If you use OriDB please cite our paper! The following studies cite OriDB:
| 1. | Initiation of DNA replication: functional and evolutionary aspects. John A Bryant and Stephen J Aves Ann Bot (2011), 107(7):1119-26 |
| 2. | The effect of Ku on telomere replication time is mediated by telomere length but is independent of histone tail acetylation. Hui-Yong Lian, E Douglas Robertson, Shin-ichiro Hiraga, Gina M Alvino, David Collingwood, Heather J McCune, Akila Sridhar, Bonita J Brewer, M K Raghuraman, Anne D Donaldson Mol Biol Cell (2011), 22(10):1753-65 |
| 3. | Nuclear mitochondrial DNA activates replication in Saccharomyces cerevisiae. Laurent Chatre and Miria Ricchetti PLoS One (2011), 6(3):e17235 |
| 4. | Nucleosomes in the neighborhood: new roles for chromatin modifications in replication origin control. Elizabeth Suzanne Dorn and Jeanette Gowen Cook Epigenetics (2011), 6(5):552-9 |
| 5. | From sequence to function: Insights from natural variation in budding yeasts. Conrad A Nieduszynski and Gianni Liti Biochim Biophys Acta (2011), 1810(10):959-66 |
| 6. | Replication origins and timing of temporal replication in budding yeast: how to solve the conundrum? Matteo Barberis, Thomas W Spiesser, Edda Klipp Curr Genomics (2010), 11(3):199-211 |
| 7. | Analysis of replication profiles reveals key role of RFC-Ctf18 in yeast replication stress response. Laure Crabbé, Aubin Thomas, Véronique Pantesco, John De Vos, Philippe Pasero, Armelle Lengronne Nat Struct Mol Biol (2010), 17(11):1391-7 |
| 8. | Relicensing of transcriptionally inactivated replication origins in budding yeast. Marko Lõoke, Jüri Reimand, Tiina Sedman, Juhan Sedman, Lari Järvinen, Signe Värv, Kadri Peil, Kersti Kristjuhan, Jaak Vilo, Arnold Kristjuhan J Biol Chem (2010), 285(51):40004-11 |
| 9. | Genome-wide model for the normal eukaryotic DNA replication fork. Andres A Larrea, Scott A Lujan, Stephanie A Nick McElhinny, Piotr A Mieczkowski, Michael A Resnick, Dmitry A Gordenin, Thomas A Kunkel Proc Natl Acad Sci U S A (2010), 107(41):17674-9 |
| 10. | Gene-specific RNA polymerase II phosphorylation and the CTD code. Hyunmin Kim, Benjamin Erickson, Weifei Luo, David Seward, Joel H Graber, David D Pollock, Paul C Megee, David L Bentley Nat Struct Mol Biol (2010), 17(10):1279-86 |
| 11. | Diversity of eukaryotic DNA replication origins revealed by genome-wide analysis of chromatin structure. Nicolas M Berbenetz, Corey Nislow, Grant W Brown PLoS Genet (2010), 6(9): |
| 12. | Modeling genome-wide replication kinetics reveals a mechanism for regulation of replication timing. Scott Cheng-Hsin Yang, Nicholas Rhind, John Bechhoefer Mol Syst Biol (2010), 6():404 |
| 13. | Confidently estimating the number of DNA replication origins. Anand Bhaskar and Uri Keich Stat Appl Genet Mol Biol (2010), 9(1):Article28 |
| 14. | G-quadruplex DNA sequences are evolutionarily conserved and associated with distinct genomic features in Saccharomyces cerevisiae. John A Capra, Katrin Paeschke, Mona Singh, Virginia A Zakian PLoS Comput Biol (2010), 6(7):e1000861 |
| 15. | Replication stress checkpoint signaling controls tRNA gene transcription. Vesna C Nguyen, Brett W Clelland, Darren J Hockman, Sonya L Kujat-Choy, Holly E Mewhort, Michael C Schultz Nat Struct Mol Biol (2010), 17(8):976-81 |
| 16. | The conserved bromo-adjacent homology domain of yeast Orc1 functions in the selection of DNA replication origins within chromatin. Philipp Müller, Sookhee Park, Erika Shor, Dana J Huebert, Christopher L Warren, Aseem Z Ansari, Michael Weinreich, Matthew L Eaton, David M MacAlpine, Catherine A Fox Genes Dev (2010), 24(13):1418-33 |
| 17. | A comprehensive genome-wide map of autonomously replicating sequences in a naive genome. Ivan Liachko, Anand Bhaskar, Chanmi Lee, Shau Chee Claire Chung, Bik-Kwoon Tye, Uri Keich PLoS Genet (2010), 6(5):e1000946 |
| 18. | Mathematical modelling of whole chromosome replication. Alessandro P S de Moura, Renata Retkute, Michelle Hawkins, Conrad A Nieduszynski Nucleic Acids Res (2010), 38(17):5623-33 |
