Structure by Sequencing: Discovery of Hidden Messages in the Noncoding RNA Fraction

被引：3

作者：

Bonetti, Alessandro ^{[1
]}

Carninci, Piero ^{[1
]}

机构：

[1] RIKEN Yokohama Inst, Omics Sci Ctr, Yokohama, Kanagawa 2300045, Japan

来源：

MOLECULAR CELL | 2012年 / 48卷 / 02期

关键词：

GENOME-WIDE MEASUREMENT; TRANSCRIPTION; LANDSCAPE;

D O I：

10.1016/j.molcel.2012.10.004

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

A lack of tools has hampered the search for the potential functions of the abundant noncoding RNA (ncRNA) portion of the genome. Wan et al. (2012) report a new sequencing-based method for determining ncRNA secondary structure termed PARTE, promising to accelerate ncRNA studies.

引用

页码：153 / 155

页数：3

共 10 条

[1] The transcriptional landscape of the mammalian genome [J].

Carninci, P ;

Kasukawa, T ;

Katayama, S ;

Gough, J ;

Frith, MC ;

Maeda, N ;

Oyama, R ;

Ravasi, T ;

Lenhard, B ;

Wells, C ;

Kodzius, R ;

Shimokawa, K ;

Bajic, VB ;

Brenner, SE ;

Batalov, S ;

Forrest, ARR ;

Zavolan, M ;

Davis, MJ ;

Wilming, LG ;

Aidinis, V ;

Allen, JE ;

Ambesi-Impiombato, X ;

Apweiler, R ;

Aturaliya, RN ;

Bailey, TL ;

Bansal, M ;

Baxter, L ;

Beisel, KW ;

Bersano, T ;

Bono, H ;

Chalk, AM ;

Chiu, KP ;

Choudhary, V ;

Christoffels, A ;

Clutterbuck, DR ;

Crowe, ML ;

Dalla, E ;

Dalrymple, BP ;

de Bono, B ;

Della Gatta, G ;

di Bernardo, D ;

Down, T ;

Engstrom, P ;

Fagiolini, M ;

Faulkner, G ;

Fletcher, CF ;

Fukushima, T ;

Furuno, M ;

Futaki, S ;

Gariboldi, M .

SCIENCE, 2005, 309 (5740) :1559-1563

[2] The Reality of Pervasive Transcription [J].

Clark, Michael B. ;

Amaral, Paulo P. ;

Schlesinger, Felix J. ;

Dinger, Marcel E. ;

Taft, Ryan J. ;

Rinn, John L. ;

Ponting, Chris P. ;

Stadler, Peter F. ;

Morris, Kevin V. ;

Morillon, Antonin ;

Rozowsky, Joel S. ;

Gerstein, Mark B. ;

Wahlestedt, Claes ;

Hayashizaki, Yoshihide ;

Carninci, Piero ;

Gingeras, Thomas R. ;

Mattick, John S. .

PLOS BIOLOGY, 2011, 9 (07)

[3] Landscape of transcription in human cells [J].

Djebali, Sarah ;

Davis, Carrie A. ;

Merkel, Angelika ;

Dobin, Alex ;

Lassmann, Timo ;

Mortazavi, Ali ;

Tanzer, Andrea ;

Lagarde, Julien ;

Lin, Wei ;

Schlesinger, Felix ;

Xue, Chenghai ;

Marinov, Georgi K. ;

Khatun, Jainab ;

Williams, Brian A. ;

Zaleski, Chris ;

Rozowsky, Joel ;

Roeder, Maik ;

Kokocinski, Felix ;

Abdelhamid, Rehab F. ;

Alioto, Tyler ;

Antoshechkin, Igor ;

Baer, Michael T. ;

Bar, Nadav S. ;

Batut, Philippe ;

Bell, Kimberly ;

Bell, Ian ;

Chakrabortty, Sudipto ;

Chen, Xian ;

Chrast, Jacqueline ;

Curado, Joao ;

Derrien, Thomas ;

Drenkow, Jorg ;

Dumais, Erica ;

Dumais, Jacqueline ;

Duttagupta, Radha ;

Falconnet, Emilie ;

Fastuca, Meagan ;

Fejes-Toth, Kata ;

Ferreira, Pedro ;

Foissac, Sylvain ;

Fullwood, Melissa J. ;

Gao, Hui ;

Gonzalez, David ;

Gordon, Assaf ;

Gunawardena, Harsha ;

Howald, Cedric ;

Jha, Sonali ;

Johnson, Rory ;

Kapranov, Philipp ;

King, Brandon .

NATURE, 2012, 489 (7414) :101-108

[4] Genome-wide measurement of RNA secondary structure in yeast [J].

Kertesz, Michael ;

Wan, Yue ;

Mazor, Elad ;

Rinn, John L. ;

Nutter, Robert C. ;

Chang, Howard Y. ;

Segal, Eran .

NATURE, 2010, 467 (7311) :103-107

[5] Intergenic transcription is required to repress the Saccharomyces cerevisiae SER3 gene [J].

Martens, JA ;

Laprade, L ;

Winston, F .

NATURE, 2004, 429 (6991) :571-574

[6] Long non-coding RNAs: insights into functions [J].

Mercer, Tim R. ;

Dinger, Marcel E. ;

Mattick, John S. .

NATURE REVIEWS GENETICS, 2009, 10 (03) :155-159

[7] Structural and functional features of eukaryotic mRNA untranslated regions [J].

Pesole, G ;

Mignone, F ;

Gissi, C ;

Grillo, G ;

Licciulli, F ;

Liuni, S .

GENE, 2001, 276 (1-2) :73-81

[8] Genome-wide Measurement of RNA Folding Energies [J].

Wan, Yue ;

Qu, Kun ;

Ouyang, Zhengqing ;

Kertesz, Michael ;

Li, Jun ;

Tibshirani, Robert ;

Makino, Debora L. ;

Nutter, Robert C. ;

Segal, Eran ;

Chang, Howard Y. .

MOLECULAR CELL, 2012, 48 (02) :169-181

[9] Bidirectional promoters generate pervasive transcription in yeast [J].

Xu, Zhenyu ;

Wei, Wu ;

Gagneur, Julien ;

Perocchi, Fabiana ;

Clauder-Muenster, Sandra ;

Camblong, Jurgi ;

Guffanti, Elisa ;

Stutz, Francoise ;

Huber, Wolfgang ;

Steinmetz, Lars M. .

NATURE, 2009, 457 (7232) :1033-U7

[10] Maternally Expressed Gene 3 (MEG3) Noncoding Ribonucleic Acid: Isoform Structure, Expression, and Functions [J].

Zhang, Xun ;

Rice, Kimberley ;

Wang, Yingying ;

Chen, Wendy ;

Zhong, Ying ;

Nakayama, Yuki ;

Zhou, Yunli ;

Klibanski, Anne .

ENDOCRINOLOGY, 2010, 151 (03) :939-947

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