A citation-based method for searching scientific literature

Olga Vydzhak, Brian Luke, Natalie Schindler. J Mol Biol 2020
Times Cited: 13







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



Times Cited
  Times     Co-cited
Similarity


Immobilization of proteins in the nucleolus by ribosomal intergenic spacer noncoding RNA.
Timothy E Audas, Mathieu D Jacob, Stephen Lee. Mol Cell 2012
172
30

The conservation landscape of the human ribosomal RNA gene repeats.
Saumya Agrawal, Austen R D Ganley. PLoS One 2018
28
30

lncRNA-Induced Nucleosome Repositioning Reinforces Transcriptional Repression of rRNA Genes upon Hypotonic Stress.
Zhongliang Zhao, Marcel Andre Dammert, Ingrid Grummt, Holger Bierhoff. Cell Rep 2016
40
30


Nucleolar RNA polymerase II drives ribosome biogenesis.
Karan J Abraham, Negin Khosraviani, Janet N Y Chan, Aparna Gorthi, Anas Samman, Dorothy Y Zhao, Miling Wang, Michael Bokros, Elva Vidya, Lauren A Ostrowski,[...]. Nature 2020
67
30

S1-DRIP-seq identifies high expression and polyA tracts as major contributors to R-loop formation.
Lamia Wahba, Lorenzo Costantino, Frederick J Tan, Anjali Zimmer, Douglas Koshland. Genes Dev 2016
155
30

Where no RNA polymerase has gone before: novel functional transcripts derived from the ribosomal intergenic spacer.
Mathieu D Jacob, Timothy E Audas, Sahra-Taylor Mullineux, Stephen Lee. Nucleus 2012
26
23

Intergenic transcripts regulate the epigenetic state of rRNA genes.
Christine Mayer, Kerstin-Maike Schmitz, Junwei Li, Ingrid Grummt, Raffaella Santoro. Mol Cell 2006
236
23

Quiescence-induced LncRNAs trigger H4K20 trimethylation and transcriptional silencing.
Holger Bierhoff, Marcel Andre Dammert, David Brocks, Silvia Dambacher, Gunnar Schotta, Ingrid Grummt. Mol Cell 2014
99
23

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression.
Ahmad M Khalil, Mitchell Guttman, Maite Huarte, Manuel Garber, Arjun Raj, Dianali Rivea Morales, Kelly Thomas, Aviva Presser, Bradley E Bernstein, Alexander van Oudenaarden,[...]. Proc Natl Acad Sci U S A 2009
23

Regulatory R-loops as facilitators of gene expression and genome stability.
Christof Niehrs, Brian Luke. Nat Rev Mol Cell Biol 2020
139
23

pRNA: NoRC-associated RNA of rRNA operons.
Stefanie Wehner, Anja K Dörrich, Philipp Ciba, Annegret Wilde, Manja Marz. RNA Biol 2014
13
23


Intergenic transcripts originating from a subclass of ribosomal DNA repeats silence ribosomal RNA genes in trans.
Raffaella Santoro, Kerstin-Maike Schmitz, Juan Sandoval, Ingrid Grummt. EMBO Rep 2010
77
23

Prevalent, Dynamic, and Conserved R-Loop Structures Associate with Specific Epigenomic Signatures in Mammals.
Lionel A Sanz, Stella R Hartono, Yoong Wearn Lim, Sandra Steyaert, Aparna Rajpurkar, Paul A Ginno, Xiaoqin Xu, Frédéric Chédin. Mol Cell 2016
279
23

Genome-wide profiling of yeast DNA:RNA hybrid prone sites with DRIP-chip.
Yujia A Chan, Maria J Aristizabal, Phoebe Y T Lu, Zongli Luo, Akil Hamza, Michael S Kobor, Peter C Stirling, Philip Hieter. PLoS Genet 2014
155
23

Interaction of noncoding RNA with the rDNA promoter mediates recruitment of DNMT3b and silencing of rRNA genes.
Kerstin-Maike Schmitz, Christine Mayer, Anna Postepska, Ingrid Grummt. Genes Dev 2010
351
23

Gene regulation by long non-coding RNAs and its biological functions.
Luisa Statello, Chun-Jie Guo, Ling-Ling Chen, Maite Huarte. Nat Rev Mol Cell Biol 2021
958
23

Variation in human chromosome 21 ribosomal RNA genes characterized by TAR cloning and long-read sequencing.
Jung-Hyun Kim, Alexander T Dilthey, Ramaiah Nagaraja, Hee-Sheung Lee, Sergey Koren, Dawood Dudekula, William H Wood Iii, Yulan Piao, Aleksey Y Ogurtsov, Koichi Utani,[...]. Nucleic Acids Res 2018
34
15



A Short Tandem Repeat-Enriched RNA Assembles a Nuclear Compartment to Control Alternative Splicing and Promote Cell Survival.
Karen Yap, Svetlana Mukhina, Gen Zhang, Jason S C Tan, Hong Sheng Ong, Eugene V Makeyev. Mol Cell 2018
67
15

Copy Number of Human Ribosomal Genes With Aging: Unchanged Mean, but Narrowed Range and Decreased Variance in Elderly Group.
Elena M Malinovskaya, Elizaveta S Ershova, Vera E Golimbet, Lev N Porokhovnik, Nataliya A Lyapunova, Serguey I Kutsev, Natalia N Veiko, Svetlana V Kostyuk. Front Genet 2018
29
15



The epigenetics of rRNA genes: from molecular to chromosome biology.
Brian McStay, Ingrid Grummt. Annu Rev Cell Dev Biol 2008
370
15

Ribosomal DNA copy number is coupled with gene expression variation and mitochondrial abundance in humans.
John G Gibbons, Alan T Branco, Shoukai Yu, Bernardo Lemos. Nat Commun 2014
87
15