| 19. | Fragile genomic sites are associated with origins of replication. Sara C Di Rienzi, David Collingwood, M K Raghuraman, Bonita J Brewer Genome Biol Evol (2009), 1():350-63 |
| 20. | GINS motion reveals replication fork progression is remarkably uniform throughout the yeast genome. Matthew D Sekedat, David Fenyö, Richard S Rogers, Alan J Tackett, John D Aitchison, Brian T Chait Mol Syst Biol (2010), 6():353 |
| 21. | Mathematical modelling of eukaryotic DNA replication. Olivier Hyrien and Arach Goldar Chromosome Res (2010), 18(1):147-61 |
| 22. | Systematic identification of fragile sites via genome-wide location analysis of gamma-H2AX. Rachel K Szilard, Pierre-Etienne Jacques, Louise Laramée, Benjamin Cheng, Sarah Galicia, Alain R Bataille, ManTek Yeung, Megan Mendez, Maxime Bergeron, François Robert, Daniel Durocher Nat Struct Mol Biol (2010), 17(3):299-305 |
| 23. | Defining replication origin efficiency using DNA fiber assays. Sandie Tuduri, Hélène Tourrière, Philippe Pasero Chromosome Res (2010), 18(1):91-102 |
| 24. | The origin recognition complex interacts with a subset of metabolic genes tightly linked to origins of replication. Erika Shor, Christopher L Warren, Joshua Tietjen, Zhonggang Hou, Ulrika Müller, Ilaria Alborelli, Florence H Gohard, Adrian I Yemm, Lev Borisov, James R Broach, Michael Weinreich, Conrad A Nieduszynski, Aseem Z Ansari, Catherine A Fox PLoS Genet (2009), 5(12):e1000755 |
| 25. | Global effects of DNA replication and DNA replication origin activity on eukaryotic gene expression. Larsson Omberg, Joel R Meyerson, Kayta Kobayashi, Lucy S Drury, John F X Diffley, Orly Alter Mol Syst Biol (2009), 5():312 |
| 26. | Strategies for analyzing highly enriched IP-chip datasets. Simon R V Knott, Christopher J Viggiani, Oscar M Aparicio, Simon Tavaré BMC Bioinformatics (2009), 10():305 |
| 27. | The S-phase checkpoint is required to respond to R-loops accumulated in THO mutants. Belén Gómez-González, Irene Felipe-Abrio, Andrés Aguilera Mol Cell Biol (2009), 29(19):5203-13 |
| 28. | Hidden chromosome symmetry: in silico transformation reveals symmetry in 2D DNA walk trajectories of 671 chromosomes. Maria S Poptsova, Sergei A Larionov, Eugeny V Ryadchenko, Sergei D Rybalko, Ilya A Zakharov, Alexander Loskutov PLoS One (2009), 4(7):e6396 |
| 29. | Detection of replication origins using comparative genomics and recombinational ARS assay. Conrad A Nieduszynski and Anne D Donaldson Methods Mol Biol (2009), 521():295-313 |
| 30. | H3 k36 methylation helps determine the timing of cdc45 association with replication origins. Fiona Pryde, Devanshi Jain, Alastair Kerr, Rebecca Curley, Francesca Romana Mariotti, Maria Vogelauer PLoS One (2009), 4(6):e5882 |
| 31. | Physical signals for protein-DNA recognition. Xiao-Qin Cao, Jia Zeng, Hong Yan Phys Biol (2009), 6(3):036012 |
| 32. | The impact of nucleosome positioning on the organization of replication origins in eukaryotes. Shanye Yin, Wenjun Deng, Landian Hu, Xiangyin Kong Biochem Biophys Res Commun (2009), 385(3):363-8 |
| 33. | Additions, losses, and rearrangements on the evolutionary route from a reconstructed ancestor to the modern Saccharomyces cerevisiae genome. Jonathan L Gordon, Kevin P Byrne, Kenneth H Wolfe PLoS Genet (2009), 5(5):e1000485 |
| 34. | Factoring local sequence composition in motif significance analysis. Patrick Ng and Uri Keich Genome Inform (2008), 21():15-26 |
| 35. | 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 cerevisiae. Simon R V Knott, Christopher J Viggiani, Simon Tavaré, Oscar M Aparicio Genes Dev (2009), 23(9):1077-90 |
| 36. | A model for the spatiotemporal organization of DNA replication in Saccharomyces cerevisiae. T W Spiesser, E Klipp, Matteo Barberis Mol Genet Genomics (2009), 282(1):25-35 |
| 37. | The functional role of S/MARs in episomal vectors as defined by the stress-induced destabilization profile of the vector sequences. Aristeidis Giannakopoulos, Eleana F Stavrou, Ioannis Zarkadis, Nicholas Zoumbos, Adrian J Thrasher, Aglaia Athanassiadou J Mol Biol (2009), 387(5):1239-49 |
