Robin Dowell

Robin Dowell

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Robin Dowell

Robin Dowell

Publications by authors named "Robin Dowell"

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PI(3,5)P controls vacuole potassium transport to support cellular osmoregulation.

Mol Biol Cell 2018 07 23;29(13):1718-1731. Epub 2018 May 23.

Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO 80309-0347.

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http://dx.doi.org/10.1091/mbc.E18-01-0015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6080712PMC
July 2018

Detecting Differential Transcription Factor Activity from ATAC-Seq Data.

Molecules 2018 May 10;23(5). Epub 2018 May 10.

Computer Science, University of Colorado, Boulder, CO 80305, USA.

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http://dx.doi.org/10.3390/molecules23051136DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6099720PMC
May 2018

miR-MaGiC improves quantification accuracy for small RNA-seq.

BMC Res Notes 2018 May 15;11(1):296. Epub 2018 May 15.

Department of Biostatistics and Informatics, Colorado School of Public Health, Aurora, CO, 80045, USA.

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http://dx.doi.org/10.1186/s13104-018-3418-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5952827PMC
May 2018

Enhancer RNA profiling predicts transcription factor activity.

Genome Res 2018 Feb 15. Epub 2018 Feb 15.

Department of Computer Science, University of Colorado, Boulder, Colorado 80309, USA.

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http://dx.doi.org/10.1101/gr.225755.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5848612PMC
February 2018

The Influence of Polyploidy on the Evolution of Yeast Grown in a Sub-Optimal Carbon Source.

Mol Biol Evol 2017 10;34(10):2690-2703

Department of Medical Microbiology and Immunology, Creighton University Medical School, Omaha, NE.

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http://dx.doi.org/10.1093/molbev/msx205DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5850772PMC
October 2017

Transcriptome and Functional Profile of Cardiac Myocytes Is Influenced by Biological Sex.

Circ Cardiovasc Genet 2017 Oct;10(5)

From the Department of Molecular, Cellular, and Developmental Biology, BioFrontiers Institute, University of Colorado at Boulder (C.L.T., A.T.O., R.D.D., L.A.L.); and Division of Cardiology, School of Medicine, Anschutz Medical Campus, University of Colorado, Aurora (M.Y.J.).

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http://dx.doi.org/10.1161/CIRCGENETICS.117.001770DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5679409PMC
October 2017

A Modeling Framework for Generation of Positional and Temporal Simulations of Transcriptional Regulation.

IEEE/ACM Trans Comput Biol Bioinform 2016 May-Jun;13(3):459-471

Molecular, Cellular, Developmental Biology Department, BioFrontiers Institute, University of Colorado, Boulder, CO.

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http://dx.doi.org/10.1109/TCBB.2015.2459708DOI Listing
September 2017

Discriminating between HuR and TTP binding sites using the k-spectrum kernel method.

PLoS One 2017 23;12(3):e0174052. Epub 2017 Mar 23.

Department of Computer Science, University of Colorado at Boulder, 1111 Engineering Dr, Boulder, CO, 80303 United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0174052PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5363848PMC
August 2017

A Kinase-Independent Role for Cyclin-Dependent Kinase 19 in p53 Response.

Mol Cell Biol 2017 07 15;37(13). Epub 2017 Jun 15.

Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, USA

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http://dx.doi.org/10.1128/MCB.00626-16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5472832PMC
July 2017

Model based heritability scores for high-throughput sequencing data.

BMC Bioinformatics 2017 Mar 2;18(1):143. Epub 2017 Mar 2.

Department of Biostatistics and Informatics, University of Colorado School of Public Health, Aurora, CO 80045, USA.

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http://dx.doi.org/10.1186/s12859-017-1539-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5333443PMC
March 2017

RNA Pol II transcription model and interpretation of GRO-seq data.

J Math Biol 2017 01 3;74(1-2):77-97. Epub 2016 May 3.

BioFrontiers Institute and Department of Molecular, Cellular and Developmental Biology, University of Colorado, Box 596, Boulder, CO, 80309, USA.

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http://dx.doi.org/10.1007/s00285-016-1014-4DOI Listing
January 2017

A generative model for the behavior of RNA polymerase.

Bioinformatics 2017 01 23;33(2):227-234. Epub 2016 Sep 23.

Department of Computer Science, University of Colorado, Boulder, CO, USA.

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http://dx.doi.org/10.1093/bioinformatics/btw599DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5942361PMC
January 2017

Genome characterization of the selected long- and short-sleep mouse lines.

