Literature DB >> 27847391

The roles of RNA processing in translating genotype to phenotype.

Kassie S Manning1,2, Thomas A Cooper1,3,4,2.   

Abstract

A goal of human genetics studies is to determine the mechanisms by which genetic variation produces phenotypic differences that affect human health. Efforts in this respect have previously focused on genetic variants that affect mRNA levels by altering epigenetic and transcriptional regulation. Recent studies show that genetic variants that affect RNA processing are at least equally as common as, and are largely independent from, those variants that affect transcription. We highlight the impact of genetic variation on pre-mRNA splicing and polyadenylation, and on the stability, translation and structure of mRNAs as mechanisms that produce phenotypic traits. These results emphasize the importance of including RNA processing signals in analyses to identify functional variants.

Entities:  

Mesh:

Substances:

Year:  2016        PMID: 27847391      PMCID: PMC5544131          DOI: 10.1038/nrm.2016.139

Source DB:  PubMed          Journal:  Nat Rev Mol Cell Biol        ISSN: 1471-0072            Impact factor:   94.444


  142 in total

Review 1.  Beyond GWASs: illuminating the dark road from association to function.

Authors:  Stacey L Edwards; Jonathan Beesley; Juliet D French; Alison M Dunning
Journal:  Am J Hum Genet       Date:  2013-11-07       Impact factor: 11.025

Review 2.  Decoding mechanisms by which silent codon changes influence protein biogenesis and function.

Authors:  Vedrana Bali; Zsuzsanna Bebok
Journal:  Int J Biochem Cell Biol       Date:  2015-03-26       Impact factor: 5.085

3.  Synonymous mutations frequently act as driver mutations in human cancers.

Authors:  Fran Supek; Belén Miñana; Juan Valcárcel; Toni Gabaldón; Ben Lehner
Journal:  Cell       Date:  2014-03-13       Impact factor: 41.582

4.  Effective diagnosis of genetic disease by computational phenotype analysis of the disease-associated genome.

Authors:  Tomasz Zemojtel; Sebastian Köhler; Luisa Mackenroth; Marten Jäger; Jochen Hecht; Peter Krawitz; Luitgard Graul-Neumann; Sandra Doelken; Nadja Ehmke; Malte Spielmann; Nancy Christine Oien; Michal R Schweiger; Ulrike Krüger; Götz Frommer; Björn Fischer; Uwe Kornak; Ricarda Flöttmann; Amin Ardeshirdavani; Yves Moreau; Suzanna E Lewis; Melissa Haendel; Damian Smedley; Denise Horn; Stefan Mundlos; Peter N Robinson
Journal:  Sci Transl Med       Date:  2014-09-03       Impact factor: 17.956

5.  HNRNPA1 regulates HMGCR alternative splicing and modulates cellular cholesterol metabolism.

Authors:  Chi-Yi Yu; Elizabeth Theusch; Kathleen Lo; Lara M Mangravite; Devesh Naidoo; Mariya Kutilova; Marisa W Medina
Journal:  Hum Mol Genet       Date:  2013-09-02       Impact factor: 6.150

6.  Role of primary miRNA polymorphic variants in metastatic colon cancer patients treated with 5-fluorouracil and irinotecan.

Authors:  V Boni; R Zarate; J C Villa; E Bandrés; M A Gomez; E Maiello; J Garcia-Foncillas; E Aranda
Journal:  Pharmacogenomics J       Date:  2010-06-29       Impact factor: 3.550

7.  The single nucleotide polymorphism g.1548A >G (K469E) of the ICAM-1 gene is associated with worse prognosis in non-small cell lung cancer.

Authors:  Eirini Thanopoulou; George Kotzamanis; Ioannis S Pateras; Nicholaos Ziras; Alexandros Papalambros; Theodoros Mariolis-Sapsakos; Fragiska Sigala; Elizabeth Johnson; Athanassios Kotsinas; Andreas Scorilas; Vassilis G Gorgoulis
Journal:  Tumour Biol       Date:  2012-05-06

8.  Human genomics. Effect of predicted protein-truncating genetic variants on the human transcriptome.

Authors:  Manuel A Rivas; Matti Pirinen; Donald F Conrad; Monkol Lek; Emily K Tsang; Konrad J Karczewski; Julian B Maller; Kimberly R Kukurba; David S DeLuca; Menachem Fromer; Pedro G Ferreira; Kevin S Smith; Rui Zhang; Fengmei Zhao; Eric Banks; Ryan Poplin; Douglas M Ruderfer; Shaun M Purcell; Taru Tukiainen; Eric V Minikel; Peter D Stenson; David N Cooper; Katharine H Huang; Timothy J Sullivan; Jared Nedzel; Carlos D Bustamante; Jin Billy Li; Mark J Daly; Roderic Guigo; Peter Donnelly; Kristin Ardlie; Michael Sammeth; Emmanouil T Dermitzakis; Mark I McCarthy; Stephen B Montgomery; Tuuli Lappalainen; Daniel G MacArthur
Journal:  Science       Date:  2015-05-08       Impact factor: 47.728

