A
Andrey Bzikadze
Researcher at University of California, San Diego
Publications - 28
Citations - 1318
Andrey Bzikadze is an academic researcher from University of California, San Diego. The author has contributed to research in topics: Genome & Centromere. The author has an hindex of 10, co-authored 23 publications receiving 622 citations. Previous affiliations of Andrey Bzikadze include Saint Petersburg State University & University of California, Berkeley.
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Journal ArticleDOI
Telomere-to-telomere assembly of a complete human X chromosome
Karen H. Miga,Sergey Koren,Arang Rhie,Mitchell R. Vollger,Ariel Gershman,Andrey Bzikadze,Shelise Brooks,Edmund Howe,David Porubsky,Glennis A. Logsdon,Valerie A. Schneider,Tamara A. Potapova,Jonathan Wood,William Chow,Joel Armstrong,Jeanne Fredrickson,Evgenia Pak,Kristof Tigyi,Milinn Kremitzki,Christopher Markovic,Valerie Maduro,Amalia Dutra,Gerard G. Bouffard,Alexander M. Chang,Nancy F. Hansen,Amy B. Wilfert,Françoise Thibaud-Nissen,Anthony D. Schmitt,Jon Matthew Belton,Siddarth Selvaraj,Megan Y. Dennis,Daniela C. Soto,Ruta Sahasrabudhe,Gulhan Kaya,Josh Quick,Nicholas J. Loman,Nadine Holmes,Matthew Loose,Urvashi Surti,Rosa Ana Risques,Tina A. Graves Lindsay,Robert S. Fulton,Ira M. Hall,Benedict Paten,Kerstin Howe,Winston Timp,Alice Young,James C. Mullikin,Pavel A. Pevzner,Jennifer L. Gerton,Beth A. Sullivan,Evan E. Eichler,Adam M. Phillippy +52 more
TL;DR: High-coverage, ultra-long-read nanopore sequencing is used to create a new human genome assembly that improves on the coverage and accuracy of the current reference (GRCh38) and includes the gap-free, telomere-to-telomere sequence of the X chromosome.
Journal ArticleDOI
The structure, function and evolution of a complete human chromosome 8
Glennis A. Logsdon,Mitchell R. Vollger,PingHsun Hsieh,Yafei Mao,Mikhail Liskovykh,Sergey Koren,Sergey Nurk,Ludovica Mercuri,Philip C. Dishuck,Arang Rhie,Leonardo G. de Lima,Tatiana Dvorkina,David Porubsky,William T. Harvey,Alla Mikheenko,Andrey Bzikadze,Milinn Kremitzki,Tina A. Graves-Lindsay,Chirag Jain,Kendra Hoekzema,Shwetha C. Murali,Katherine M. Munson,Carl Baker,Melanie Sorensen,Alexandra M. Lewis,Urvashi Surti,Jennifer L. Gerton,Vladimir Larionov,Mario Ventura,Karen H. Miga,Adam M. Phillippy,Evan E. Eichler +31 more
TL;DR: In this article, the authors used complementary long-read sequencing technologies to complete the linear assembly of human chromosome 8, including a 2.08-Mb centromeric α-satellite array, a 644-kb copy number polymorphism in the β-defensin gene cluster that is important for disease risk, and an 863-kb variable number tandem repeat at chromosome 8q21.2 that can function as a neocentromere.
Posted ContentDOI
The structure, function, and evolution of a complete human chromosome 8
Glennis A. Logsdon,Mitchell R. Vollger,PingHsun Hsieh,Yafei Mao,Mikhail Liskovykh,Sergey Koren,Sergey Nurk,Ludovica Mercuri,Philip C. Dishuck,Arang Rhie,Leonardo G. de Lima,David Porubsky,Andrey Bzikadze,Milinn Kremitzki,Tina A. Graves-Lindsay,Chirag Jain,Kendra Hoekzema,Shwetha C. Murali,Shwetha C. Murali,Katherine M. Munson,Carl Baker,Melanie Sorensen,Alexandra M. Lewis,Urvashi Surti,Jennifer L. Gerton,Vladimir Larionov,Mario Ventura,Karen H. Miga,Adam M. Phillippy,Evan E. Eichler,Evan E. Eichler +30 more
TL;DR: Comparative and phylogenetic analyses show that the higher-order α-satellite structure evolved specifically in the great ape ancestor, and the centromeric region evolved with a layered symmetry, with more ancient higher- order repeats located at the periphery adjacent to monomeric α-Satellites.
