A citation-based method for searching scientific literature

M K Raghuraman, E A Winzeler, D Collingwood, S Hunt, L Wodicka, A Conway, D J Lockhart, R W Davis, B J Brewer, W L Fangman. Science 2001
Times Cited: 588







List of co-cited articles
1117 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


The dynamics of genome replication using deep sequencing.
Carolin A Müller, Michelle Hawkins, Renata Retkute, Sunir Malla, Ray Wilson, Martin J Blythe, Ryuichiro Nakato, Makiko Komata, Katsuhiko Shirahige, Alessandro P S de Moura,[...]. Nucleic Acids Res 2014
71
36

Mapping of early firing origins on a replication profile of budding yeast.
Nami Yabuki, Hiromichi Terashima, Kunio Kitada. Genes Cells 2002
186
19

Limiting replication initiation factors execute the temporal programme of origin firing in budding yeast.
Davide Mantiero, Amanda Mackenzie, Anne Donaldson, Philip Zegerman. EMBO J 2011
172
19

DNA replication timing.
Nicholas Rhind, David M Gilbert. Cold Spring Harb Perspect Biol 2013
184
18

Forkhead transcription factors establish origin timing and long-range clustering in S. cerevisiae.
Simon R V Knott, Jared M Peace, A Zachary Ostrow, Yan Gan, Alexandra E Rex, Christopher J Viggiani, Simon Tavaré, Oscar M Aparicio. Cell 2012
124
17

Kinetochores coordinate pericentromeric cohesion and early DNA replication by Cdc7-Dbf4 kinase recruitment.
Toyoaki Natsume, Carolin A Müller, Yuki Katou, Renata Retkute, Marek Gierliński, Hiroyuki Araki, J Julian Blow, Katsuhiko Shirahige, Conrad A Nieduszynski, Tomoyuki U Tanaka. Mol Cell 2013
92
17


Genomic mapping of single-stranded DNA in hydroxyurea-challenged yeasts identifies origins of replication.
Wenyi Feng, David Collingwood, Max E Boeck, Lindsay A Fox, Gina M Alvino, Walton L Fangman, Mosur K Raghuraman, Bonita J Brewer. Nat Cell Biol 2006
171
14

Origin association of Sld3, Sld7, and Cdc45 proteins is a key step for determination of origin-firing timing.
Seiji Tanaka, Ryuichiro Nakato, Yuki Katou, Katsuhiko Shirahige, Hiroyuki Araki. Curr Biol 2011
158
14

Conserved nucleosome positioning defines replication origins.
Matthew L Eaton, Kyriaki Galani, Sukhyun Kang, Stephen P Bell, David M MacAlpine. Genes Dev 2010
245
14

OriDB, the DNA replication origin database updated and extended.
Cheuk C Siow, Sian R Nieduszynska, Carolin A Müller, Conrad A Nieduszynski. Nucleic Acids Res 2012
91
15

Chromosome Duplication in Saccharomyces cerevisiae.
Stephen P Bell, Karim Labib. Genetics 2016
173
14

DNA replication origin activation in space and time.
Michalis Fragkos, Olivier Ganier, Philippe Coulombe, Marcel Méchali. Nat Rev Mol Cell Biol 2015
236
13

Genome-wide distribution of ORC and MCM proteins in S. cerevisiae: high-resolution mapping of replication origins.
J J Wyrick, J G Aparicio, T Chen, J D Barnett, E G Jennings, R A Young, S P Bell, O M Aparicio. Science 2001
318
13

Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types.
Tyrone Ryba, Ichiro Hiratani, Junjie Lu, Mari Itoh, Michael Kulik, Jinfeng Zhang, Thomas C Schulz, Allan J Robins, Stephen Dalton, David M Gilbert. Genome Res 2010
362
13

High-resolution replication profiles define the stochastic nature of genome replication initiation and termination.
Michelle Hawkins, Renata Retkute, Carolin A Müller, Nazan Saner, Tomoyuki U Tanaka, Alessandro P S de Moura, Conrad A Nieduszynski. Cell Rep 2013
43
27

Replication in hydroxyurea: it's a matter of time.
Gina M Alvino, David Collingwood, John M Murphy, Jeffrey Delrow, Bonita J Brewer, M K Raghuraman. Mol Cell Biol 2007
163
12

dNTP pools determine fork progression and origin usage under replication stress.
Jérôme Poli, Olga Tsaponina, Laure Crabbé, Andrea Keszthelyi, Véronique Pantesco, Andrei Chabes, Armelle Lengronne, Philippe Pasero. EMBO J 2012
181
12

Genome-wide identification of replication origins in yeast by comparative genomics.
Conrad A Nieduszynski, Yvonne Knox, Anne D Donaldson. Genes Dev 2006
135
12

Epigenetically-inherited centromere and neocentromere DNA replicates earliest in S-phase.
Amnon Koren, Hung-Ji Tsai, Itay Tirosh, Laura S Burrack, Naama Barkai, Judith Berman. PLoS Genet 2010
70
15

