A citation-based method for searching scientific literature

Tim R Mercer, Marcel E Dinger, John S Mattick. Nat Rev Genet 2009
Times Cited: 3583







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



Times Cited
  Times     Co-cited
Similarity


Molecular mechanisms of long noncoding RNAs.
Kevin C Wang, Howard Y Chang. Mol Cell 2011
15

Evolution and functions of long noncoding RNAs.
Chris P Ponting, Peter L Oliver, Wolf Reik. Cell 2009
15

Genome regulation by long noncoding RNAs.
John L Rinn, Howard Y Chang. Annu Rev Biochem 2012
12

Long non-coding RNAs: new players in cell differentiation and development.
Alessandro Fatica, Irene Bozzoni. Nat Rev Genet 2014
12

Global cancer statistics 2018: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries.
Freddie Bray, Jacques Ferlay, Isabelle Soerjomataram, Rebecca L Siegel, Lindsey A Torre, Ahmedin Jemal. CA Cancer J Clin 2018
12

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
10

Long noncoding RNAs: functional surprises from the RNA world.
Jeremy E Wilusz, Hongjae Sunwoo, David L Spector. Genes Dev 2009
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

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
10

Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses.
Moran N Cabili, Cole Trapnell, Loyal Goff, Magdalena Koziol, Barbara Tazon-Vega, Aviv Regev, John L Rinn. Genes Dev 2011
9

Unique features of long non-coding RNA biogenesis and function.
Jeffrey J Quinn, Howard Y Chang. Nat Rev Genet 2016
9

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
9

Endogenous microRNA sponges: evidence and controversy.
Daniel W Thomson, Marcel E Dinger. Nat Rev Genet 2016
787
9


The functions and unique features of long intergenic non-coding RNA.
Julia D Ransohoff, Yuning Wei, Paul A Khavari. Nat Rev Mol Cell Biol 2018
357
8

A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language?
Leonardo Salmena, Laura Poliseno, Yvonne Tay, Lev Kats, Pier Paolo Pandolfi. Cell 2011
8


Long Noncoding RNAs in Cancer Pathways.
Adam M Schmitt, Howard Y Chang. Cancer Cell 2016
8

Non-coding RNAs in human disease.
Manel Esteller. Nat Rev Genet 2011
8

lincRNAs: genomics, evolution, and mechanisms.
Igor Ulitsky, David P Bartel. Cell 2013
8


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
8

The nuclear-retained noncoding RNA MALAT1 regulates alternative splicing by modulating SR splicing factor phosphorylation.
Vidisha Tripathi, Jonathan D Ellis, Zhen Shen, David Y Song, Qun Pan, Andrew T Watt, Susan M Freier, C Frank Bennett, Alok Sharma, Paula A Bubulya,[...]. Mol Cell 2010
7

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
7

RNA maps reveal new RNA classes and a possible function for pervasive transcription.
Philipp Kapranov, Jill Cheng, Sujit Dike, David A Nix, Radharani Duttagupta, Aarron T Willingham, Peter F Stadler, Jana Hertel, Jörg Hackermüller, Ivo L Hofacker,[...]. Science 2007
7

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
7

Hallmarks of cancer: the next generation.
Douglas Hanahan, Robert A Weinberg. Cell 2011
7

Cytoscape: a software environment for integrated models of biomolecular interaction networks.
Paul Shannon, Andrew Markiel, Owen Ozier, Nitin S Baliga, Jonathan T Wang, Daniel Ramage, Nada Amin, Benno Schwikowski, Trey Ideker. Genome Res 2003
7

GENCODE: the reference human genome annotation for The ENCODE Project.
Jennifer Harrow, Adam Frankish, Jose M Gonzalez, Electra Tapanari, Mark Diekhans, Felix Kokocinski, Bronwen L Aken, Daniel Barrell, Amonida Zadissa, Stephen Searle,[...]. Genome Res 2012
6

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
6

A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA.
Marcella Cesana, Davide Cacchiarelli, Ivano Legnini, Tiziana Santini, Olga Sthandier, Mauro Chinappi, Anna Tramontano, Irene Bozzoni. Cell 2011
6

Cancer statistics in China, 2015.
Wanqing Chen, Rongshou Zheng, Peter D Baade, Siwei Zhang, Hongmei Zeng, Freddie Bray, Ahmedin Jemal, Xue Qin Yu, Jie He. CA Cancer J Clin 2016
6

Modular regulatory principles of large non-coding RNAs.
Mitchell Guttman, John L Rinn. Nature 2012
6

Long noncoding RNAs and human disease.
Orly Wapinski, Howard Y Chang. Trends Cell Biol 2011
6


NONCODE 2016: an informative and valuable data source of long non-coding RNAs.
Yi Zhao, Hui Li, Shuangsang Fang, Yue Kang, Wei Wu, Yajing Hao, Ziyang Li, Dechao Bu, Ninghui Sun, Michael Q Zhang,[...]. Nucleic Acids Res 2016
349
5

The functional role of long non-coding RNA in human carcinomas.
Ewan A Gibb, Carolyn J Brown, Wan L Lam. Mol Cancer 2011
5

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation.
Cole Trapnell, Brian A Williams, Geo Pertea, Ali Mortazavi, Gordon Kwan, Marijke J van Baren, Steven L Salzberg, Barbara J Wold, Lior Pachter. Nat Biotechnol 2010
5

On the classification of long non-coding RNAs.
Lina Ma, Vladimir B Bajic, Zhang Zhang. RNA Biol 2013
530
5

Long Noncoding RNA and Cancer: A New Paradigm.
Arunoday Bhan, Milad Soleimani, Subhrangsu S Mandal. Cancer Res 2017
898
5

Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters.
Tiffany Hung, Yulei Wang, Michael F Lin, Ashley K Koegel, Yojiro Kotake, Gavin D Grant, Hugo M Horlings, Nilay Shah, Christopher Umbricht, Pei Wang,[...]. Nat Genet 2011
775
5

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
5


Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts.
Liang Sun, Haitao Luo, Dechao Bu, Guoguang Zhao, Kuntao Yu, Changhai Zhang, Yuanning Liu, Runsheng Chen, Yi Zhao. Nucleic Acids Res 2013
636
5


Long noncoding RNAs: past, present, and future.
Johnny T Y Kung, David Colognori, Jeannie T Lee. Genetics 2013
4

A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains.
John N Hutchinson, Alexander W Ensminger, Christine M Clemson, Christopher R Lynch, Jeanne B Lawrence, Andrew Chess. BMC Genomics 2007
601
4

LincRNA-p21 activates p21 in cis to promote Polycomb target gene expression and to enforce the G1/S checkpoint.
Nadya Dimitrova, Jesse R Zamudio, Robyn M Jong, Dylan Soukup, Rebecca Resnick, Kavitha Sarma, Amanda J Ward, Arjun Raj, Jeannie T Lee, Phillip A Sharp,[...]. Mol Cell 2014
272
4

A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression.
Kevin C Wang, Yul W Yang, Bo Liu, Amartya Sanyal, Ryan Corces-Zimmerman, Yong Chen, Bryan R Lajoie, Angeline Protacio, Ryan A Flynn, Rajnish A Gupta,[...]. Nature 2011
4

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
4


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.