Mamm Genome 2016 12 20;27(11-12):574-586. Epub 2016 Sep 20.

Skaggs School of Pharmacy and Pharmaceutical Sciences, University of Colorado, Aurora, CO, 80045, USA.

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http://dx.doi.org/10.1007/s00335-016-9663-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5110614PMC
December 2016

Survey of cryptic unstable transcripts in yeast.

BMC Genomics 2016 Apr 26;17:305. Epub 2016 Apr 26.

Department of Molecular, Cellular, and Developmental Biology, University of Colorado Boulder, Boulder, CO, 80309, USA.

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http://dx.doi.org/10.1186/s12864-016-2622-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4845318PMC
April 2016

Foxc1 reinforces quiescence in self-renewing hair follicle stem cells.

Science 2016 Feb;351(6273):613-7

Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO 80309, USA.

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http://dx.doi.org/10.1126/science.aad5440DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4828140PMC
February 2016

A trans-acting Variant within the Transcription Factor RIM101 Interacts with Genetic Background to Determine its Regulatory Capacity.

PLoS Genet 2016 Jan 11;12(1):e1005746. Epub 2016 Jan 11.

Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Boulder, Colorado, United States of America.

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http://dx.plos.org/10.1371/journal.pgen.1005746
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http://dx.doi.org/10.1371/journal.pgen.1005746DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4709078PMC
January 2016

Prolonged Cre expression driven by the α-myosin heavy chain promoter can be cardiotoxic.

J Mol Cell Cardiol 2015 Sep 2;86:54-61. Epub 2015 Jul 2.

University of Colorado at Boulder, Department of Molecular, Cellular, and Developmental Biology, BioFrontiers Institute, Boulder, CO 80303 USA. Electronic address:

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http://dx.doi.org/10.1016/j.yjmcc.2015.06.019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4558343PMC
September 2015

Quantitative trait locus mapping of acute functional tolerance in the LXS recombinant inbred strains.

Alcohol Clin Exp Res 2015 Apr;39(4):611-20

Department of Pharmaceutical Sciences, University of Colorado Anschutz Medical Campus, Aurora, Colorado.

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http://dx.doi.org/10.1111/acer.12678DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4384187PMC
April 2015

Polyploidy can drive rapid adaptation in yeast.

Nature 2015 Mar 2;519(7543):349-52. Epub 2015 Mar 2.

1] Department of Pediatric Oncology, Dana-Farber Cancer Institute, 450 Brookline Avenue, Boston, Massachusetts 02215, USA [2] Department of Cell Biology, Harvard Medical School, 25 Shattuck Street, Boston, Massachusetts 02215, USA [3] Howard Hughes Medical Institute, 4000 Jones Bridge Road, Chevy Chase, Maryland 20815, USA [4] Department of Pediatric Hematology/Oncology, Children's Hospital, 300 Longwood Avenue, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/nature14187DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4497379PMC
March 2015

Engineered calcium-precipitable restriction enzyme.

ACS Synth Biol 2014 Dec;3(12):969-71

Department of Molecular, Cellular, and Developmental Biology, ‡Department of Chemical and Biological Engineering, §Department of Chemistry and Biochemistry, ∥BioFrontiers Institute, University of Colorado , Boulder, Colorado 80309, United States.

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http://dx.doi.org/10.1021/sb500042mDOI Listing
December 2014

Retrospective reflections of a whistleblower: opinions on misconduct responses.

Account Res 2013 ;20(5-6):339-48

a University of Colorado-Boulder , Boulder , Colorado , USA.

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http://dx.doi.org/10.1080/08989621.2013.822249DOI Listing
July 2014

Global analysis of p53-regulated transcription identifies its direct targets and unexpected regulatory mechanisms.

Elife 2014 May 27;3:e02200. Epub 2014 May 27.

Howard Hughes Medical Institute, University of Colorado, Boulder, Boulder, United States Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Boulder, United States

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https://elifesciences.org/articles/02200
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4033189PMC
http://dx.doi.org/10.7554/eLife.02200DOI Listing
May 2014

CodaChrome: a tool for the visualization of proteome conservation across all fully sequenced bacterial genomes.

BMC Genomics 2014 Jan 24;15:65. Epub 2014 Jan 24.

Department of Molecular, Cellular and Developmental Biology, University of Colorado at Boulder, Boulder CO, USA.

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http://dx.doi.org/10.1186/1471-2164-15-65DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3908345PMC
January 2014

Genome-wide maps of polyadenylation reveal dynamic mRNA 3'-end formation in mammalian cell lineages.

