic instability: the origin connection, Mutation Research, 532(1-2)5-19 

• Sidorova JM, Breeden LL (May 2003) Rad53 checkpoint kinase phosphorylation site preference identified in the Swi6 protein of Saccharomyces cerevisiae, Molecular and Cellular Biology, 23(10)3405-16 

• Breeden L.L., Periodic Transcription: A Cycle within a Cycle, Current Biology, 12, , 6 Jan 2003

• Pramila, T., Miles, S., GuhaThakurta, D., Jemiolo, D., and L. Breeden (1 Dec 2002) Conserved homeodomain proteins interact with MADS box protein Mcm1 to restrict ECB-dependent transcription to the M/G1 phase of the cell cycle, Genes and Development, 16, 3034-3045

• Sidorova JM, Breeden LL (January 2002) Precocious S-phase entry in budding yeast prolongs replicative state and increases dependence upon Rad53 for viability, Genetics, 160(1)123-36 

• Mai B, Miles S, Breeden LL (January 2002) Characterization of the ECB binding complex responsible for the M/G(1)-specific transcription of CLN3 and SWI4, Molecular and Cellular Biology, 22(2)430-41 

• MacKay VL, Mai B, Waters L, Breeden LL (July 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, Molecular and Cellular Biology, 21(13)4140-8 

• Zhao LP, Prentice R, Breeden L, Statistical modeling of large microarray data sets to identify stimulus-response profiles, Proceedings of the National Academy of Sciences (USA), 98(10):5631-6, 2001 

• Breeden LL (2000) Cyclin transcription: Timing is everything, Current Biology, 10(16)R586-8 
  


• Mai B, Breeden LL (Jan 2000) CLN1 and its repression by Xbp1 are important for efficient sporulation in budding yeast, Molecular and Cellular Biology, 20(2)478-87 
  
  
• Sidorova J, Breeden LL (Jan 1999) The MSN1 and NHP6A genes suppress SWI6 defects in Saccharomyces cerevisiae, Genetics, 151(1)45-55 
  
  
• Ewaskow SP, Sidorova JM, Hendle J, Emery JC, Lycan DE, Zhang KY, Breeden LL (March 1998) Mutation and modeling analysis of the Saccharomyces cerevisiae Swi6 ankyrin repeats, Biochemistry, 37(13)4437-50 

• Mai B, Breeden L (November 1997) Xbp1, a stress-induced transcriptional repressor of the Saccharomyces cerevisiae Swi4/Mbp1 family, Molecular and Cellular Biology, 17(11)6491-501 

• Sidorova JM, Breeden LL (November 1997) Rad53-dependent phosphorylation of Swi6 and down-regulation of CLN1 and CLN2 transcription occur in response to DNA damage in Saccharomyces cerevisiae, Genes and Development, 11(22)3032-45 

• McInerny CJ, Partridge JF, Mikesell GE, Creemer DP, Breeden LL (May 1997) A novel Mcm1-dependent element in the SWI4, CLN3, CDC6, and CDC47 promoters activates M/G1-specific transcription, Genes and Development, 11(10)1277-88 

• Partridge JF, Mikesell GE, Breeden LL (April 1997) Cell cycle-dependent transcription of CLN1 involves swi4 binding to MCB-like elements, Journal of Biological Chemistry, 272(14)9071-7 

• Breeden LL, Alpha-factor synchronization of budding yeast, Methods in Enzymology, 283, 332-41, 1997 

• Lycan DE, Stafford KA, Bollinger W, Breeden LL (May 1996) A new Saccharomyces cerevisiae ankyrin repeat-encoding gene required for a normal rate of cell proliferation, Gene, 171(1)33-40 

• Breeden L, Start-specific transcription in yeast, Current Topics in Microbiology and Immunology, 208, 95-127, 1996 

• Sidorova JM, Mikesell GE, Breeden LL (December 1995) Cell cycle-regulated phosphorylation of Swi6 controls its nuclear localization, Molecular Biology of the Cell, 6(12)1641-58 

• Lycan D, Mikesell G, Bunger M, Breeden L (November 1994) Differential effects of Cdc68 on cell cycle-regulated promoters in Saccharomyces cerevisiae, Molecular and Cellular Biology, 14(11)7455-65 

• Foster R, Mikesell GE, Breeden L (June 1993) Multiple SW16-dependent cis-acting elements control SWI4 transcription through the cell cycle, Molecular and Cellular Biology, 13(6)3792-801 

• Sidorova J, Breeden L (February 1993) Analysis of the SW14/SW16 protein complex, which directs G1/S-specific transcription in Saccharomyces cerevisiae, Molecular and Cellular Biology, 13(2)1069-77 

• Lowndes NF, Johnson AL, Breeden L, Johnston LH (June 1992) SWI6 protein is required for transcription of the periodically expressed DNA synthesis genes in budding yeast, Nature, 357(6378)505-8 

• Breeden L, Mikesell GE (July 1991) Cell cycle-specific expression of the SWI4 transcription factor is required for the cell cycle regulation of HO transcription, Genes and Development, 5(7)1183-90 

• Breeden L (September 1988) Cell cycle-regulated promoters in budding yeast, Trends in Genetics, 4(9)249-53 

• Breeden L, Nasmyth K (October 1987) Similarity between cell-cycle genes of budding yeast and fission yeast and the Notch gene of Drosophila, Nature, 329(6140)651-4 

• Smith D, Breeden L, Farrell E, Yarus M (June 1987) The bases of the tRNA anticodon loop are independent by genetic criteria, Nucleic Acids Research, 15(11)4669-86 

• Breeden L, Nasmyth K (February 1987) Cell cycle control of the yeast HO gene: cis- and trans-acting regulators, Cell, 48(3)389-97 

• Yarus M, Cline SW, Wier P, Breeden L, Thompson RC (November 1986) Actions of the anticodon arm in translation on the phenotypes of RNA mutants, Journal of Molecular Biology, 192(2)235-55 

• Brand AH, Breeden L, Abraham J, Sternglanz R, Nasmyth K (May 1985) Characterization of a 'silencer' in yeast: a DNA sequence with properties opposite to those of a transcriptional enhancer, Cell, 41(1)41-8 

• Breeden L, Nasmyth K, Regulation of the yeast HO gene, Cold Spring Harbor Symposia On Quantitative Biology, 50, 643-50, 1985 

• Yarus M, Breeden L (September 1981) Mutants of Su 7 tRNA include a functional tRNA with an altered T pseudo uracil CG sequence, Cell, 25(3)815-23 

• Breeden L, Yarus M (1980) Mutations that overcome plasmid-mediated relaxation affect (p)ppGpp, Molecular and General Genetics, 179(1)119-24 

• Breeden L, Yarus M, Cline S (1980) A cloned suppressor tRNA gene relaxes stringent control, Molecular and General Genetics, 179(1)125-33