The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
11

Quantitative, genome-wide analysis of eukaryotic replication initiation and termination.
Sean R McGuffee, Duncan J Smith, Iestyn Whitehouse. Mol Cell 2013
82
13



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
79
12

Rif1 is a global regulator of timing of replication origin firing in fission yeast.
Motoshi Hayano, Yutaka Kanoh, Seiji Matsumoto, Claire Renard-Guillet, Katsuhiko Shirahige, Hisao Masai. Genes Dev 2012
154
10

Rif1 controls DNA replication by directing Protein Phosphatase 1 to reverse Cdc7-mediated phosphorylation of the MCM complex.
Shin-Ichiro Hiraga, Gina M Alvino, Fujung Chang, Hui-Yong Lian, Akila Sridhar, Takashi Kubota, Bonita J Brewer, Michael Weinreich, M K Raghuraman, Anne D Donaldson. Genes Dev 2014
132
10

The histone deacetylases sir2 and rpd3 act on ribosomal DNA to control the replication program in budding yeast.
Kazumasa Yoshida, Julien Bacal, Damien Desmarais, Ismaël Padioleau, Olga Tsaponina, Andrei Chabes, Véronique Pantesco, Emeric Dubois, Hugues Parrinello, Magdalena Skrzypczak,[...]. Mol Cell 2014
61
16

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
73
13


Genome-wide characterization of fission yeast DNA replication origins.
Christian Heichinger, Christopher J Penkett, Jürg Bähler, Paul Nurse. EMBO J 2006
158
10

Topologically associating domains are stable units of replication-timing regulation.
Benjamin D Pope, Tyrone Ryba, Vishnu Dileep, Feng Yue, Weisheng Wu, Olgert Denas, Daniel L Vera, Yanli Wang, R Scott Hansen, Theresa K Canfield,[...]. Nature 2014
447
10

Global reorganization of replication domains during embryonic stem cell differentiation.
Ichiro Hiratani, Tyrone Ryba, Mari Itoh, Tomoki Yokochi, Michaela Schwaiger, Chia-Wei Chang, Yung Lyou, Tim M Townes, Dirk Schübeler, David M Gilbert. PLoS Biol 2008
373
10


Replication landscape of the human genome.
Nataliya Petryk, Malik Kahli, Yves d'Aubenton-Carafa, Yan Jaszczyszyn, Yimin Shen, Maud Silvain, Claude Thermes, Chun-Long Chen, Olivier Hyrien. Nat Commun 2016
132
9

Mathematical modelling of whole chromosome replication.
Alessandro P S de Moura, Renata Retkute, Michelle Hawkins, Conrad A Nieduszynski. Nucleic Acids Res 2010
57
15


Comprehensive mapping of long-range interactions reveals folding principles of the human genome.
Erez Lieberman-Aiden, Nynke L van Berkum, Louise Williams, Maxim Imakaev, Tobias Ragoczy, Agnes Telling, Ido Amit, Bryan R Lajoie, Peter J Sabo, Michael O Dorschner,[...]. Science 2009
9


DNA replication timing influences gene expression level.
Carolin A Müller, Conrad A Nieduszynski. J Cell Biol 2017
25
36

Regulated eukaryotic DNA replication origin firing with purified proteins.
Joseph T P Yeeles, Tom D Deegan, Agnieszka Janska, Anne Early, John F X Diffley. Nature 2015
280
8

DNA replication origins fire stochastically in fission yeast.
Prasanta K Patel, Benoit Arcangioli, Stephen P Baker, Aaron Bensimon, Nicholas Rhind. Mol Biol Cell 2006
130
8


Eukaryotic origin-dependent DNA replication in vitro reveals sequential action of DDK and S-CDK kinases.
Ryan C Heller, Sukhyun Kang, Wendy M Lam, Shuyan Chen, Clara S Chan, Stephen P Bell. Cell 2011
211
8


Comparative analysis of DNA replication timing reveals conserved large-scale chromosomal architecture.
Eitan Yaffe, Shlomit Farkash-Amar, Andreas Polten, Zohar Yakhini, Amos Tanay, Itamar Simon. PLoS Genet 2010
114
8


Replication timing is regulated by the number of MCMs loaded at origins.
Shankar P Das, Tyler Borrman, Victor W T Liu, Scott C-H Yang, John Bechhoefer, Nicholas Rhind. Genome Res 2015
48
16

Dbf4 recruitment by forkhead transcription factors defines an upstream rate-limiting step in determining origin firing timing.
Dingqiang Fang, Armelle Lengronne, Di Shi, Romain Forey, Magdalena Skrzypczak, Krzysztof Ginalski, Changhui Yan, Xiaoke Wang, Qinhong Cao, Philippe Pasero,[...]. Genes Dev 2017
21
38

DNA combing reveals intrinsic temporal disorder in the replication of yeast chromosome VI.
Daniel M Czajkowsky, Jie Liu, Joyce L Hamlin, Zhifeng Shao. J Mol Biol 2008
77
9


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.