9.  A large-scale analysis of mRNA polyadenylation of human and mouse genes.

Authors:  Bin Tian; Jun Hu; Haibo Zhang; Carol S Lutz
Journal:  Nucleic Acids Res       Date:  2005-01-12       Impact factor: 16.971

10.  Landscape and variation of RNA secondary structure across the human transcriptome.

Authors:  Yue Wan; Kun Qu; Qiangfeng Cliff Zhang; Ryan A Flynn; Ohad Manor; Zhengqing Ouyang; Jiajing Zhang; Robert C Spitale; Michael P Snyder; Eran Segal; Howard Y Chang
Journal:  Nature       Date:  2014-01-30       Impact factor: 49.962

View more
  63 in total

1.  Cell-type specific polysome profiling from mammalian tissues.

Authors:  Joseph Seimetz; Waqar Arif; Sushant Bangru; Mikel Hernaez; Auinash Kalsotra
Journal:  Methods       Date:  2018-11-27       Impact factor: 3.608

2.  The cataract-linked RNA-binding protein Celf1 post-transcriptionally controls the spatiotemporal expression of the key homeodomain transcription factors Pax6 and Prox1 in lens development.

Authors:  Sandeep Aryal; Justine Viet; Bailey A T Weatherbee; Archana D Siddam; Francisco G Hernandez; Carole Gautier-Courteille; Luc Paillard; Salil A Lachke
Journal:  Hum Genet       Date:  2020-06-27       Impact factor: 4.132

3.  Fine gene expression regulation by minor sequence variations downstream of the polyadenylation signal.

Authors:  Lidiya V Boldyreva; Lyubov A Yarinich; Elena N Kozhevnikova; Anton V Ivankin; Mikhail O Lebedev; Alexey V Pindyurin
Journal:  Mol Biol Rep       Date:  2021-01-31       Impact factor: 2.316

Review 4.  When one becomes many-Alternative splicing in β-cell function and failure.

Authors:  Maria Inês Alvelos; Jonàs Juan-Mateu; Maikel Luis Colli; Jean-Valéry Turatsinze; Décio L Eizirik
Journal:  Diabetes Obes Metab       Date:  2018-09       Impact factor: 6.577

Review 5.  Functional 5' UTR mRNA structures in eukaryotic translation regulation and how to find them.

Authors:  Kathrin Leppek; Rhiju Das; Maria Barna
Journal:  Nat Rev Mol Cell Biol       Date:  2017-11-22       Impact factor: 94.444

6.  Variant Interpretation: Functional Assays to the Rescue.

Authors:  Lea M Starita; Nadav Ahituv; Maitreya J Dunham; Jacob O Kitzman; Frederick P Roth; Georg Seelig; Jay Shendure; Douglas M Fowler
Journal:  Am J Hum Genet       Date:  2017-09-07       Impact factor: 11.025

7.  The master transcription factor SOX2, mutated in anophthalmia/microphthalmia, is post-transcriptionally regulated by the conserved RNA-binding protein RBM24 in vertebrate eye development.

Authors:  Soma Dash; Lindy K Brastrom; Shaili D Patel; C Anthony Scott; Diane C Slusarski; Salil A Lachke
Journal:  Hum Mol Genet       Date:  2020-03-13       Impact factor: 6.150

8.  Single-Cell RT-PCR in Microfluidic Droplets with Integrated Chemical Lysis.

Authors:  Samuel C Kim; Iain C Clark; Payam Shahi; Adam R Abate
Journal:  Anal Chem       Date:  2018-01-03       Impact factor: 6.986

9.  Distributive enzyme binding controlled by local RNA context results in 3' to 5' directional processing of dicistronic tRNA precursors by Escherichia coli ribonuclease P.

Authors:  Jing Zhao; Michael E Harris
Journal:  Nucleic Acids Res       Date:  2019-02-20       Impact factor: 16.971

10.  The common VWF single nucleotide variants c.2365A>G and c.2385T>C modify VWF biosynthesis and clearance.

Authors:  Ahmad H Mufti; Kenichi Ogiwara; Laura L Swystun; Jeroen C J Eikenboom; Ulrich Budde; Wilma M Hopman; Christer Halldén; Jenny Goudemand; Ian R Peake; Anne C Goodeve; David Lillicrap; Daniel J Hampshire
Journal:  Blood Adv       Date:  2018-07-10
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.