Literature DB >> 21333748

RNA-protein interactions in human health and disease.

Ahmad M Khalil1, John L Rinn.   

Abstract

It is now clear that the genomes of many organisms encode thousands of large and small non-coding (nc)RNAs. However, relative to the discovery of ncRNAs the functions and mechanisms of ncRNAs remain disproportionately understood. One intriguing observation is that many ncRNAs are found to be associated with protein complexes including those involved in transcription regulation, post-transcriptional silencing, and epigentic regulation. These observations suggest that the functions and mechanisms of many of these ncRNAs may depend on their interactions with various protein complexes within the cell. In this review we discuss well known examples as well as newly emerging evidence of a widespread RNA-protein interactions in distinct biological processes in a wide range of organisms, and highlight the importance of developing new technologies to dissect these interactions. Finally, we propose that mis-regulation of ncRNAs interactions with their protein partners may contribute to human disease, and open up a novel approach to therapeutic interventions.
Copyright © 2011. Published by Elsevier Ltd.

Entities:  

Mesh:

Substances:

Year:  2011        PMID: 21333748      PMCID: PMC3184770          DOI: 10.1016/j.semcdb.2011.02.016

Source DB:  PubMed          Journal:  Semin Cell Dev Biol        ISSN: 1084-9521            Impact factor:   7.727


  69 in total

1.  A germline-specific class of small RNAs binds mammalian Piwi proteins.

Authors:  Angélique Girard; Ravi Sachidanandam; Gregory J Hannon; Michelle A Carmell
Journal:  Nature       Date:  2006-06-04       Impact factor: 49.962

2.  RNA-dependent RNA polymerase is an essential component of a self-enforcing loop coupling heterochromatin assembly to siRNA production.

Authors:  Tomoyasu Sugiyama; Hugh Cam; André Verdel; Danesh Moazed; Shiv I S Grewal
Journal:  Proc Natl Acad Sci U S A       Date:  2004-12-22       Impact factor: 11.205

3.  A strategy for probing the function of noncoding RNAs finds a repressor of NFAT.

Authors:  A T Willingham; A P Orth; S Batalov; E C Peters; B G Wen; P Aza-Blanc; J B Hogenesch; P G Schultz
Journal:  Science       Date:  2005-09-02       Impact factor: 47.728

4.  A novel class of small RNAs in mouse spermatogenic cells.

Authors:  Shane T Grivna; Ergin Beyret; Zhong Wang; Haifan Lin
Journal:  Genes Dev       Date:  2006-06-09       Impact factor: 11.361

Review 5.  Non-coding RNA.

Authors:  John S Mattick; Igor V Makunin
Journal:  Hum Mol Genet       Date:  2006-04-15       Impact factor: 6.150

6.  Genome-wide mapping of Polycomb target genes unravels their roles in cell fate transitions.

Authors:  Adrian P Bracken; Nikolaj Dietrich; Diego Pasini; Klaus H Hansen; Kristian Helin
Journal:  Genes Dev       Date:  2006-04-17       Impact factor: 11.361

7.  The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells.

Authors:  Yuin-Han Loh; Qiang Wu; Joon-Lin Chew; Vinsensius B Vega; Weiwei Zhang; Xi Chen; Guillaume Bourque; Joshy George; Bernard Leong; Jun Liu; Kee-Yew Wong; Ken W Sung; Charlie W H Lee; Xiao-Dong Zhao; Kuo-Ping Chiu; Leonard Lipovich; Vladimir A Kuznetsov; Paul Robson; Lawrence W Stanton; Chia-Lin Wei; Yijun Ruan; Bing Lim; Huck-Hui Ng
Journal:  Nat Genet       Date:  2006-03-05       Impact factor: 38.330

8.  A specific transcription factor that can bind either the 5S RNA gene or 5S RNA.

Authors:  H R Pelham; D D Brown
Journal:  Proc Natl Acad Sci U S A       Date:  1980-07       Impact factor: 11.205

9.  A gene from the region of the human X inactivation centre is expressed exclusively from the inactive X chromosome.

Authors:  C J Brown; A Ballabio; J L Rupert; R G Lafreniere; M Grompe; R Tonlorenzi; H F Willard
Journal:  Nature       Date:  1991-01-03       Impact factor: 49.962

