Journal ArticleDOI
Long noncoding RNAs in development and disease of the central nervous system
Shi-Yan Ng,Lin Lin,Lin Lin,Boon Seng Soh,Lawrence W. Stanton,Lawrence W. Stanton,Lawrence W. Stanton +6 more
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TLDR
The growing evidence for the importance of lncRNAs in the CNS and the indications that their dysregulation underlies some neurological disorders are highlighted.About:
This article is published in Trends in Genetics.The article was published on 2013-08-01. It has received 264 citations till now. The article focuses on the topics: Gene regulatory network & Regulation of gene expression.read more
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Microbial genes, brain & behaviour - epigenetic regulation of the gut-brain axis.
TL;DR: It is suggested that gut‐microbial products can affect chromatin plasticity within their host's brain that in turn leads to changes in neuronal transcription and eventually alters host behaviour, and that the microbiota itself may be viewed as an epigenetic entity.
Journal ArticleDOI
Long non-coding RNAs and complex diseases: from experimental results to computational models
TL;DR: Some state-of-the-art computational models are introduced, which could be effectively used to identify disease-related lncRNAs on a large scale and select the most promising disease- related lnc RNAs for experimental validation and discussed the future directions of developing computational models for lncRNA research.
Journal ArticleDOI
Revealing the complex genetic architecture of obsessive-compulsive disorder using meta-analysis
Paul D. Arnold,Kathleen D. Askland,Cristina Barlassina,Laura Bellodi,Oscar J. Bienvenu,Donald W. Black,Michael H. Bloch,Helena Brentani,Christie L. Burton,Beatriz Camarena,Carolina Cappi,Danielle C. Cath,Maria Cristina Cavallini,David V. Conti,Edwin H. Cook,Vladimir Coric,Bernadette Cullen,Danielle Cusi,Lea K. Davis,Richard Delorme,Damiaan Denys,Eske M. Derks,Valsamma Eapen,Christopher K. Edlund,Lauren Erdman,Peter Falkai,Martijn Figee,Abigail J. Fyer,Daniel A. Geller,Fernando S. Goes,Hans J. Grabe,M. A. Grados,Benjamin D. Greenberg,Edna Grünblatt,Wei Guo,Gregory L. Hanna,Sian M. J. Hemmings,Ana Gabriela Hounie,Michael Jenicke,Clare L. Keenan,James L. Kennedy,Ekaterina A. Khramtsova,Anuar Konkashbaev,James A. Knowles,Janice Krasnow,Cristophe Lange,Nuria Lanzagorta,Marion Leboyer,Leonhard Lennertz,Bingbin Li,K. Y. Liang,Christine Lochner,Fabio Macciardi,Brion S. Maher,Wolfgang Maier,Maurizio Marconi,Carol A. Mathews,Manuel Matthesien,James T. McCracken,Nicole C.R. McLaughlin,Euripedes Constantino Miguel,Rainald Moessner,Dennis L. Murphy,Benjamin M. Neale,Gerald Nestadt,Paul S. Nestadt,Humberto Nicolini,Ericka Nurmi,Lisa Osiecki,David L. Pauls,John Piacentini,Danielle Posthuma,Ann E. Pulver,H. D. Qin,Steven A. Rasmussen,Scott L. Rauch,Margaret A. Richter,Mark A. Riddle,Stephan Ripke,Stephan Ruhrmann,Aline S. Sampaio,Jack Samuels,Jeremiah M. Scharf,Yin Yao Shugart,Jan Smit,Dan J. Stein,S. Evelyn Stewart,Maurizio Turiel,Homero Vallada,Jeremy Veenstra-VanderWeele,Michael Wagner,Susanne Walitza,Yi Wang,Jens R. Wendland,Nienke Vulink,Dongmei Yu,Gwyneth Zai +96 more
TL;DR: A meta-analysis from two independent OCD consortia, investigating a total of 2688 individuals of European ancestry with OCD and 7037 genomically matched controls, concludes that the largest single OCD genome-wide study to date represents a major integrative step in elucidating the genetic causes of OCD.
Journal ArticleDOI
Mechanisms of Long Non-coding RNAs in Mammalian Nervous System Development, Plasticity, Disease, and Evolution
TL;DR: It is argued that lncRNAs may have played important roles in brain evolution, by virtue of their abundant sequence innovation in mammals and plausible mechanistic connections to the adaptive processes that occurred recently in the primate and human lineages.
