Research Topics
| Oscar AparicioSummaryAffiliation: University of Southern California Country: USA Publications
Research Grants
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Detail Information
Publications
Swe1 regulation and transcriptional control restrict the activity of mitotic cyclins toward replication proteins in Saccharomyces cerevisiaeFangfang Hu
Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089 2910, USA
Proc Natl Acad Sci U S A 102:8910-5. 2005..Hence, Swe1 appears to reinforce the temporal activity of cyclins established through transcriptional control. The conserved nature of CDK function suggests that similar mechanisms regulate CDK specificity in multicellular organisms...- Location, location, location: it's all in the timing for replication originsOscar M Aparicio
Molecular and Computational Biology Program, University of Southern California, Los Angeles, California 90089, USA
Genes Dev 27:117-28. 2013..The mechanisms that control the spatial organization of replication origins have potential impacts for genome regulation beyond replication... - Genome-wide mapping of ORC and Mcm2p binding sites on tiling arrays and identification of essential ARS consensus sequences in S. cerevisiaeWeihong Xu
Molecular and Computational Biology Program, University of Southern California, Los Angeles, CA, USA
BMC Genomics 7:276. 2006..However, an ACS is not sufficient for origin function and the majority of ACS matches do not function as ORC binding sites, complicating the specific identification of these sites... - Strategies for analyzing highly enriched IP-chip datasetsSimon R V Knott
Molecular and Computational Biology Program, University of Southern California, Ray Irani Hall, University Park Campus, Los Angeles, CA 90089 2910, USA
BMC Bioinformatics 10:305. 2009..Array data from the latter studies typically have a high proportion of enriched probes whose signals vary considerably (due to heterogeneity in the cell population), and this makes their normalization and downstream analysis difficult... - Tackling an essential problem in functional proteomics of Saccharomyces cerevisiaeOscar M Aparicio
Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089 1340, USA
Genome Biol 4:230. 2003..A new study has adapted a simple method for creating conditional alleles to allow large-scale analysis of essential genes in Saccharomyces cerevisiae and has identified a role in DNA replication for a newly identified protein complex... - The Rpd3-Sin3 histone deacetylase regulates replication timing and enables intra-S origin control in Saccharomyces cerevisiaeJennifer G Aparicio
Department of Biological Sciences, University of Southern California, 835 W 37th St, SHS172, Los Angeles, CA 90089 1340, USA
Mol Cell Biol 24:4769-80. 2004..This supports growing evidence that for much of the S. cerevisiae genome transcription and replication timing are not linked... - Rad53 regulates replication fork restart after DNA damage in Saccharomyces cerevisiaeShawn J Szyjka
Molecular and Computational Biology Program, University of Southern California, Los Angeles, California 90089, USA
Genes Dev 22:1906-20. 2008..We propose a model for regulation of replication fork progression through damaged DNA involving a cycle of Rad53 activation and deactivation that coordinates replication restart with DNA repair... 
Chromatin immunoprecipitation for determining the association of proteins with specific genomic sequences in vivoOscar Aparicio
University of Southern California, Los Angeles, California, USA
Curr Protoc Mol Biol . 2005..in this unit describes the ChIP procedure for Saccharomyces cerevisiae; describes the corresponding steps for mammalian cells...