Posted ContentDOI
The complete sequence of a human genome
Sergey Nurk,Sergey Koren,Arang Rhie,Rautiainen M,Andrey Bzikadze,Alla Mikheenko,Mitchell R. Vollger,Nicolas Altemose,Lev Uralsky,Ariel Gershman,Sergey Aganezov,Hoyt Sj,Mark Diekhans,Glennis A. Logsdon,Michael Alonge,Stylianos E. Antonarakis,Borchers M,Gerry Bouffard,Shelise Brooks,Caldas Gv,Hwei-Ling Cheng,Chen-Shan Chin,William Chow,de Lima Lg,Philip C. Dishuck,Richard Durbin,Tatiana Dvorkina,Ian T. Fiddes,Giulio Formenti,Robert S. Fulton,Arkarachai Fungtammasan,Erik Garrison,P. G. S. Grady,Tina A. Graves-Lindsay,Ira M. Hall,Nancy F. Hansen,Gabrielle A. Hartley,Marina Haukness,Kerstin Howe,Michael W. Hunkapiller,Chirag Jain,Miten Jain,Erich D. Jarvis,Peter Kerpedjiev,Melanie Kirsche,Mikhail Kolmogorov,Jonas Korlach,Milinn Kremitzki,Huiyan Li,Valerie Maduro,Tobias Marschall,Ann McCartney,Jennifer McDaniel,Danny E. Miller,Jim C. Mullikin,Eugene W. Myers,Nathan D. Olson,Benedict Paten,Paul Peluso,Pavel A. Pevzner,David Porubsky,Tamara A. Potapova,Evgeny I. Rogaev,Jill A. Rosenfeld,Steven L. Salzberg,Valerie A. Schneider,Fritz J. Sedlazeck,Kishwar Shafin,Colin J. Shew,Alaina Shumate,Ying Sims,Smit Afa,Daniela C. Soto,Ivan Sović,Jessica M. Storer,Aaron M. Streets,Beth A. Sullivan,Françoise Thibaud-Nissen,James Torrance,Justin Wagner,Brian P. Walenz,Aaron M. Wenger,Wood Jmd,Chunlin Xiao,Stephanie M Yan,Alice Young,Samantha Zarate,Urvashi Surti,Rajiv C. McCoy,Megan Y. Dennis,Ivan Alexandrov,Ivan Alexandrov,Jennifer L. Gerton,Rachel J. O’Neill,Winston Timp,Justin M. Zook,Michael C. Schatz,Evan E. Eichler,Karen H. Miga,Adam M. Phillippy +99 more
TL;DR: The T2T-CHM13 reference as mentioned in this paper contains gapless assemblies for all 22 autosomes plus Chromosome X, corrected numerous errors, and introduced nearly 200 million bp of novel sequence containing 2,226 paralogous gene copies, 115 of which are predicted to be protein coding.
Posted ContentDOI
Telomere-to-telomere assembly of a complete human X chromosome
Karen H. Miga,Sergey Koren,Arang Rhie,Mitchell R. Vollger,Ariel Gershman,Andrey Bzikadze,Shelise Brooks,Edmund Howe,David Porubsky,Glennis A. Logsdon,Valerie A. Schneider,Tamara A. Potapova,Jonathan Wood,William Chow,Joel Armstrong,Jeanne Fredrickson,Evgenia Pak,Kristof Tigyi,Milinn Kremitzki,Christopher Markovic,Valerie Maduro,Amalia Dutra,Gerard G. Bouffard,Alexander M. Chang,Nancy F. Hansen,Françoise Thibaud-Nissen,Anthony D. Schmitt,Jon Matthew Belton,Siddarth Selvaraj,Megan Y. Dennis,Daniela C. Soto,Ruta Sahasrabudhe,Gulhan Kaya,Josh Quick,Nicholas J. Loman,Nadine Holmes,Matthew Loose,Urvashi Surti,Rosa Ana Risques,Tina A. Graves Lindsay,Robert S. Fulton,Ira M. Hall,Benedict Paten,Kerstin Howe,Winston Timp,Alice Young,James C. Mullikin,Pavel A. Pevzner,Jennifer L. Gerton,Beth A. Sullivan,Evan E. Eichler,Evan E. Eichler,Adam M. Phillippy +52 more
TL;DR: A de novo human genome assembly that surpasses the continuity of GRCh38 2, along with the first gapless, telomere-to-telomere assembly of a human chromosome is presented, demonstrating that finishing the human genome is now within reach and will enable ongoing efforts to complete the remaining human chromosomes.