A citation-based method for searching scientific literature

Folkert J van Werven, Gregor Neuert, Natalie Hendrick, Aurélie Lardenois, Stephen Buratowski, Alexander van Oudenaarden, Michael Primig, Angelika Amon. Cell 2012
Times Cited: 178







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



Times Cited
  Times     Co-cited
Similarity



Bidirectional promoters generate pervasive transcription in yeast.
Zhenyu Xu, Wu Wei, Julien Gagneur, Fabiana Perocchi, Sandra Clauder-Münster, Jurgi Camblong, Elisa Guffanti, Françoise Stutz, Wolfgang Huber, Lars M Steinmetz. Nature 2009
684
26

Antisense transcription controls cell fate in Saccharomyces cerevisiae.
Cintia F Hongay, Paula L Grisafi, Timothy Galitski, Gerald R Fink. Cell 2006
264
24

Toggle involving cis-interfering noncoding RNAs controls variegated gene expression in yeast.
Stacie L Bumgarner, Robin D Dowell, Paula Grisafi, David K Gifford, Gerald R Fink. Proc Natl Acad Sci U S A 2009
144
22

Antisense RNA stabilization induces transcriptional gene silencing via histone deacetylation in S. cerevisiae.
Jurgi Camblong, Nahid Iglesias, Céline Fickentscher, Guennaelle Dieppois, Françoise Stutz. Cell 2007
282
22

Intergenic transcription causes repression by directing nucleosome assembly.
Sarah J Hainer, Justin A Pruneski, Rachel D Mitchell, Robin M Monteverde, Joseph A Martens. Genes Dev 2011
131
21

Widespread bidirectional promoters are the major source of cryptic transcripts in yeast.
Helen Neil, Christophe Malabat, Yves d'Aubenton-Carafa, Zhenyu Xu, Lars M Steinmetz, Alain Jacquier. Nature 2009
440
21

A ncRNA modulates histone modification and mRNA induction in the yeast GAL gene cluster.
Jonathan Houseley, Liudmilla Rubbi, Michael Grunstein, David Tollervey, Maria Vogelauer. Mol Cell 2008
220
19

XUTs are a class of Xrn1-sensitive antisense regulatory non-coding RNA in yeast.
E L van Dijk, C L Chen, Y d'Aubenton-Carafa, S Gourvennec, M Kwapisz, V Roche, C Bertrand, M Silvain, P Legoix-Né, S Loeillet,[...]. Nature 2011
255
18

Gene regulation by antisense transcription.
Vicent Pelechano, Lars M Steinmetz. Nat Rev Genet 2013
417
17

Execution of the meiotic noncoding RNA expression program and the onset of gametogenesis in yeast require the conserved exosome subunit Rrp6.
Aurélie Lardenois, Yuchen Liu, Thomas Walther, Frédéric Chalmel, Bertrand Evrard, Marina Granovskaia, Angela Chu, Ronald W Davis, Lars M Steinmetz, Michael Primig. Proc Natl Acad Sci U S A 2011
99
17

Cryptic pol II transcripts are degraded by a nuclear quality control pathway involving a new poly(A) polymerase.
Françoise Wyers, Mathieu Rougemaille, Gwenaël Badis, Jean-Claude Rousselle, Marie-Elisabeth Dufour, Jocelyne Boulay, Béatrice Régnault, Frédéric Devaux, Abdelkader Namane, Bertrand Séraphin,[...]. Cell 2005
664
17

Bimodal expression of PHO84 is modulated by early termination of antisense transcription.
Manuele Castelnuovo, Samir Rahman, Elisa Guffanti, Valentina Infantino, Françoise Stutz, Daniel Zenklusen. Nat Struct Mol Biol 2013
104
16

Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription.
Michael J Carrozza, Bing Li, Laurence Florens, Tamaki Suganuma, Selene K Swanson, Kenneth K Lee, Wei-Jong Shia, Scott Anderson, John Yates, Michael P Washburn,[...]. Cell 2005
943
15