Journal ArticleDOI
From Discovery to Function: The Expanding Roles of Long NonCoding RNAs in Physiology and Disease
Miao Sun,William L Kraus +1 more
TL;DR: The current strategies and approaches that have been employed to identify and characterize lncRNAs are outlined, which have been instrumental in revealing their multifaceted roles ranging from cis- to trans-regulation of gene expression and from epigenetic modulation in the nucleus to posttranscriptional control in the cytoplasm.
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TL;DR: Functional data from multiple, diverse experiments performed on a targeted 1% of the human genome as part of the pilot phase of the ENCODE Project are reported, providing convincing evidence that the genome is pervasively transcribed, such that the majority of its bases can be found in primary transcripts.
Journal ArticleDOI
Landscape of transcription in human cells
Sarah Djebali,Carrie A. Davis,Angelika Merkel,Alexander Dobin,Timo Lassmann,Ali Mortazavi,Ali Mortazavi,Andrea Tanzer,Julien Lagarde,Wei Lin,Felix Schlesinger,Chenghai Xue,Georgi K. Marinov,Jainab Khatun,Brian A. Williams,Chris Zaleski,Joel Rozowsky,Marion S. Röder,Felix Kokocinski,Rehab F. Abdelhamid,Tyler Alioto,Igor Antoshechkin,Michael T. Baer,Nadav Bar,Philippe Batut,Kimberly Bell,Ian Bell,Sudipto K. Chakrabortty,Xian Chen,Jacqueline Chrast,Joao Curado,Thomas Derrien,Jorg Drenkow,Erica Dumais,Jacqueline Dumais,Radha Duttagupta,Emilie Falconnet,Meagan Fastuca,Kata Fejes-Toth,Pedro G. Ferreira,Sylvain Foissac,Melissa J. Fullwood,Hui Gao,David Gonzalez,Assaf Gordon,Harsha P. Gunawardena,Cédric Howald,Sonali Jha,Rory Johnson,Philipp Kapranov,Brandon King,Colin Kingswood,Oscar Junhong Luo,Eddie Park,Kimberly Persaud,Jonathan B. Preall,Paolo Ribeca,Brian A. Risk,Daniel Robyr,Michael Sammeth,Lorian Schaffer,Lei-Hoon See,Atif Shahab,Jørgen Skancke,Ana Maria Suzuki,Hazuki Takahashi,Hagen Tilgner,Diane Trout,Nathalie Walters,Huaien Wang,John A. Wrobel,Yanbao Yu,Xiaoan Ruan,Yoshihide Hayashizaki,Jennifer Harrow,Mark Gerstein,Tim Hubbard,Alexandre Reymond,Stylianos E. Antonarakis,Gregory J. Hannon,Morgan C. Giddings,Morgan C. Giddings,Yijun Ruan,Barbara J. Wold,Piero Carninci,Roderic Guigó,Thomas R. Gingeras,Thomas R. Gingeras +87 more
TL;DR: Evidence that three-quarters of the human genome is capable of being transcribed is reported, as well as observations about the range and levels of expression, localization, processing fates, regulatory regions and modifications of almost all currently annotated and thousands of previously unannotated RNAs that prompt a redefinition of the concept of a gene.
Journal ArticleDOI
Molecular Mechanisms of Long Noncoding RNAs
Kevin C. Wang,Howard Y. Chang +1 more
TL;DR: These archetypes of lncRNA function may be a useful framework to consider how lncRNAs acquire properties as biological signal transducers and hint at their possible origins in evolution.