10.  The transcriptional landscape of the mammalian genome.

Authors:  P Carninci; T Kasukawa; S Katayama; J Gough; M C Frith; N Maeda; R Oyama; T Ravasi; B Lenhard; C Wells; R Kodzius; K Shimokawa; V B Bajic; S E Brenner; S Batalov; A R R Forrest; M Zavolan; M J Davis; L G Wilming; V Aidinis; J E Allen; A Ambesi-Impiombato; R Apweiler; R N Aturaliya; T L Bailey; M Bansal; L Baxter; K W Beisel; T Bersano; H Bono; A M Chalk; K P Chiu; V Choudhary; A Christoffels; D R Clutterbuck; M L Crowe; E Dalla; B P Dalrymple; B de Bono; G Della Gatta; D di Bernardo; T Down; P Engstrom; M Fagiolini; G Faulkner; C F Fletcher; T Fukushima; M Furuno; S Futaki; M Gariboldi; P Georgii-Hemming; T R Gingeras; T Gojobori; R E Green; S Gustincich; M Harbers; Y Hayashi; T K Hensch; N Hirokawa; D Hill; L Huminiecki; M Iacono; K Ikeo; A Iwama; T Ishikawa; M Jakt; A Kanapin; M Katoh; Y Kawasawa; J Kelso; H Kitamura; H Kitano; G Kollias; S P T Krishnan; A Kruger; S K Kummerfeld; I V Kurochkin; L F Lareau; D Lazarevic; L Lipovich; J Liu; S Liuni; S McWilliam; M Madan Babu; M Madera; L Marchionni; H Matsuda; S Matsuzawa; H Miki; F Mignone; S Miyake; K Morris; S Mottagui-Tabar; N Mulder; N Nakano; H Nakauchi; P Ng; R Nilsson; S Nishiguchi; S Nishikawa; F Nori; O Ohara; Y Okazaki; V Orlando; K C Pang; W J Pavan; G Pavesi; G Pesole; N Petrovsky; S Piazza; J Reed; J F Reid; B Z Ring; M Ringwald; B Rost; Y Ruan; S L Salzberg; A Sandelin; C Schneider; C Schönbach; K Sekiguchi; C A M Semple; S Seno; L Sessa; Y Sheng; Y Shibata; H Shimada; K Shimada; D Silva; B Sinclair; S Sperling; E Stupka; K Sugiura; R Sultana; Y Takenaka; K Taki; K Tammoja; S L Tan; S Tang; M S Taylor; J Tegner; S A Teichmann; H R Ueda; E van Nimwegen; R Verardo; C L Wei; K Yagi; H Yamanishi; E Zabarovsky; S Zhu; A Zimmer; W Hide; C Bult; S M Grimmond; R D Teasdale; E T Liu; V Brusic; J Quackenbush; C Wahlestedt; J S Mattick; D A Hume; C Kai; D Sasaki; Y Tomaru; S Fukuda; M Kanamori-Katayama; M Suzuki; J Aoki; T Arakawa; J Iida; K Imamura; M Itoh; T Kato; H Kawaji; N Kawagashira; T Kawashima; M Kojima; S Kondo; H Konno; K Nakano; N Ninomiya; T Nishio; M Okada; C Plessy; K Shibata; T Shiraki; S Suzuki; M Tagami; K Waki; A Watahiki; Y Okamura-Oho; H Suzuki; J Kawai; Y Hayashizaki
Journal:  Science       Date:  2005-09-02       Impact factor: 47.728

View more
  59 in total

Review 1.  Noncoding RNAs involved in mammary gland development and tumorigenesis: there's a long way to go.

Authors:  Amy N Shore; Jason I Herschkowitz; Jeffrey M Rosen
Journal:  J Mammary Gland Biol Neoplasia       Date:  2012-03-09       Impact factor: 2.673

2.  Kaposi's sarcoma-associated herpesvirus noncoding polyadenylated nuclear RNA interacts with virus- and host cell-encoded proteins and suppresses expression of genes involved in immune modulation.

Authors:  Cyprian C Rossetto; Gregory S Pari
Journal:  J Virol       Date:  2011-09-28       Impact factor: 5.103

Review 3.  Interpreting functional effects of coding variants: challenges in proteome-scale prediction, annotation and assessment.

Authors:  Khader Shameer; Lokesh P Tripathi; Krishna R Kalari; Joel T Dudley; Ramanathan Sowdhamini
Journal:  Brief Bioinform       Date:  2015-10-22       Impact factor: 11.622

Review 4.  The "Observer Effect" in genome-wide surveys of protein-RNA interactions.

Authors:  Kasandra J Riley; Joan A Steitz
Journal:  Mol Cell       Date:  2013-02-21       Impact factor: 17.970

5.  Individually double minimum-distance definition of protein-RNA binding residues and application to structure-based prediction.

Authors:  Wen Hu; Liu Qin; Menglong Li; Xuemei Pu; Yanzhi Guo
Journal:  J Comput Aided Mol Des       Date:  2018-11-26       Impact factor: 3.686

6.  Arabidopsis mRNA secondary structure correlates with protein function and domains.

Authors:  Lee Vandivier; Fan Li; Qi Zheng; Matthew Willmann; Ying Chen; Brian Gregory
Journal:  Plant Signal Behav       Date:  2013-04-19

7.  Knockdown of long noncoding RNA SPRY4-IT1 suppresses glioma cell proliferation, metastasis and epithelial-mesenchymal transition.

Authors:  Hongjiang Liu; Zhongqiang Lv; Erkun Guo
Journal:  Int J Clin Exp Pathol       Date:  2015-08-01

Review 8.  Chromatin connections to pluripotency and cellular reprogramming.

Authors:  Stuart H Orkin; Konrad Hochedlinger
Journal:  Cell       Date:  2011-06-10       Impact factor: 41.582

Review 9.  Genomic era analyses of RNA secondary structure and RNA-binding proteins reveal their significance to post-transcriptional regulation in plants.

Authors:  Ian M Silverman; Fan Li; Brian D Gregory
Journal:  Plant Sci       Date:  2013-02-01       Impact factor: 4.729

10.  Regulatory impact of RNA secondary structure across the Arabidopsis transcriptome.

Authors:  Fan Li; Qi Zheng; Lee E Vandivier; Matthew R Willmann; Ying Chen; Brian D Gregory
Journal:  Plant Cell       Date:  2012-11-13       Impact factor: 11.277

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.