RNA 2013 Mar 16;19(3):413-25. Epub 2013 Jan 16.

Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, Colorado 80309, USA.

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http://dx.doi.org/10.1261/rna.035360.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3677251PMC
March 2013

sizzled function and secreted factor network dynamics.

Biol Open 2012 Mar 3;1(3):286-94. Epub 2012 Feb 3.

Molecular, Cellular and Developmental Biology, University of Colorado , Boulder, CO 80309-0347 , USA.

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http://dx.doi.org/10.1242/bio.2012019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3507283PMC
March 2012

The similarity of gene expression between human and mouse tissues.

Authors:
Robin D Dowell

Genome Biol 2011 17;12(1):101. Epub 2011 Jan 17.

Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, CO 80309, USA.

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http://dx.doi.org/10.1186/gb-2011-12-1-101DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3091293PMC
February 2012

Discovering regulatory overlapping RNA transcripts.

J Comput Biol 2011 Mar;18(3):295-303

Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.

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http://dx.doi.org/10.1089/cmb.2010.0267DOI Listing
March 2011

Transcription factor binding variation in the evolution of gene regulation.

Authors:
Robin D Dowell

Trends Genet 2010 Nov 23;26(11):468-75. Epub 2010 Sep 23.

Molecular, Cellular, and Developmental Biology, 347 UCB, University of Colorado, Boulder, CO 80309, USA.

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http://dx.doi.org/10.1016/j.tig.2010.08.005DOI Listing
November 2010

Feed-forward regulation of a cell fate determinant by an RNA-binding protein generates asymmetry in yeast.

Genetics 2010 Jun 9;185(2):513-22. Epub 2010 Apr 9.

Whitehead Institute for Biomedical Research, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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http://dx.doi.org/10.1534/genetics.110.113944DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2881133PMC
June 2010

OASIS-C: development, testing, and release. An overview for home healthcare clinicians, administrators, and policy makers.

Home Healthc Nurse 2010 Jun;28(6):353-62; quiz 363-4

Centers for Medicare & Medicaid Services, Office of Clinical Standards and Quality, 7500 Security Boulevard, Baltimore, MD 21244, USA.

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https://insights.ovid.com/crossref?an=00004045-201006000-000
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http://dx.doi.org/10.1097/NHH.0b013e3181e2cc6dDOI Listing
June 2010

Genotype to phenotype: a complex problem.

Science 2010 Apr;328(5977):469

Computer Science and Artificial Intelligence Laboratory, Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology (MIT), Cambridge, MA 02139, USA.

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http://dx.doi.org/10.1126/science.1189015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4412269PMC
April 2010

Toggle involving cis-interfering noncoding RNAs controls variegated gene expression in yeast.

Proc Natl Acad Sci U S A 2009 Oct 30;106(43):18321-6. Epub 2009 Sep 30.

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1073/pnas.0909641106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2775344PMC
October 2009

Automated discovery of functional generality of human gene expression programs.

PLoS Comput Biol 2007 Aug 13;3(8):e148. Epub 2007 Jun 13.

Department of Computer Science and Electrical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.0030148DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1941755PMC
August 2007

Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints.

BMC Bioinformatics 2006 Sep 4;7:400. Epub 2006 Sep 4.

Howard Hughes Medical Institute and Department of Genetics, Washington University School of Medicine, 4444 Forest Park Blvd, Box 8510, St. Louis, MO 63108, USA.

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http://www.springerlink.com/index/261731L482864770.pdf
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http://www.springerlink.com/index/u25h361836361070.pdf
Web Search
http://bmcbioinformatics.biomedcentral.com/articles/10.1186/
Publisher Site
http://dx.doi.org/10.1186/1471-2105-7-400DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1579236PMC
September 2006

High-resolution computational models of genome binding events.

Nat Biotechnol 2006 Aug;24(8):963-70

Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, 32 Vassar Street, Cambridge, MA 02139, USA.

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http://dx.doi.org/10.1038/nbt1233DOI Listing
August 2006

Evaluation of several lightweight stochastic context-free grammars for RNA secondary structure prediction.

BMC Bioinformatics 2004 Jun 4;5:71. Epub 2004 Jun 4.

Howard Hughes Medical Institute and Department of Genetics, Washington University School of Medicine, St, Louis, MO 63108 USA.

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http://dx.doi.org/10.1186/1471-2105-5-71DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC442121PMC
June 2004