Single-cell analysis reveals that noncoding RNAs contribute to clonal heterogeneity by modulating transcription factor recruitment.
Stacie L Bumgarner, Gregor Neuert, Benjamin F Voight, Anna Symbor-Nagrabska, Paula Grisafi, Alexander van Oudenaarden, Gerald R Fink. Mol Cell 2012
86
17

Regulated antisense transcription controls expression of cell-type-specific genes in yeast.
Brian Gelfand, Janet Mead, Adrian Bruning, Nicholas Apostolopoulos, Vasisht Tadigotla, Vijaylakshmi Nagaraj, Anirvan M Sengupta, Andrew K Vershon. Mol Cell Biol 2011
70
21

Modulation of mRNA and lncRNA expression dynamics by the Set2-Rpd3S pathway.
Ji Hyun Kim, Bo Bae Lee, Young Mi Oh, Chenchen Zhu, Lars M Steinmetz, Yookyeong Lee, Wan Kyu Kim, Sung Bae Lee, Stephen Buratowski, TaeSoo Kim. Nat Commun 2016
62
24

Set3 HDAC mediates effects of overlapping noncoding transcription on gene induction kinetics.
TaeSoo Kim, Zhenyu Xu, Sandra Clauder-Münster, Lars M Steinmetz, Stephen Buratowski. Cell 2012
139
14


Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex.
Michael-Christopher Keogh, Siavash K Kurdistani, Stephanie A Morris, Seong Hoon Ahn, Vladimir Podolny, Sean R Collins, Maya Schuldiner, Kayu Chin, Thanuja Punna, Natalie J Thompson,[...]. Cell 2005
596
14

Transcriptome surveillance by selective termination of noncoding RNA synthesis.
Daniel Schulz, Bjoern Schwalb, Anja Kiesel, Carlo Baejen, Phillipp Torkler, Julien Gagneur, Johannes Soeding, Patrick Cramer. Cell 2013
145
14

Dealing with pervasive transcription.
Torben Heick Jensen, Alain Jacquier, Domenico Libri. Mol Cell 2013
186
14

Control of Cdc28 CDK1 by a stress-induced lncRNA.
Mariona Nadal-Ribelles, Carme Solé, Zhenyu Xu, Lars M Steinmetz, Eulàlia de Nadal, Francesc Posas. Mol Cell 2014
66
19

H3 lysine 4 di- and tri-methylation deposited by cryptic transcription attenuates promoter activation.
Marina Pinskaya, Stéphanie Gourvennec, Antonin Morillon. EMBO J 2009
134
13

Evolution and functions of long noncoding RNAs.
Chris P Ponting, Peter L Oliver, Wolf Reik. Cell 2009
13

Stepwise chromatin remodelling by a cascade of transcription initiation of non-coding RNAs.
Kouji Hirota, Tomoichiro Miyoshi, Kazuto Kugou, Charles S Hoffman, Takehiko Shibata, Kunihiro Ohta. Nature 2008
192
12


Regulation of entry into gametogenesis.
Folkert J van Werven, Angelika Amon. Philos Trans R Soc Lond B Biol Sci 2011
63
19

Extensive transcriptional heterogeneity revealed by isoform profiling.
Vicent Pelechano, Wu Wei, Lars M Steinmetz. Nature 2013
269
12

High-resolution view of the yeast meiotic program revealed by ribosome profiling.
Gloria A Brar, Moran Yassour, Nir Friedman, Aviv Regev, Nicholas T Ingolia, Jonathan S Weissman. Science 2012
352
12


Nonsense-Mediated Decay Restricts LncRNA Levels in Yeast Unless Blocked by Double-Stranded RNA Structure.
Maxime Wery, Marc Descrimes, Nicolas Vogt, Anne-Sophie Dallongeville, Daniel Gautheret, Antonin Morillon. Mol Cell 2016
62
17