Ribosomal DNA copy number loss and sequence variation in cancer.
Baoshan Xu, Hua Li, John M Perry, Vijay Pratap Singh, Jay Unruh, Zulin Yu, Musinu Zakari, William McDowell, Linheng Li, Jennifer L Gerton. PLoS Genet 2017
76
15

Ribosomal DNA instability and genome adaptability.
Devika Salim, Jennifer L Gerton. Chromosome Res 2019
30
15

An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells.
Yih-Horng Shiao, Sorin T Lupascu, Yuhan D Gu, Wojciech Kasprzak, Christopher J Hwang, Janet R Fields, Robert M Leighty, Octavio Quiñones, Bruce A Shapiro, W Gregory Alvord,[...]. PLoS One 2009
17
15

Dosage effects of human ribosomal genes (rDNA) in health and disease.
L N Porokhovnik, N A Lyapunova. Chromosome Res 2019
18
15

Keeping ribosomal DNA intact: a repeating challenge.
Daniël O Warmerdam, Rob M F Wolthuis. Chromosome Res 2019
36
15

Integrative genomic analysis of human ribosomal DNA.
Gabriel E Zentner, Alina Saiakhova, Pavel Manaenkov, Mark D Adams, Peter C Scacheri. Nucleic Acids Res 2011
110
15


lncRNA maturation to initiate heterochromatin formation in the nucleolus is required for exit from pluripotency in ESCs.
Nataša Savić, Dominik Bär, Sergio Leone, Sandra C Frommel, Fabienne A Weber, Eva Vollenweider, Elena Ferrari, Urs Ziegler, Andres Kaech, Olga Shakhova,[...]. Cell Stem Cell 2014
89
15


Long-range interaction and correlation between MYC enhancer and oncogenic long noncoding RNA CARLo-5.
Taewan Kim, Ri Cui, Young-Jun Jeon, Ji-Hoon Lee, Ju Hee Lee, Hosung Sim, Jong Kook Park, Paolo Fadda, Esmerina Tili, Hiroshi Nakanishi,[...]. Proc Natl Acad Sci U S A 2014
143
15

An architectural role for a nuclear noncoding RNA: NEAT1 RNA is essential for the structure of paraspeckles.
Christine M Clemson, John N Hutchinson, Sergio A Sara, Alexander W Ensminger, Archa H Fox, Andrew Chess, Jeanne B Lawrence. Mol Cell 2009
973
15

R loops: from transcription byproducts to threats to genome stability.
Andrés Aguilera, Tatiana García-Muse. Mol Cell 2012
617
15

The product of the mouse Xist gene is a 15 kb inactive X-specific transcript containing no conserved ORF and located in the nucleus.
N Brockdorff, A Ashworth, G F Kay, V M McCabe, D P Norris, P J Cooper, S Swift, S Rastan. Cell 1992
795
15

The transcriptional landscape of the mammalian genome.
P Carninci, T Kasukawa, S Katayama, J Gough, M C Frith, N Maeda, R Oyama, T Ravasi, B Lenhard, C Wells,[...]. Science 2005
15

The landscape of long noncoding RNAs in the human transcriptome.
Matthew K Iyer, Yashar S Niknafs, Rohit Malik, Udit Singhal, Anirban Sahu, Yasuyuki Hosono, Terrence R Barrette, John R Prensner, Joseph R Evans, Shuang Zhao,[...]. Nat Genet 2015
15

PCAT-1, a long noncoding RNA, regulates BRCA2 and controls homologous recombination in cancer.
John R Prensner, Wei Chen, Matthew K Iyer, Qi Cao, Teng Ma, Sumin Han, Anirban Sahu, Rohit Malik, Kari Wilder-Romans, Nora Navone,[...]. Cancer Res 2014
192
15

Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs.
John L Rinn, Michael Kertesz, Jordon K Wang, Sharon L Squazzo, Xiao Xu, Samantha A Brugmann, L Henry Goodnough, Jill A Helms, Peggy J Farnham, Eran Segal,[...]. Cell 2007
15

Long noncoding RNA as modular scaffold of histone modification complexes.
Miao-Chih Tsai, Ohad Manor, Yue Wan, Nima Mosammaparast, Jordon K Wang, Fei Lan, Yang Shi, Eran Segal, Howard Y Chang. Science 2010
15

Control of Chromatin Structure by Long Noncoding RNA.
Gudrun Böhmdorfer, Andrzej T Wierzbicki. Trends Cell Biol 2015
158
15

Extensive localization of long noncoding RNAs to the cytosol and mono- and polyribosomal complexes.
Sebastiaan van Heesch, Maarten van Iterson, Jetse Jacobi, Sander Boymans, Paul B Essers, Ewart de Bruijn, Wensi Hao, Alyson W MacInnes, Edwin Cuppen, Marieke Simonis. Genome Biol 2014
254
15

Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis.
Rajnish A Gupta, Nilay Shah, Kevin C Wang, Jeewon Kim, Hugo M Horlings, David J Wong, Miao-Chih Tsai, Tiffany Hung, Pedram Argani, John L Rinn,[...]. Nature 2010
15

rRNA operon copy number reflects ecological strategies of bacteria.
J A Klappenbach, J M Dunbar, T M Schmidt. Appl Environ Microbiol 2000
611
15

RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships.
Julie Nadel, Rodoniki Athanasiadou, Christophe Lemetre, N Ari Wijetunga, Pilib Ó Broin, Hanae Sato, Zhengdong Zhang, Jeffrey Jeddeloh, Cristina Montagna, Aaron Golden,[...]. Epigenetics Chromatin 2015
92
15


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.