Searching journal content for Mark J.P. Chaisson in author.

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  1. Resource: An integrative TAD catalog in lymphoblastoid cell lines discloses the functional impact of deletions and insertions in human genomes
    • Chong Li,
    • Marc Jan Bonder,
    • Sabriya Syed,
    • Matthew Jensen,
    • Human Genome Structural Variation Consortium (HGSVC),
    • HGSVC Functional Analysis Working Group,
    • Mark B. Gerstein,
    • Michael C. Zody,
    • Mark J.P. Chaisson,
    • Michael E. Talkowski,
    • Tobias Marschall,
    • Jan O. Korbel,
    • Evan E. Eichler,
    • Charles Lee,
    • and Xinghua Shi
    Genome Res. December 2024 34: 2304-2318; Published in Advance December 5, 2024, doi:10.1101/gr.279419.124
  2. Research: Gaps and complex structurally variant loci in phased genome assemblies
    • David Porubsky,
    • Mitchell R. Vollger,
    • William T. Harvey,
    • Allison N. Rozanski,
    • Peter Ebert,
    • Glenn Hickey,
    • Patrick Hasenfeld,
    • Ashley D. Sanders,
    • Catherine Stober,
    • Human Pangenome Reference Consortium,
    • Jan O. Korbel,
    • Benedict Paten,
    • Tobias Marschall,
    • and Evan E. Eichler
    Genome Res. April 2023 33: 496-510; Published in Advance May 10, 2023, doi:10.1101/gr.277334.122
    OPEN ACCESS ARTICLE
  3. Research: The motif composition of variable number tandem repeats impacts gene expression
    • Tsung-Yu Lu,
    • Paulina N. Smaruj,
    • Geoffrey Fudenberg,
    • Nicholas Mancuso,
    • and Mark J.P. Chaisson
    Genome Res. April 2023 33: 511-524; Published in Advance April 10, 2023, doi:10.1101/gr.276768.122
    OPEN ACCESS ARTICLE
  4. Corrigendum: Corrigendum: Discovery and genotyping of structural variation from long-read haploid genome sequence data
    • John Huddleston,
    • Mark J.P. Chaisson,
    • Karyn Meltz Steinberg,
    • Wes Warren,
    • Kendra Hoekzema,
    • David Gordon,
    • Tina A. Graves-Lindsay,
    • Katherine M. Munson,
    • Zev N. Kronenberg,
    • Laura Vives,
    • Paul Peluso,
    • Matthew Boitano,
    • Chen-Shin Chin,
    • Jonas Korlach,
    • Richard K. Wilson,
    • and Evan E. Eichler
    Genome Res. January 2018 28: 144; doi:10.1101/gr.233007.117
    OPEN ACCESS ARTICLE
  5. Research: Discovery and genotyping of structural variation from long-read haploid genome sequence data
    • John Huddleston,
    • Mark J.P. Chaisson,
    • Karyn Meltz Steinberg,
    • Wes Warren,
    • Kendra Hoekzema,
    • David Gordon,
    • Tina A. Graves-Lindsay,
    • Katherine M. Munson,
    • Zev N. Kronenberg,
    • Laura Vives,
    • Paul Peluso,
    • Matthew Boitano,
    • Chen-Shin Chin,
    • Jonas Korlach,
    • Richard K. Wilson,
    • and Evan E. Eichler
    Genome Res. May 2017 27: 677-685; Published in Advance November 28, 2016, doi:10.1101/gr.214007.116
  6. Method: HySA: a Hybrid Structural variant Assembly approach using next-generation and single-molecule sequencing technologies
    • Xian Fan,
    • Mark Chaisson,
    • Luay Nakhleh,
    • and Ken Chen
    Genome Res. May 2017 27: 793-800; Published in Advance January 19, 2017, doi:10.1101/gr.214767.116
  7. Method: Reconstructing complex regions of genomes using long-read sequencing technology
    • John Huddleston,
    • Swati Ranade,
    • Maika Malig,
    • Francesca Antonacci,
    • Mark Chaisson,
    • Lawrence Hon,
    • Peter H. Sudmant,
    • Tina A. Graves,
    • Can Alkan,
    • Megan Y. Dennis,
    • Richard K. Wilson,
    • Stephen W. Turner,
    • Jonas Korlach,
    • and Evan E. Eichler
    Genome Res. April 2014 24: 688-696; Published in Advance January 13, 2014, doi:10.1101/gr.168450.113
  8. RESOURCE: De novo fragment assembly with short mate-paired reads: Does the read length matter?
    • Mark J. Chaisson,
    • Dumitru Brinza,
    • and Pavel A. Pevzner
    Genome Res. February 2009 19: 336-346; Published in Advance December 3, 2008, doi:10.1101/gr.079053.108
  9. Methods: Short read fragment assembly of bacterial genomes
    • Mark J. Chaisson and
    • Pavel A. Pevzner
    Genome Res. February 2008 18: 324-330; Published in Advance December 14, 2007, doi:10.1101/gr.7088808
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