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Author Details

James A Yorke
University of Maryland, College Park
1973
92
41
PMIDPaper TitleJournal TitlePublished Year
37728890Robust steady states in ecosystems with symmetries.J Biol Dyn2023
33114047When the Best Pandemic Models are the Simplest.Biology (Basel)2020
30384627Low-dimensional paradigms for high-dimensional hetero-chaos.Chaos2018
28751502The Douglas-Fir Genome Sequence Reveals Specialization of the Photosynthetic Apparatus in Pinaceae.G3 (Bethesda)2017
28130360Hybrid assembly of the large and highly repetitive genome of <i>Aegilops tauschii</i>, a progenitor of bread wheat, with the MaSuRCA mega-reads algorithm.Genome Res2017
28369353An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing.Gigascience2017
28115608Partially controlling transient chaos in the Lorenz equations.Philos Trans A Math Phys Eng Sci2017
29020755Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing.Gigascience2017
27088604The Atlantic salmon genome provides insights into rediploidization.Nature2016
28185554Evolution of transcriptional networks in yeast: alternative teams of transcriptional factors for different species.BMC Genomics2016
27794028Sequence of the Sugar Pine Megagenome.Genetics2016
26083032QuorUM: An Error Corrector for Illumina Reads.PLoS One2015
26553444Testing for Basins of Wada.Sci Rep2015
26066225Geometry of the edge of chaos in a low-dimensional turbulent shear flow model.Phys Rev E Stat Nonlin Soft Matter Phys2015
24647006Decoding the massive genome of loblolly pine using haploid DNA and novel assembly strategies.Genome Biol2014
25192099Scaling of chaos versus periodicity: how certain is it that an attractor is chaotic?Phys Rev Lett2014
25319552A new rhesus macaque assembly and annotation for next-generation sequencing analyses.Biol Direct2014
24653211Unique features of the loblolly pine (Pinus taeda L.) megagenome revealed through sequence annotation.Genetics2014
24653210Sequencing and assembly of the 22-gb loblolly pine genome.Genetics2014
23990416The MaSuRCA genome assembler.Bioinformatics2013
24089949A period-doubling cascade precedes chaos for planar maps.Chaos2013
22147368GAGE: A critical evaluation of genome assemblies and assembly algorithms.Genome Res2012
23278093Dynamics of partial control.Chaos2012
22880081Mis-assembled "segmental duplications" in two versions of the Bos taurus genome.PLoS One2012
21282631Draft genome of the globally widespread and invasive Argentine ant (Linepithema humile).Proc Natl Acad Sci U S A2011
20838655Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis.PLoS Biol2010
19292512Modeling HIV outbreaks: the male to female prevalence ratio in the core population.Math Biosci Eng2009
19393038A whole-genome assembly of the domestic cow, Bos taurus.Genome Biol2009
18057021Assembly reconciliation.Bioinformatics2008
19113196When Lyapunov exponents fail to exist.Phys Rev E Stat Nonlin Soft Matter Phys2008
19256873Duplication count distributions in DNA sequences.Phys Rev E Stat Nonlin Soft Matter Phys2008
18643119Partial control of chaotic systems.Phys Rev E Stat Nonlin Soft Matter Phys2008
18202027Figaro: a novel statistical method for vector sequence removal.Bioinformatics2008
18350171Improving Phrap-based assembly of the rat using "reliable" overlaps.PLoS One2008
17678289Turbulence transition and the edge of chaos in pipe flow.Phys Rev Lett2007
17994087Evolution of genes and genomes on the Drosophila phylogeny.Nature2007
16907246Crossing bifurcations and unstable dimension variability.Phys Rev Lett2006
17003694Reconciling different infectivity estimates for HIV-1.J Acquir Immune Defic Syndr2006
16712300Edge of chaos in a parallel shear flow.Phys Rev Lett2006
16712079Making forecasts for chaotic physical processes.Phys Rev Lett2006
15735440HIV epidemics driven by late disease stage transmission.J Acquir Immune Defic Syndr2005
16332717Beware of mis-assembled genomes.Bioinformatics2005
16090440Convex error growth patterns in a global weather model.Phys Rev Lett2005
15256412Reducing storage requirements for biological sequence comparison.Bioinformatics2004
15579242A preprocessor for shotgun assembly of large genomes.J Comput Biol2004
11415384Local low dimensionality of atmospheric dynamics.Phys Rev Lett2001
11289904Stagger-and-step method: detecting and computing chaotic saddles in higher dimensions.Phys Rev Lett2001
11060614Testing whether two chaotic one dimensional processes are dynamically identicalPhys Rev Lett2000
11017332Fractal basin boundaries generated by basin cells and the geometry of mixing chaotic flowsPhys Rev Lett2000
12779642Indecomposable continua in dynamical systems with noise: Fluid flow past an array of cylinders.Chaos1997
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Collaborators

Aleksey V Zimin
Center for Computational Biology, Johns Hopkins University
Co-authored papers 21
Steven L Salzberg
Center for Computational Biology, Johns Hopkins University
Co-authored papers 16
Jill L Wegrzyn
University of Connecticut
Co-authored papers 7
Mark Yandell
University of Utah
Co-authored papers 4
Arthur L Delcher
Center for Computational Biology, Johns Hopkins School of Medicine
Co-authored papers 4
Carson Holt
University of Utah
Co-authored papers 4
Michael C Schatz
Johns Hopkins University
Co-authored papers 4
Maxim Koriabine
Co-authored papers 3
Mihai Pop
Co-authored papers 3
Douglas R Smith
Co-authored papers 3
Pieter J de Jong
Center for Genetics, Children's Hospital Oakland Research Institute
Co-authored papers 3
Chris Tyler-Smith
Wellcome Sanger Institute
Co-authored papers 2
Doreen Main
Washington State University
Co-authored papers 2
Sergey Koren
National Human Genome Research Institute, National Institutes of Health
Co-authored papers 2
Stephen M Mount
University of Maryland, College Park
Co-authored papers 2
Todd J Treangen
Co-authored papers 2
Granger Sutton
J. Craig Venter Institute
Co-authored papers 2
Don Gilbert
Indiana University
Co-authored papers 2
David R Kelley
Co-authored papers 2
Adam M Phillippy
National Human Genome Research Institute, National Institutes of Health
Co-authored papers 2
Kim D Pruitt
National Center for Biotechnology Information, National Institutes of Health
Co-authored papers 1
Derek Wilson
Co-authored papers 1
Manolis Kellis
Massachusetts Institute of Technology
Co-authored papers 1
Karin A Remington
The J. Craig Venter Institute.
Co-authored papers 1
Martin Helmkampf
University of Hawaii at Hilo
Co-authored papers 1
Melissa J Hubisz
Co-authored papers 1
Andrew Zimmer
Co-authored papers 1
Vincent Croset
Durham University
Co-authored papers 1
Paul Havlak
Co-authored papers 1
Jennifer E Placek
Co-authored papers 1
Release 1.2