Search Results - Zev Kronenberg

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  1. 1
    Vcflib and tools for processing the VCF variant call format

    Vcflib and tools for processing the VCF variant call format by Erik Garrison, Zev Kronenberg, Eric T. Dawson, Brent S. Pedersen, Pjotr Prins

    Published 2021
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  2. 2
    A spectrum of free software tools for processing the VCF variant call format: vcflib, bio-vcf, cyvcf2, hts-nim and slivar

    A spectrum of free software tools for processing the VCF variant call format: vcflib, bio-vcf, cyvcf2, hts-nim and slivar by Erik Garrison, Zev Kronenberg, Eric T. Dawson, Brent S. Pedersen, Pjotr Prins

    Published 2022
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  3. 3
    HiPhase: jointly phasing small, structural, and tandem repeat variants from HiFi sequencing

    HiPhase: jointly phasing small, structural, and tandem repeat variants from HiFi sequencing by James Holt, Christopher T. Saunders, William J. Rowell, Zev Kronenberg, Aaron M. Wenger, Michael A. Eberle

    Published 2024
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  4. 4
    Transposable Elements Are Major Contributors to the Origin, Diversification, and Regulation of Vertebrate Long Noncoding RNAs

    Transposable Elements Are Major Contributors to the Origin, Diversification, and Regulation of Vertebrate Long Noncoding RNAs by Aurélie Kapusta, Zev Kronenberg, Vincent J. Lynch, Xiaoyu Zhuo, LeeAnn Ramsay, Guillaume Bourque, Mark Yandell, Cédric Feschotte

    Published 2013
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  5. 5
    FALCON-Phase: Integrating PacBio and Hi-C data for phased diploid genomes

    FALCON-Phase: Integrating PacBio and Hi-C data for phased diploid genomes by Zev Kronenberg, Richard Hall, Stefan Hiendleder, Timothy P. L. Smith, Shawn Sullivan, J. L. Williams, Sarah B. Kingan

    Published 2018
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  6. 6
    Wham: Identifying Structural Variants of Biological Consequence

    Wham: Identifying Structural Variants of Biological Consequence by Zev Kronenberg, Edward J. Osborne, Kelsey R. Cone, Brett Kennedy, Eric T. Domyan, Michael D. Shapiro, Nels C. Elde, Mark Yandell

    Published 2015
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  7. 7
    Sawfish: Improving long-read structural variant discovery and genotyping with local haplotype modeling

    Sawfish: Improving long-read structural variant discovery and genotyping with local haplotype modeling by Christopher T. Saunders, James Holt, Daniel Baker, Juniper A. Lake, Jonathan R. Belyeu, Zev Kronenberg, William J. Rowell, Michael A. Eberle

    Published 2025
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  8. 8
    Hi-C deconvolution of a human gut microbiome yields high-quality draft genomes and reveals plasmid-genome interactions

    Hi-C deconvolution of a human gut microbiome yields high-quality draft genomes and reveals plasmid-genome interactions by Maximilian O. Press, Andrew Wiser, Zev Kronenberg, Kyle W. Langford, Migun Shakya, Chien‐Chi Lo, Kathryn A. Mueller, Shawn Sullivan, Patrick Chain, Ivan Liachko

    Published 2017
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  9. 9
    DisAp-dependent striated fiber elongation is required to organize ciliary arrays

    DisAp-dependent striated fiber elongation is required to organize ciliary arrays by Domenico F. Galati, Stephanie Bonney, Zev Kronenberg, Christina Clarissa, Mark Yandell, Nels C. Elde, Maria Jerka‐Dziadosz, Thomas H. Giddings, Joseph Frankel, Chad G. Pearson

    Published 2014
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  10. 10
    Comparative Annotation Toolkit (CAT)—simultaneous clade and personal genome annotation

    Comparative Annotation Toolkit (CAT)—simultaneous clade and personal genome annotation by Ian T. Fiddes, Joel Armstrong, Mark Diekhans, Stefanie Nachtweide, Zev Kronenberg, Jason G. Underwood, David Gordon, Dent Earl, Thomas Keane, Evan E. Eichler, David Haussler, Mario Stanke, Benedict Paten

    Published 2018
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  11. 11
    Long-read assembly of the Chinese rhesus macaque genome and identification of ape-specific structural variants

    Long-read assembly of the Chinese rhesus macaque genome and identification of ape-specific structural variants by Yaoxi He, Xin Luo, Bin Zhou, Ting Hu, Xiaoyu Meng, Peter A. Audano, Zev Kronenberg, Evan E. Eichler, Jie Jin, Y. Guo, Yanan Yang, Xuebin Qi, Bing Su

    Published 2019
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  12. 12
    Introgression of regulatory alleles and a missense coding mutation drive plumage pattern diversity in the rock pigeon

