Publications by authors named "Dent Earl"

16Publications

Comparative Annotation Toolkit (CAT)-simultaneous clade and personal genome annotation.

Genome Res 2018 07 8;28(7):1029-1038. Epub 2018 Jun 8.

Genomics Institute, University of California Santa Cruz and Howard Hughes Medical Institute, Santa Cruz, California 95064, USA.

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http://dx.doi.org/10.1101/gr.233460.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6028123PMC
July 2018

Building a pan-genome reference for a population.

J Comput Biol 2015 May 7;22(5):387-401. Epub 2015 Jan 7.

1 Center for Biomolecular Science and Engineering, University of California , Santa Cruz, California.

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http://dx.doi.org/10.1089/cmb.2014.0146DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4424974PMC
May 2015

Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs.

Science 2014 Dec 11;346(6215):1254449. Epub 2014 Dec 11.

Department of Biochemistry, Molecular Biology, Entomology and Plant Pathology, Mississippi State University, Mississippi State, MS 39762, USA. Institute for Genomics, Biocomputing and Biotechnology, Mississippi State University, Mississippi State, MS 39762, USA. Department of Biological Sciences, Texas Tech University, Lubbock, TX 79409, USA.

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http://jarvislab.net/wp-content/uploads/2012/02/Green-et-al-
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http://www.sciencemag.org/cgi/doi/10.1126/science.1254449
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http://dx.doi.org/10.1126/science.1254449DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4386873PMC
December 2014

Alignathon: a competitive assessment of whole-genome alignment methods.

Genome Res 2014 Dec 1;24(12):2077-89. Epub 2014 Oct 1.

Center for Biomolecular Science and Engineering, University of California Santa Cruz, Santa Cruz, California 95064, USA; Biomolecular Engineering Department, University of California Santa Cruz, Santa Cruz, California 95064, USA;

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http://dx.doi.org/10.1101/gr.174920.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4248324PMC
December 2014

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species.

Gigascience 2013 Jul 22;2(1):10. Epub 2013 Jul 22.

Genome Center, UC, Davis, CA 95616, USA.

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http://dx.doi.org/10.1186/2047-217X-2-10DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3844414PMC
July 2013

HAL: a hierarchical format for storing and analyzing multiple genome alignments.

Bioinformatics 2013 May 16;29(10):1341-2. Epub 2013 Mar 16.

Center for Biomolecular Science and Engineering, University of California Santa Cruz, Santa Cruz CA 95064, USA.

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http://dx.doi.org/10.1093/bioinformatics/btt128DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3654707PMC
May 2013

Identification of recent hybridization between gray wolves and domesticated dogs by SNP genotyping.

Mamm Genome 2013 Feb 12;24(1-2):80-8. Epub 2012 Oct 12.

Department of Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA.

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http://link.springer.com/content/pdf/10.1007%2Fs00335-012-94
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http://link.springer.com/10.1007/s00335-012-9432-0
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http://dx.doi.org/10.1007/s00335-012-9432-0DOI Listing
February 2013

Cactus: Algorithms for genome multiple sequence alignment.

Genome Res 2011 Sep 10;21(9):1512-28. Epub 2011 Jun 10.

Center for Biomolecular Science and Engineering, University of California-Santa Cruz, CA 95064, USA.

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http://dx.doi.org/10.1101/gr.123356.111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3166836PMC
September 2011

Cactus graphs for genome comparisons.

J Comput Biol 2011 Mar;18(3):469-81

Center for Biomolecular Science and Engineering, University of California, Santa Cruz, California, USA.

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http://dx.doi.org/10.1089/cmb.2010.0252DOI Listing
March 2011

The genealogy and genetic viability of reintroduced Yellowstone grey wolves.

Mol Ecol 2008 Jan 18;17(1):252-74. Epub 2007 Sep 18.

University of California, Los Angeles, Ecology and Evolutionary Biology, 621 Charles E. Young Dr South, Los Angeles, CA 90095, USA.

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http://dx.doi.org/10.1111/j.1365-294X.2007.03468.xDOI Listing
January 2008