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The Transcriptional Landscape of the Mammalian Genome
Piero Carninci,Takeya Kasukawa,Shintaro Katayama,Julian Gough,Martin C. Frith,N. Maeda,Rieko Oyama,Timothy Ravasi,Boris Lenhard,Christine A. Wells,Christine A. Wells,Rimantas Kodzius,Kazuro Shimokawa,Vladimir B. Bajic,Steven E. Brenner,Serge Batalov,Alistair R. R. Forrest,Mihaela Zavolan,Melissa J. Davis,Laurens G. Wilming,Vassilis Aidinis,Jonathan E. Allen,Alberto Ambesi-Impiombato,Rolf Apweiler,Rajith N. Aturaliya,Timothy L. Bailey,Mukesh Bansal,Laura L. Baxter,Kirk W. Beisel,T. Bersano,Hidemasa Bono,Alistair M. Chalk,Kuo Ping Chiu,V. Choudhary,Alan Christoffels,D. R. Clutterbuck,Mark L. Crowe,Emiliano Dalla,Brian P. Dalrymple,Bernard de Bono,G. Della Gatta,Diego di Bernardo,Thomas A. Down,Pär G. Engström,Michela Fagiolini,Geoffrey J. Faulkner,Colin F. Fletcher,T. Fukushima,Masaaki Furuno,Sugiko Futaki,Manuela Gariboldi,P. Georgii-Hemming,Thomas R. Gingeras,Takashi Gojobori,Richard E. Green,Stefano Gustincich,Matthias Harbers,Yoshitaka Hayashi,Takao K. Hensch,Nobutaka Hirokawa,David E. Hill,Lukasz Huminiecki,M. Iacono,Kazuho Ikeo,Atsushi Iwama,T. Ishikawa,M. Jakt,Alexander Kanapin,Masaru Katoh,Yuka Imamura Kawasawa,Janet Kelso,Hiroshi Kitamura,Hiroaki Kitano,George Kollias,S. P. T. Krishnan,Adele Kruger,Sarah K. Kummerfeld,Igor V. Kurochkin,Liana F. Lareau,Dejan Lazarevic,Leonard Lipovich,Jinfeng Liu,Sabino Liuni,Sean McWilliam,M. Madan Babu,Martin Madera,Luigi Marchionni,Hideo Matsuda,Shu-ichi Matsuzawa,Harukata Miki,Flavio Mignone,Sou Miyake,Ken A. Morris,Salim Mottagui-Tabar,Salim Mottagui-Tabar,Nicola Mulder,Naoko Nakano,Hiromitsu Nakauchi,P. Ng,Roland Nilsson,S. Nishiguchi,Seishi Nishikawa,Franco Nori,Osamu Ohara,Yasushi Okazaki,Valerio Orlando,Ken C Pang,William J. Pavan,Giulio Pavesi,Graziano Pesole,Nikolai Petrovsky,Silvano Piazza,Jonathan C. Reed,James F. Reid,Brian Z. Ring,M. Ringwald,Burkhard Rost,Yijun Ruan,Steven L. Salzberg,Albin Sandelin,Claudio Schneider,Christian Schönbach,K. Sekiguchi,Colin A. Semple,Shigeto Seno,Luca Sessa,Y. Sheng,Y. Shibata,Hiroshi Shimada,Kiyo Shimada,D. Silva,B. Sinclair,Silke Sperling,Elia Stupka,Koji Sugiura,Razvan Sultana,Yoichi Takenaka,Kohei Taki,K. Tammoja,Sin Lam Tan,S. Tang,Martin S. Taylor,Jesper Tegnér,Sarah A. Teichmann,Hiroki R. Ueda,Erik van Nimwegen,Roberto Verardo,Chia-Lin Wei,Ken Yagi,H. Yamanishi,E. Zabarovsky,S. Zhu,Andreas Zimmer,Winston Hide,Carol J. Bult,Sean M. Grimmond,Rohan D. Teasdale,Edison T. Liu,Vladimir Brusic,John Quackenbush,Claes Wahlestedt,Claes Wahlestedt,John S. Mattick,David A. Hume,C. Kai,D. Sasaki,Yasuhiro Tomaru,S. Fukuda,Mutsumi Kanamori-Katayama,M. Suzuki,Junken Aoki,Taku Arakawa,J. Iida,Kengo Imamura,Masayoshi Itoh,T. Kato,Hideya Kawaji,N. Kawagashira,Tsugumi Kawashima,M. Kojima,S. Kondo,Hideaki Konno,K. Nakano,Noriko Ninomiya,T. Nishio,M. Okada,Charles Plessy,K. Shibata,Toshiyuki Shiraki,S. Suzuki,Michihira Tagami,Kazunori Waki,Akira Watahiki,Yuko Okamura-Oho,Harukazu Suzuki,Jun Kawai,Yoshihide Hayashizaki,Yoshihide Hayashizaki +197 more
TL;DR: Detailed polling of transcription start and termination sites and analysis of previously unidentified full-length complementary DNAs derived from the mouse genome provide a comprehensive platform for the comparative analysis of mammalian transcriptional regulation in differentiation and development.
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