Literature DB >> 27645402

Toward the promise of microRNAs - Enhancing reproducibility and rigor in microRNA research.

Kenneth W Witwer1,2, Marc K Halushka3.   

Abstract

The fields of applied and translational microRNA research have exploded in recent years as microRNAs have been implicated across a spectrum of diseases. MicroRNA biomarkers, microRNA therapeutics, microRNA regulation of cellular physiology and even xenomiRs have stimulated great interest, which have brought many researchers into the field. Despite many successes in determining general mechanisms of microRNA generation and function, the application of microRNAs in translational areas has not had as much success. It has been a challenge to localize microRNAs to a given cell type within tissues and assay them reliably. At supraphysiologic levels, microRNAs may regulate hosts of genes that are not the physiologic biochemical targets. Thus the applied and translational microRNA literature is filled with pitfalls and claims that are neither scientifically rigorous nor reproducible. This review is focused on increasing awareness of the challenges of working with microRNAs in translational research and recommends better practices in this area of discovery.

Keywords:  Biomarker; miRNA; microRNA; small RNA-seq; transfection; translational research; xenomir

Mesh:

Substances:

Year:  2016        PMID: 27645402      PMCID: PMC5100345          DOI: 10.1080/15476286.2016.1236172

Source DB:  PubMed          Journal:  RNA Biol        ISSN: 1547-6286            Impact factor:   4.652


  125 in total

1.  Interactive exploration of RNA22 microRNA target predictions.

Authors:  Phillipe Loher; Isidore Rigoutsos
Journal:  Bioinformatics       Date:  2012-10-16       Impact factor: 6.937

2.  Transport of dsRNA into cells by the transmembrane protein SID-1.

Authors:  Evan H Feinberg; Craig P Hunter
Journal:  Science       Date:  2003-09-12       Impact factor: 47.728

3.  Regulation of activating protein-4-associated metastases of non-small cell lung cancer cells by miR-144.

Authors:  Feng Gao; Tao Wang; Zefeng Zhang; Rui Wang; Yang Guo; Junfeng Liu
Journal:  Tumour Biol       Date:  2015-08-08

4.  Caenorhabditis elegans SID-2 is required for environmental RNA interference.

Authors:  William M Winston; Marie Sutherlin; Amanda J Wright; Evan H Feinberg; Craig P Hunter
Journal:  Proc Natl Acad Sci U S A       Date:  2007-06-11       Impact factor: 11.205

5.  Normalization of microRNA expression levels in quantitative RT-PCR assays: identification of suitable reference RNA targets in normal and cancerous human solid tissues.

Authors:  Heidi J Peltier; Gary J Latham
Journal:  RNA       Date:  2008-03-28       Impact factor: 4.942

6.  Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding.

Authors:  Aleksandra Helwak; Grzegorz Kudla; Tatiana Dudnakova; David Tollervey
Journal:  Cell       Date:  2013-04-25       Impact factor: 41.582

7.  Analysis of plant-derived miRNAs in animal small RNA datasets.

Authors:  Yuanji Zhang; B Elizabeth Wiggins; Christina Lawrence; Jay Petrick; Sergey Ivashuta; Greg Heck
Journal:  BMC Genomics       Date:  2012-08-08       Impact factor: 3.969

8.  Uptake and Function Studies of Maternal Milk-derived MicroRNAs.

Authors:  Alexandra C Title; Rémy Denzler; Markus Stoffel
Journal:  J Biol Chem       Date:  2015-08-03       Impact factor: 5.157

Review 9.  Biases in small RNA deep sequencing data.

Authors:  Carsten A Raabe; Thean-Hock Tang; Juergen Brosius; Timofey S Rozhdestvensky
Journal:  Nucleic Acids Res       Date:  2013-11-05       Impact factor: 16.971

10.  A critical evaluation of microRNA biomarkers in non-neoplastic disease.

Authors:  Baqer A Haider; Alexander S Baras; Matthew N McCall; Joshua A Hertel; Toby C Cornish; Marc K Halushka
Journal:  PLoS One       Date:  2014-02-26       Impact factor: 3.240

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  51 in total

1.  Senescence cell-associated extracellular vesicles serve as osteoarthritis disease and therapeutic markers.

Authors:  Ok Hee Jeon; David R Wilson; Cristina C Clement; Sona Rathod; Christopher Cherry; Bonita Powell; Zhenghong Lee; Ahmad M Khalil; Jordan J Green; Judith Campisi; Laura Santambrogio; Kenneth W Witwer; Jennifer H Elisseeff
Journal:  JCI Insight       Date:  2019-04-04

Review 2.  Big Strides in Cellular MicroRNA Expression.

Authors:  Marc K Halushka; Bastian Fromm; Kevin J Peterson; Matthew N McCall
Journal:  Trends Genet       Date:  2018-01-18       Impact factor: 11.639

3.  Sources to variability in circulating human miRNA signatures.

Authors:  Andreas Keller; Trine Rounge; Christina Backes; Nicole Ludwig; Randi Gislefoss; Petra Leidinger; Hilde Langseth; Eckart Meese
Journal:  RNA Biol       Date:  2017-09-13       Impact factor: 4.652

Review 4.  Arrayed functional genetic screenings in pluripotency reprogramming and differentiation.

Authors:  Rodrigo Alexandre Panepucci; Ildercílio Mota de Souza Lima
Journal:  Stem Cell Res Ther       Date:  2019-01-11       Impact factor: 6.832

5.  MicroRNA-4458 suppresses the proliferation of human lung cancer cells in vitro by directly targeting Lin28B.

Authors:  Chang-Hong Liu; De-Sheng Lv; Mo Li; Ge Sun; Xue-Fei Zhang; Yu Bai
Journal:  Acta Pharmacol Sin       Date:  2017-06-12       Impact factor: 6.150

Review 6.  MicroRNA Changes in Preconditioning-Induced Neuroprotection.

Authors:  Josh D Bell; Jang-Eun Cho; Rona G Giffard
Journal:  Transl Stroke Res       Date:  2017-06-23       Impact factor: 6.829

7.  Quantification of microRNA editing using two-tailed RT-qPCR for improved biomarker discovery.

Authors:  Gjendine Voss; Anders Edsjö; Anders Bjartell; Yvonne Ceder
Journal:  RNA       Date:  2021-08-25       Impact factor: 4.942

Review 8.  Opportunities for microRNAs in the Crowded Field of Cardiovascular Biomarkers.

Authors:  Perry V Halushka; Andrew J Goodwin; Marc K Halushka
Journal:  Annu Rev Pathol       Date:  2018-10-17       Impact factor: 23.472

9.  Inhibiting Glucose Metabolism By miR-34a and miR-125b Protects Against Hyperglycemia-Induced Cardiomyocyte Cell Death.

Authors:  Chao-Rui Xu; Qiu-Ju Fang
Journal:  Arq Bras Cardiol       Date:  2021-03       Impact factor: 2.000

10.  MicroRNA Ratios Distinguish Melanomas from Nevi.

Authors:  Rodrigo Torres; Ursula E Lang; Miroslav Hejna; Samuel J Shelton; Nancy M Joseph; A Hunter Shain; Iwei Yeh; Maria L Wei; Michael C Oldham; Boris C Bastian; Robert L Judson-Torres
Journal:  J Invest Dermatol       Date:  2019-09-30       Impact factor: 8.551

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