| 38. | Chromosome fragility at GAA tracts in yeast depends on repeat orientation and requires mismatch repair. Hyun-Min Kim, Vidhya Narayanan, Piotr A Mieczkowski, Thomas D Petes, Maria M Krasilnikova, Sergei M Mirkin, Kirill S Lobachev EMBO J (2008), 27(21):2896-906 |
| 39. | The temporal program of chromosome replication: genomewide replication in clb5{Delta} Saccharomyces cerevisiae. Heather J McCune, Laura S Danielson, Gina M Alvino, David Collingwood, Jeffrey J Delrow, Walton L Fangman, Bonita J Brewer, M K Raghuraman Genetics (2008), 180(4):1833-47 |
| 40. | Computational detection of significant variation in binding affinity across two sets of sequences with application to the analysis of replication origins in yeast. Uri Keich, Hong Gao, Jeffrey S Garretson, Anand Bhaskar, Ivan Liachko, Justin Donato, Bik K Tye BMC Bioinformatics (2008), 9():372 |
| 41. | Mutants defective in Rad1-Rad10-Slx4 exhibit a unique pattern of viability during mating-type switching in Saccharomyces cerevisiae. Amy M Lyndaker, Tamara Goldfarb, Eric Alani Genetics (2008), 179(4):1807-21 |
| 42. | Analysis of chromosome III replicators reveals an unusual structure for the ARS318 silencer origin and a conserved WTW sequence within the origin recognition complex binding site. Fujung Chang, James F Theis, Jeremy Miller, Conrad A Nieduszynski, Carol S Newlon, Michael Weinreich Mol Cell Biol (2008), 28(16):5071-81 |
| 43. | Division of labor at the eukaryotic replication fork. Stephanie A Nick McElhinny, Dmitry A Gordenin, Carrie M Stith, Peter M J Burgers, Thomas A Kunkel Mol Cell (2008), 30(2):137-44 |
| 44. | ATP-dependent chromatin remodeling shapes the DNA replication landscape. Jack A Vincent, Tracey J Kwong, Toshio Tsukiyama Nat Struct Mol Biol (2008), 15(5):477-84 |
| 45. | Ino80 chromatin remodeling complex promotes recovery of stalled replication forks. Kenji Shimada, Yukako Oma, Thomas Schleker, Kazuto Kugou, Kunihiro Ohta, Masahiko Harata, Susan M Gasser Curr Biol (2008), 18(8):566-75 |
| 46. | Chromosome evolution with naked eye: palindromic context of the life origin. Sergei Larionov, Alexander Loskutov, Eugeny Ryadchenko Chaos (2008), 18(1):013105 |
| 47. | Regulation of rtt107 recruitment to stalled DNA replication forks by the cullin rtt101 and the rtt109 acetyltransferase. Tania M Roberts, Iram Waris Zaidi, Jessica A Vaisica, Matthias Peter, Grant W Brown Mol Biol Cell (2008), 19(1):171-80 |
| 48. | Identification of mutations that decrease the stability of a fragment of Saccharomyces cerevisiae chromosome III lacking efficient replicators. James F Theis, Ann Dershowitz, Carmela Irene, Clelia Maciariello, Michael L Tobin, Giordano Liberi, Sahba Tabrizifard, Malgorzata Korus, Lucia Fabiani, Carol S Newlon Genetics (2007), 177(3):1445-58 |
| 49. | Cell cycle regulation of DNA replication. R A Sclafani and T M Holzen Annu Rev Genet (2007), 41():237-80 |
| 50. | Enhanced expression of EGFP gene in CHSE-214 cells by an ARS element from mud loach (Misgurnus mizolepis). Moo-Sang Kim, Hak-Seob Lim, Sang Jung Ahn, Yong-Kee Jeong, Chul Geun Kim, Hyung Ho Lee Plasmid (2007), 58(3):228-39 |
| 51. | Linear derivatives of Saccharomyces cerevisiae chromosome III can be maintained in the absence of autonomously replicating sequence elements. Ann Dershowitz, Marylynn Snyder, Mohammed Sbia, Joan H Skurnick, Loke Y Ong, Carol S Newlon Mol Cell Biol (2007), 27(13):4652-63 |
| 52. | Genome-wide mapping of ORC and Mcm2p binding sites on tiling arrays and identification of essential ARS consensus sequences in S. cerevisiae. Weihong Xu, Jennifer G Aparicio, Oscar M Aparicio, Simon Tavaré BMC Genomics (2006), 7():276 |
If you have used OriDB and cited our paper in your publication, please let us know and we will add your publication to this list.
S. cerevisiae OriDB - v1.3.0.
Designed and maintained by Dr Conrad A. Nieduszynski & Dr Anne D. Donaldson
