Publications by authors named "Ryan Layer"

25Publications

Regulatory sharing between estrogen receptor α bound enhancers.

Nucleic Acids Res 2020 07;48(12):6597-6610

Huntsman Cancer Institute, University of Utah, Salt Lake City, UT, USA.

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http://dx.doi.org/10.1093/nar/gkaa454DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7337896PMC
July 2020

webGQT: A Shiny Server for Genotype Query Tools for Model-Based Variant Filtering.

Front Genet 2020 3;11:152. Epub 2020 Mar 3.

Department of Veterinary Biosciences, Department of Medical and Clinical Genetics, University of Helsinki, Helsinki, Finland.

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http://dx.doi.org/10.3389/fgene.2020.00152DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7063093PMC
March 2020

svtools: population-scale analysis of structural variation.

Bioinformatics 2019 11;35(22):4782-4787

McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO 63108, USA.

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http://dx.doi.org/10.1093/bioinformatics/btz492DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6853660PMC
November 2019

A map of constrained coding regions in the human genome.

Nat Genet 2019 01 10;51(1):88-95. Epub 2018 Dec 10.

Department of Human Genetics, University of Utah, Salt Lake City, UT, USA.

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http://dx.doi.org/10.1038/s41588-018-0294-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6589356PMC
January 2019

GIGGLE: a search engine for large-scale integrated genome analysis.

Nat Methods 2018 02 8;15(2):123-126. Epub 2018 Jan 8.

Department of Human Genetics, University of Utah, Salt Lake City, Utah, USA.

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http://dx.doi.org/10.1038/nmeth.4556DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5872823PMC
February 2018

A parallel algorithm for -way interval set intersection.

Proc IEEE Inst Electr Electron Eng 2017 Mar;105(3):542-551

Department of Human Genetics, University of Utah, Salt Lake City, UT, 84112. Department of Biomedical Informatics, University of Utah, Salt Lake City, UT, 84112.

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http://ieeexplore.ieee.org/document/7289350/
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http://dx.doi.org/10.1109/JPROC.2015.2461494DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6188649PMC
March 2017

Vcfanno: fast, flexible annotation of genetic variants.

Genome Biol 2016 06 1;17(1):118. Epub 2016 Jun 1.

Department of Human Genetics, University of Utah, Salt Lake City, UT, 84105, USA.

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http://dx.doi.org/10.1186/s13059-016-0973-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4888505PMC
June 2016

SpeedSeq: ultra-fast personal genome analysis and interpretation.

Nat Methods 2015 Oct 10;12(10):966-8. Epub 2015 Aug 10.

McDonnell Genome Institute, Washington University School of Medicine, St. Louis, Missouri, USA.

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http://dx.doi.org/10.1038/nmeth.3505DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4589466PMC
October 2015

MUNC, a long noncoding RNA that facilitates the function of MyoD in skeletal myogenesis.

Mol Cell Biol 2015 Feb 17;35(3):498-513. Epub 2014 Nov 17.

Department of Biochemistry and Molecular Genetics, University of Virginia School of Medicine, Charlottesville, Virginia, USA

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http://dx.doi.org/10.1128/MCB.01079-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4285423PMC
February 2015

Breakpoint profiling of 64 cancer genomes reveals numerous complex rearrangements spawned by homology-independent mechanisms.

Genome Res 2013 May 14;23(5):762-76. Epub 2013 Feb 14.

Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, Virginia 22903, USA.

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http://dx.doi.org/10.1101/gr.143677.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3638133PMC
May 2013

Binary Interval Search: a scalable algorithm for counting interval intersections.

Bioinformatics 2013 Jan 4;29(1):1-7. Epub 2012 Nov 4.

Department of Computer Science, University of Virginia, Charlottesville, VA 22904, USA.

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http://dx.doi.org/10.1093/bioinformatics/bts652DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3530906PMC
January 2013

Notch3 and Mef2c proteins are mutually antagonistic via Mkp1 protein and miR-1/206 microRNAs in differentiating myoblasts.

J Biol Chem 2012 Nov 10;287(48):40360-70. Epub 2012 Oct 10.

Department of Biochemistry and Molecular Genetics, Robert M. Berne Cardiovascular Research Center, University of Virginia School of Medicine, Charlottesville, VA 22908, USA.

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http://dx.doi.org/10.1074/jbc.M112.378414DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3504751PMC
November 2012

Extrachromosomal microDNAs and chromosomal microdeletions in normal tissues.

Science 2012 Apr 8;336(6077):82-6. Epub 2012 Mar 8.

Department of Biochemistry and Molecular Genetics, University of Virginia School of Medicine, Charlottesville, VA, USA.

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http://dx.doi.org/10.1126/science.1213307DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3703515PMC
April 2012

MicroRNA-378 targets the myogenic repressor MyoR during myoblast differentiation.

J Biol Chem 2011 Jun 6;286(22):19431-8. Epub 2011 Apr 6.

Department of Biochemistry and Molecular Genetics, University of Virginia School of Medicine, Charlottesville, Virginia 22908, USA.

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http://dx.doi.org/10.1074/jbc.M111.219006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3103322PMC
June 2011

Nuclear scaffold attachment sites within ENCODE regions associate with actively transcribed genes.

PLoS One 2011 Mar 14;6(3):e17912. Epub 2011 Mar 14.

Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, Virginia, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0017912PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3056778PMC
March 2011