    Introgression of regulatory alleles and a missense coding mutation drive plumage pattern diversity in the rock pigeon by Anna I. Vickrey, Rebecca Bruders, Zev Kronenberg, Emma J. Mackey, Ryan J. Bohlender, Emily Maclary, Raquel Maynez, Edward J. Osborne, Kevin P. Johnson, Chad Huff, Mark Yandell, Michael D. Shapiro

    Published 2018
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  13. 13
    Epistatic and Combinatorial Effects of Pigmentary Gene Mutations in the Domestic Pigeon

    Epistatic and Combinatorial Effects of Pigmentary Gene Mutations in the Domestic Pigeon by Eric T. Domyan, Michael W Guernsey, Zev Kronenberg, Shreyas Krishnan, Raymond E. Boissy, Anna I. Vickrey, Clifford Rodgers, Pamela B. Cassidy, Sancy A. Leachman, John W. Fondon, Mark Yandell, Michael D. Shapiro

    Published 2014
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  14. 14
    Genomic Patterns of De Novo Mutation in Simplex Autism

    Genomic Patterns of De Novo Mutation in Simplex Autism by Tychele N. Turner, Bradley P. Coe, Diane E. Dickel, Kendra Hoekzema, Bradley J. Nelson, Michael C. Zody, Zev Kronenberg, Fereydoun Hormozdiari, Archana N. Raja, L Pennacchio, Robert B. Darnell, Evan E. Eichler

    Published 2017
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  15. 15
    Molecular shifts in limb identity underlie development of feathered feet in two domestic avian species

    Molecular shifts in limb identity underlie development of feathered feet in two domestic avian species by Eric T. Domyan, Zev Kronenberg, Carlos R. Infante, Anna I. Vickrey, Sydney A. Stringham, Rebecca Bruders, Michael W Guernsey, Sungdae Park, J. A. Payne, Robert B. Beckstead, Gabrielle Kardon, Douglas B. Menke, Mark Yandell, Michael D. Shapiro

    Published 2016
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  16. 16
    Extended haplotype phasing of <i>de novo</i> genome assemblies with FALCON-Phase

    Extended haplotype phasing of <i>de novo</i> genome assemblies with FALCON-Phase by Zev Kronenberg, Arang Rhie, Sergey Koren, Gregory T. Concepcion, Paul Peluso, Katherine M. Munson, Stefan Hiendleder, Olivier Fédrigo, Erich D. Jarvis, Adam M. Phillippy, Evan E. Eichler, J. L. Williams, Tim Smith, Richard Hall, Shawn Sullivan, Sarah B. Kingan

    Published 2018
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  17. 17
    Discovery and genotyping of structural variation from long-read haploid genome sequence data

    Discovery and genotyping of structural variation from long-read haploid genome sequence data by John Huddleston, Mark Chaisson, Karyn Meltz Steinberg, Wes Warren, Kendra Hoekzema, David Gordon, Tina A. Graves-Lindsay, Katherine M. Munson, Zev Kronenberg, Laura Vives, Paul Peluso, Matthew Boitano, Chen-Shin Chin, Jonas Korlach, Richard K. Wilson, Evan E. Eichler

    Published 2016
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  18. 18
    Interchromosomal core duplicons drive both evolutionary instability and disease susceptibility of the Chromosome 8p23.1 region

    Interchromosomal core duplicons drive both evolutionary instability and disease susceptibility of the Chromosome 8p23.1 region by Kiana Mohajeri, Stuart Cantsilieris, John Huddleston, Bradley J. Nelson, Bradley P. Coe, Catarina D. Campbell, Carl Baker, Lana Harshman, Katherine M. Munson, Zev Kronenberg, Milinn Kremitzki, Archana N. Raja, Claudia Rita Catacchio, Tina Graves, Richard K. Wilson, Mario Ventura, Evan E. Eichler

    Published 2016
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  19. 19
    Improved assembly and variant detection of a haploid human genome using single‐molecule, high‐fidelity long reads

    Improved assembly and variant detection of a haploid human genome using single‐molecule, high‐fidelity long reads by Mitchell R. Vollger, Glennis A. Logsdon, Peter A. Audano, Arvis Sulovari, David Porubský, Paul Peluso, Aaron M. Wenger, Gregory T. Concepcion, Zev Kronenberg, Katherine M. Munson, Carl Baker, Ashley D. Sanders, Diana C.J. Spierings, Peter M. Lansdorp, Urvashi Surti, Michael W. Hunkapiller, Evan E. Eichler

    Published 2019
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  20. 20
    Long-read sequence assembly of the gorilla genome

    Long-read sequence assembly of the gorilla genome by David Gordon, John Huddleston, Mark Chaisson, C. Hill, Zev Kronenberg, Katherine M. Munson, Maika Malig, Archana N. Raja, Ian T. Fiddes, LaDeana Hillier, Christopher Dunn, Carl Baker, Joel Armstrong, Mark Diekhans, Benedict Paten, Jay Shendure, Richard K. Wilson, David Haussler, Chen-Shan Chin, Evan E. Eichler

    Published 2016
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