ChIP-chip to analyze the binding of replication proteins to chromatin using oligonucleotide DNA microarraysChristopher J Viggiani
Molecular and Computational Biology Program, University of Southern California, Los Angeles, CA, USA
Methods Mol Biol 521:255-78. 2009..We also outline general protocols for data analysis; however, microarray data analyses usually must be tailored specifically for individual studies, depending on experimental design, microarray format, and data quality...- Genome-wide replication profiles indicate an expansive role for Rpd3L in regulating replication initiation timing or efficiency, and reveal genomic loci of Rpd3 function in Saccharomyces cerevisiaeSimon R V Knott
Molecular and Computational Biology Program, University of Southern California, Los Angeles, California 90089, USA
Genes Dev 23:1077-90. 2009..Our results also reveal a novel and complementary genomic map of Rpd3L- and Rpd3S-regulated chromosomal loci... - Cell cycle execution point analysis of ORC function and characterization of the checkpoint response to ORC inactivation in Saccharomyces cerevisiaeDaniel G Gibson
Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California, Los Angeles, California 90089 2910, USA
Genes Cells 11:557-73. 2006..We discuss the potential significance of these overlapping checkpoints and the impact of our findings on previously postulated role(s) of ORCs in other cell cycle functions... - Diminished S-phase cyclin-dependent kinase function elicits vital Rad53-dependent checkpoint responses in Saccharomyces cerevisiaeDaniel G Gibson
Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089 1340, USA
Mol Cell Biol 24:10208-22. 2004..Together, our findings indicate that deregulation of S-CDK function has the potential to exacerbate genomic instability by reducing replication origin usage... - New vectors for simplified construction of BrdU-Incorporating strains of Saccharomyces cerevisiaeChristopher J Viggiani
Molecular and Computational Biology Program, University of Southern California, Los Angeles, CA 90089-2910, USA
Yeast 23:1045-51. 2006..These vectors ease strain construction and maintenance, thereby facilitating routine use of BrdU for analysis in yeast... - Mrc1 is required for normal progression of replication forks throughout chromatin in S. cerevisiaeShawn J Szyjka
Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California, Los Angeles, California 90089, USA
Mol Cell 19:691-7. 2005..These findings elucidate a central role for Mrc1 in normal replisome function, which is distinct from its role as a checkpoint mediator, but nevertheless critical to genome stability... - Identification of Clb2 residues required for Swe1 regulation of Clb2-Cdc28 in Saccharomyces cerevisiaeFangfang Hu
Molecular and Computational Biology Program, University of Southern California, Los Angeles, California 90089 2910, USA
Genetics 179:863-74. 2008.... - Chromatin immunoprecipitation for determining the association of proteins with specific genomic sequences in vivoOscar Aparicio
University of Southern California, Los Angeles, California, USA
Curr Protoc Cell Biol . 2004..This unit describes the ChIP protocol for Saccharomyces cerevisiae; however, it is also applicable to other organisms... - To promote and protect: coordinating DNA replication and transcription for genome stabilitySimon R V Knott
Molecular and Computational Biology Program, University of Southern California, Los Angeles, CA, USA
Epigenetics 4:362-5. 2009..We also discuss future research directions that should lead to a better understanding of these mechanisms and their significance to faithful genome propagation and cellular differentiation... - Functional annotation and network reconstruction through cross-platform integration of microarray dataXianghong Jasmine Zhou
Nat Biotechnol 23:238-43. 2005..Experiments reported in the literature and performed in our lab support a significant number of our predictions... - H2A.Z functions to regulate progression through the cell cycleNamrita Dhillon
Unit on Chromatin and Transcription, National Institute of Child Health and Human Development, National Institutes of Health, Bldg 18T, Rm 106, 18 Library Dr, Bethesda, Maryland 20892, USA
Mol Cell Biol 26:489-501. 2006..We also found that H2A.Z localized to the promoters of cyclin genes, and cells lacking H2A.Z were delayed in the induction of these cyclin genes. Several different models are proposed to explain these observations... - Pph3-Psy2 is a phosphatase complex required for Rad53 dephosphorylation and replication fork restart during recovery from DNA damageBryan M O'Neill
Departments of Chemistry and Cell Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
Proc Natl Acad Sci U S A 104:9290-5. 2007..These findings suggest that Rad53 regulates replication fork restart and initiation of late firing origins independently and that regulation of these processes is mediated by specific Rad53 phosphatases...
Research Grants
- Chromatin and Cell Cycle Regulation of ORC FunctionOscar Aparicio; Fiscal Year: 2007..abstract_text> ..
- Analysis of replication fork restart and checkpoint regulation after DNA damageOscar M Aparicio; Fiscal Year: 2010..These checkpoint and DNA repair mechanisms are critical to the prevention of genome instabilities that can lead to the development of cancers and other genetic disorders. ..
- Analysis of replication fork restart and checkpoint regulation after DNA damageOscar Aparicio; Fiscal Year: 2009..These checkpoint and DNA repair mechanisms are critical to the prevention of genome instabilities that can lead to the development of cancers and other genetic disorders. ..