Airn transcriptional overlap, but not its lncRNA products, induces imprinted Igf2r silencing.
Paulina A Latos, Florian M Pauler, Martha V Koerner, H Başak Şenergin, Quanah J Hudson, Roman R Stocsits, Wolfgang Allhoff, Stefan H Stricker, Ruth M Klement, Katarzyna E Warczok,[...]. Science 2012
326
11

CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine.
Lei Kong, Yong Zhang, Zhi-Qiang Ye, Xiao-Qiao Liu, Shu-Qi Zhao, Liping Wei, Ge Gao. Nucleic Acids Res 2007
11

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals.
Mitchell Guttman, Ido Amit, Manuel Garber, Courtney French, Michael F Lin, David Feldser, Maite Huarte, Or Zuk, Bryce W Carey, John P Cassady,[...]. Nature 2009
11


Transcription of a 5' extended mRNA isoform directs dynamic chromatin changes and interference of a downstream promoter.
Minghao Chia, Amy Tresenrider, Jingxun Chen, Gianpiero Spedale, Victoria Jorgensen, Elçin Ünal, Folkert Jacobus van Werven. Elife 2017
35
31

Genome regulation by long noncoding RNAs.
John L Rinn, Howard Y Chang. Annu Rev Biochem 2012
11


The core meiotic transcriptome in budding yeasts.
M Primig, R M Williams, E A Winzeler, G G Tevzadze, A R Conway, S Y Hwang, R W Davis, R E Esposito. Nat Genet 2000
347
10


Role of histone modifications and early termination in pervasive transcription and antisense-mediated gene silencing in yeast.
Manuele Castelnuovo, Judith B Zaugg, Elisa Guffanti, Andrea Maffioletti, Jurgi Camblong, Zhenyu Xu, Sandra Clauder-Münster, Lars M Steinmetz, Nicholas M Luscombe, Françoise Stutz. Nucleic Acids Res 2014
39
25

Antisense expression increases gene expression variability and locus interdependency.
Zhenyu Xu, Wu Wei, Julien Gagneur, Sandra Clauder-Münster, Miłosz Smolik, Wolfgang Huber, Lars M Steinmetz. Mol Syst Biol 2011
135
10

A role for noncoding transcription in activation of the yeast PHO5 gene.
Jay P Uhler, Christina Hertel, Jesper Q Svejstrup. Proc Natl Acad Sci U S A 2007
129
10

Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae.
M S Longtine, A McKenzie, D J Demarini, N G Shah, A Wach, A Brachat, P Philippsen, J R Pringle. Yeast 1998
10

Landscape of transcription in human cells.
Sarah Djebali, Carrie A Davis, Angelika Merkel, Alex Dobin, Timo Lassmann, Ali Mortazavi, Andrea Tanzer, Julien Lagarde, Wei Lin, Felix Schlesinger,[...]. Nature 2012
10

The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression.
Thomas Derrien, Rory Johnson, Giovanni Bussotti, Andrea Tanzer, Sarah Djebali, Hagen Tilgner, Gregory Guernec, David Martin, Angelika Merkel, David G Knowles,[...]. Genome Res 2012
10

Long non-coding RNAs: insights into functions.
Tim R Mercer, Marcel E Dinger, John S Mattick. Nat Rev Genet 2009
10

Protein Abundance Control by Non-coding Antisense Transcription.
Florian Huber, Daria Bunina, Ishaan Gupta, Anton Khmelinskii, Matthias Meurer, Patrick Theer, Lars M Steinmetz, Michael Knop. Cell Rep 2016
35
28

Trans-acting antisense RNAs mediate transcriptional gene cosuppression in S. cerevisiae.
Jurgi Camblong, Nissrine Beyrouthy, Elisa Guffanti, Guillaume Schlaepfer, Lars M Steinmetz, Françoise Stutz. Genes Dev 2009
117
10


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.