Literature DB >> 27583640

The power of multiplexed functional analysis of genetic variants.

Molly Gasperini1, Lea Starita1, Jay Shendure1,2.   

Abstract

New technologies have recently enabled saturation mutagenesis and functional analysis of nearly all possible variants of regulatory elements or proteins of interest in single experiments. Here we discuss the past, present, and future of such multiplexed (functional) assays for variant effects (MAVEs). MAVEs provide detailed insight into sequence-function relationships, and they may prove critical for the prospective clinical interpretation of genetic variants.

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Year:  2016        PMID: 27583640      PMCID: PMC6690347          DOI: 10.1038/nprot.2016.135

Source DB:  PubMed          Journal:  Nat Protoc        ISSN: 1750-2799            Impact factor:   13.491


  80 in total

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5.  Massively parallel in vivo enhancer assay reveals that highly local features determine the cis-regulatory function of ChIP-seq peaks.

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Journal:  J Mol Biol       Date:  2014-10-02       Impact factor: 5.469

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8.  Site-Specific Amino Acid Preferences Are Mostly Conserved in Two Closely Related Protein Homologs.

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10.  The inherent mutational tolerance and antigenic evolvability of influenza hemagglutinin.

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  37 in total

Review 1.  Towards a comprehensive catalogue of validated and target-linked human enhancers.

Authors:  Molly Gasperini; Jacob M Tome; Jay Shendure
Journal:  Nat Rev Genet       Date:  2020-01-27       Impact factor: 53.242

2.  Mutation effects predicted from sequence co-variation.

Authors:  Thomas A Hopf; John B Ingraham; Frank J Poelwijk; Charlotta P I Schärfe; Michael Springer; Chris Sander; Debora S Marks
Journal:  Nat Biotechnol       Date:  2017-01-16       Impact factor: 54.908

3.  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

4.  Multiplexed gene synthesis in emulsions for exploring protein functional landscapes.

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5.  Toward Robust Functional Neuroimaging Genetics of Cognition.

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6.  Quantitative Missense Variant Effect Prediction Using Large-Scale Mutagenesis Data.

Authors:  Vanessa E Gray; Ronald J Hause; Jens Luebeck; Jay Shendure; Douglas M Fowler
Journal:  Cell Syst       Date:  2017-12-06       Impact factor: 10.304

Review 7.  Modern methods for laboratory diversification of biomolecules.

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Journal:  Curr Opin Chem Biol       Date:  2017-11-02       Impact factor: 8.822

8.  Massively parallel DNA target capture using long adapter single stranded oligonucleotide (LASSO) probes assembled through a novel DNA recombinase mediated methodology.

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9.  Neurogenetic fetal akinesia and arthrogryposis: genetics, expanding genotype-phenotypes and functional genomics.

Authors:  Gina Ravenscroft; Joshua S Clayton; Fathimath Faiz; Padma Sivadorai; Di Milnes; Rob Cincotta; Phillip Moon; Ben Kamien; Matthew Edwards; Martin Delatycki; Phillipa J Lamont; Sophelia Hs Chan; Alison Colley; Alan Ma; Felicity Collins; Lucinda Hennington; Teresa Zhao; George McGillivray; Sondhya Ghedia; Katherine Chao; Anne O'Donnell-Luria; Nigel G Laing; Mark R Davis
Journal:  J Med Genet       Date:  2020-10-15       Impact factor: 6.318

Review 10.  Childhood rare lung disease in the 21st century: "-omics" technology advances accelerating discovery.

Authors:  Timothy J Vece; Jennifer A Wambach; James S Hagood
Journal:  Pediatr Pulmonol       Date:  2020-07
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