J
Jacob O. Kitzman
Researcher at University of Michigan
Publications - 90
Citations - 15629
Jacob O. Kitzman is an academic researcher from University of Michigan. The author has contributed to research in topics: Gene & Genome. The author has an hindex of 38, co-authored 77 publications receiving 13008 citations. Previous affiliations of Jacob O. Kitzman include University of Washington & Massachusetts Institute of Technology.
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Journal ArticleDOI
The complete genome sequence of a Neanderthal from the Altai Mountains
Kay Prüfer,Fernando Racimo,Nick Patterson,Flora Jay,Sriram Sankararaman,Susanna Sawyer,Anja Heinze,Gabriel Renaud,Peter H. Sudmant,Cesare de Filippo,Heng Li,Swapan Mallick,Michael Dannemann,Qiaomei Fu,Martin Kircher,Martin Kuhlwilm,Michael Lachmann,Matthias Meyer,Matthias Ongyerth,Michael Siebauer,Christoph Theunert,Arti Tandon,Priya Moorjani,Joseph K. Pickrell,James C. Mullikin,Samuel H. Vohr,Richard E. Green,Ines Hellmann,Philip L. F. Johnson,Hélène Blanché,Howard M. Cann,Jacob O. Kitzman,Jay Shendure,Evan E. Eichler,Ed S. Lein,Trygve E. Bakken,Liubov V. Golovanova,Vladimir B. Doronichev,Michael V. Shunkov,A.P. Derevianko,Bence Viola,Montgomery Slatkin,David Reich,Janet Kelso,Svante Pääbo +44 more
TL;DR: It is shown that interbreeding, albeit of low magnitude, occurred among many hominin groups in the Late Pleistocene and a definitive list of substitutions that became fixed in modern humans after their separation from the ancestors of Neanderthals and Denisovans is established.
Journal ArticleDOI
A high-coverage genome sequence from an archaic Denisovan individual
Matthias Meyer,Martin Kircher,Marie Theres Gansauge,Heng Li,Fernando Racimo,Swapan Mallick,Swapan Mallick,Joshua G. Schraiber,Flora Jay,Kay Prüfer,Cesare de Filippo,Peter H. Sudmant,Can Alkan,Can Alkan,Qiaomei Fu,Qiaomei Fu,Ron Do,Nadin Rohland,Nadin Rohland,Arti Tandon,Arti Tandon,Michael Siebauer,Richard E. Green,Katarzyna Bryc,Adrian W. Briggs,Udo Stenzel,Jesse Dabney,Jay Shendure,Jacob O. Kitzman,Michael F. Hammer,Michael V. Shunkov,A.P. Derevianko,Nick Patterson,Aida M. Andrés,Evan E. Eichler,Evan E. Eichler,Montgomery Slatkin,David Reich,David Reich,Janet Kelso,Svante Pääbo +40 more
TL;DR: The genomic sequence provides evidence for very low rates of heterozygosity in the Denisova, probably not because of recent inbreeding, but instead because of a small population size, and illuminates the relationships between humans and archaics, including Neandertals, and establishes a catalog of genetic changes within the human lineage.
Journal ArticleDOI
Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions
TL;DR: Genomes assembled de novo from short reads are highly fragmented relative to the finished chromosomes of Homo sapiens and key model organisms generated by the Human Genome Project, so genome-wide chromatin interaction data sets, such as those generated by Hi-C, are a rich source of long-range information for assigning, ordering and orienting genomic sequences to chromosomes, including across centromeres.
Journal ArticleDOI
Personalized copy number and segmental duplication maps using next-generation sequencing
Can Alkan,Jeffrey M. Kidd,Tomas Marques-Bonet,Tomas Marques-Bonet,Gozde Aksay,Francesca Antonacci,Fereydoun Hormozdiari,Jacob O. Kitzman,Carl Baker,Maika Malig,Onur Mutlu,S. Cenk Sahinalp,Richard A. Gibbs,Evan E. Eichler,Evan E. Eichler +14 more
TL;DR: An algorithm (mrFAST) is presented to comprehensively map next-generation sequence reads, which allows for the prediction of absolute copy-number variation of duplicated segments and genes, and can distinguish between different copies of highly identical genes.
Journal ArticleDOI
Genome evolution in the allotetraploid frog Xenopus laevis
Adam M. Session,Adam M. Session,Yoshinobu Uno,Taejoon Kwon,Taejoon Kwon,Jarrod Chapman,Atsushi Toyoda,Shuji Takahashi,Akimasa Fukui,Akira Hikosaka,Atsushi Suzuki,Mariko Kondo,Simon J. van Heeringen,Ian K. Quigley,Sven Heinz,Hajime Ogino,Haruki Ochi,Uffe Hellsten,Jessica B. Lyons,Oleg Simakov,Nicholas H. Putnam,Jonathan C. Stites,Yoko Kuroki,Toshiaki Tanaka,Tatsuo Michiue,Minoru Watanabe,Ozren Bogdanovic,Ryan Lister,Georgios Georgiou,Sarita S. Paranjpe,Ila van Kruijsbergen,Shengquiang Shu,Joseph W. Carlson,Tsutomu Kinoshita,Yuko Ohta,Shuuji Mawaribuchi,Jerry Jenkins,Jane Grimwood,Jeremy Schmutz,Therese Mitros,Sahar V. Mozaffari,Yutaka Suzuki,Yoshikazu Haramoto,Takamasa S. Yamamoto,Chiyo Takagi,Rebecca Heald,Kelly E. Miller,Christian D. Haudenschild,Jacob O. Kitzman,Takuya Nakayama,Yumi Izutsu,Jacques Robert,Joshua D. Fortriede,Kevin A. Burns,Vaneet Lotay,Kamran Karimi,Yuuri Yasuoka,Darwin S. Dichmann,Martin F. Flajnik,Douglas W. Houston,Jay Shendure,Louis DuPasquier,Peter D. Vize,Aaron M. Zorn,Michihiko Ito,Edward M. Marcotte,John B. Wallingford,Yuzuru Ito,Makoto Asashima,Naoto Ueno,Naoto Ueno,Yoichi Matsuda,Gert Jan C. Veenstra,Asao Fujiyama,Asao Fujiyama,Asao Fujiyama,Richard M. Harland,Masanori Taira,Daniel S. Rokhsar,Daniel S. Rokhsar,Daniel S. Rokhsar +80 more
TL;DR: The Xenopus laevis genome is sequenced and it is estimated that the two diploid progenitor species diverged around 34 million years ago and combined to form an allotetraploid around 17–18 Ma, where more than 56% of all genes were retained in two homoeologous copies.