Literature DB >> 21892624

Current approaches to micro-RNA analysis and target gene prediction.

Tenzin W Lhakhang1, M Ahmad Chaudhry.   

Abstract

It is becoming increasingly evident that micro-RNAs (miRNA) play a significant role in regulating the cellular machinery. These ∼22-nt non-coding RNAs function as negative regulators of gene expression. Since their discovery, considerable information has been obtained on miRNA biology and the mechanism of their action. Guidelines have been established for miRNA nomenclature and databases have been built to house all miRNA from many species. A number of methodologies are available for miRNA analysis. There is a lot of interest in developing bioinformatics approaches to predict miRNA target genes. This article will bring together the information on our current knowledge of miRNA biology, the approaches for miRNA analysis, and computational strategies to gain insight in miRNA functional roles.

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Year:  2011        PMID: 21892624     DOI: 10.1007/s13353-011-0060-2

Source DB:  PubMed          Journal:  J Appl Genet        ISSN: 1234-1983            Impact factor:   3.240


  79 in total

1.  A cellular function for the RNA-interference enzyme Dicer in the maturation of the let-7 small temporal RNA.

Authors:  G Hutvágner; J McLachlan; A E Pasquinelli; E Bálint; T Tuschl; P D Zamore
Journal:  Science       Date:  2001-07-12       Impact factor: 47.728

2.  A microRNA array reveals extensive regulation of microRNAs during brain development.

Authors:  Anna M Krichevsky; Kevin S King; Christine P Donahue; Konstantin Khrapko; Kenneth S Kosik
Journal:  RNA       Date:  2003-10       Impact factor: 4.942

3.  Quantitation of microRNAs using a modified Invader assay.

Authors:  Hatim T Allawi; James E Dahlberg; Sarah Olson; Elsebet Lund; Marilyn Olson; Wu-Po Ma; Tsetska Takova; Bruce P Neri; Victor I Lyamichev
Journal:  RNA       Date:  2004-07       Impact factor: 4.942

4.  Complexity of the microRNA repertoire revealed by next-generation sequencing.

Authors:  Lik Wee Lee; Shile Zhang; Alton Etheridge; Li Ma; Dan Martin; David Galas; Kai Wang
Journal:  RNA       Date:  2010-09-28       Impact factor: 4.942

Review 5.  Assembly and function of RNA silencing complexes.

Authors:  Erik J Sontheimer
Journal:  Nat Rev Mol Cell Biol       Date:  2005-02       Impact factor: 94.444

Review 6.  Strategies to determine the biological function of microRNAs.

Authors:  Jan Krützfeldt; Matthew N Poy; Markus Stoffel
Journal:  Nat Genet       Date:  2006-06       Impact factor: 38.330

Review 7.  Experimental validation of miRNA targets.

Authors:  Donald E Kuhn; Mickey M Martin; David S Feldman; Alvin V Terry; Gerard J Nuovo; Terry S Elton
Journal:  Methods       Date:  2008-01       Impact factor: 3.608

8.  A genetic screen implicates miRNA-372 and miRNA-373 as oncogenes in testicular germ cell tumors.

Authors:  P Mathijs Voorhoeve; Carlos le Sage; Mariette Schrier; Ad J M Gillis; Hans Stoop; Remco Nagel; Ying-Poi Liu; Josyanne van Duijse; Jarno Drost; Alexander Griekspoor; Eitan Zlotorynski; Norikazu Yabuta; Gabriella De Vita; Hiroshi Nojima; Leendert H J Looijenga; Reuven Agami
Journal:  Cell       Date:  2006-03-24       Impact factor: 41.582

9.  Deep sequencing reveals differential expression of microRNAs in favorable versus unfavorable neuroblastoma.

Authors:  Johannes H Schulte; Tobias Marschall; Marcel Martin; Philipp Rosenstiel; Pieter Mestdagh; Stefanie Schlierf; Theresa Thor; Jo Vandesompele; Angelika Eggert; Stefan Schreiber; Sven Rahmann; Alexander Schramm
Journal:  Nucleic Acids Res       Date:  2010-05-13       Impact factor: 16.971

10.  Real-time quantification of microRNAs by stem-loop RT-PCR.

Authors:  Caifu Chen; Dana A Ridzon; Adam J Broomer; Zhaohui Zhou; Danny H Lee; Julie T Nguyen; Maura Barbisin; Nan Lan Xu; Vikram R Mahuvakar; Mark R Andersen; Kai Qin Lao; Kenneth J Livak; Karl J Guegler
Journal:  Nucleic Acids Res       Date:  2005-11-27       Impact factor: 16.971

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  6 in total

1.  Systems analysis reveals down-regulation of a network of pro-survival miRNAs drives the apoptotic response in dilated cardiomyopathy.

Authors:  Ruth Isserlin; Daniele Merico; Dingyan Wang; Dajana Vuckovic; Nicolas Bousette; Anthony O Gramolini; Gary D Bader; Andrew Emili
Journal:  Mol Biosyst       Date:  2014-10-31

2.  Castration-induced changes in microRNA expression profiles in subcutaneous adipose tissue of male pigs.

Authors:  Zhaowei Cai; Lifan Zhang; Minli Chen; Xiaoling Jiang; Ningying Xu
Journal:  J Appl Genet       Date:  2014-01-26       Impact factor: 3.240

3.  MicroRNA-207 enhances radiation-induced apoptosis by directly targeting Akt3 in cochlea hair cells.

Authors:  P-x Tan; S-s Du; C Ren; Q-w Yao; R Zheng; R Li; Y-w Yuan
Journal:  Cell Death Dis       Date:  2014-10-02       Impact factor: 8.469

4.  RFMirTarget: predicting human microRNA target genes with a random forest classifier.

Authors:  Mariana R Mendoza; Guilherme C da Fonseca; Guilherme Loss-Morais; Ronnie Alves; Rogerio Margis; Ana L C Bazzan
Journal:  PLoS One       Date:  2013-07-26       Impact factor: 3.240

5.  Identification of radiation-induced microRNA transcriptome by next-generation massively parallel sequencing.

Authors:  M Ahmad Chaudhry; Romaica A Omaruddin; Christopher D Brumbaugh; Muhammad A Tariq; Nader Pourmand
Journal:  J Radiat Res       Date:  2013-02-26       Impact factor: 2.724

6.  High-throughput sequencing identification of novel and conserved miRNAs in the Brassica oleracea leaves.

Authors:  Anna Lukasik; Halina Pietrykowska; Leszek Paczek; Zofia Szweykowska-Kulinska; Piotr Zielenkiewicz
Journal:  BMC Genomics       Date:  2013-11-19       Impact factor: 3.969

  6 in total

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