Strain-level metagenomic assignment and compositional estimation for long reads with MetaMaps

por Alexander T. Dilthey, Chirag Jain, Sergey Koren, Adam M. Phillippy
Publicado 2019

High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries

por Chirag Jain, Luis M. Rodriguez-R, Adam M. Phillippy, Konstantinos T. Konstantinidis, Srinivas Aluru
Publicado 2018

The genomic structure of a human chromosome 22 nucleolar organizer region determined by TAR cloning

por Jung-Hyun Kim, Vladimir N. Noskov, Aleksey Y. Ogurtsov, Ramaiah Nagaraja, Nikolai Petrov, Mikhail Liskovykh, Brian P. Walenz, Hee-Sheung Lee, Natalay Kouprina, Adam M. Phillippy, Svetlana A. Shabalina, David Schlessinger, Vladimir Larionov
Publicado 2021

Extended haplotype-phasing of long-read de novo genome assemblies using Hi-C

por Zev N. Kronenberg, Arang Rhie, Sergey Koren, Gregory T. Concepcion, Paul Peluso, Katherine M. Munson, David Porubsky, Kristen Kuhn, Kathryn A. Mueller, Wai Yee Low, Stefan Hiendleder, Olivier Fedrigo, Ivan Liachko, Richard J. Hall, Adam M. Phillippy, Evan E. Eichler, John L. Williams, Timothy P. L. Smith, Erich D. Jarvis, Shawn T. Sullivan, Sarah B. Kingan
Publicado 2021

Haplotype-resolved genomes provide insights into structural variation and gene content in Angus and Brahman cattle

por Wai Yee Low, Rick Tearle, Ruijie Liu, Sergey Koren, Arang Rhie, Derek M. Bickhart, Benjamin D. Rosen, Zev N. Kronenberg, Sarah B. Kingan, Elizabeth Tseng, Françoise Thibaud-Nissen, Fergal J. Martin, Konstantinos Billis, Jay Ghurye, Alex R. Hastie, Joyce Lee, Andy W. C. Pang, Michael P. Heaton, Adam M. Phillippy, Stefan Hiendleder, Timothy P. L. Smith, John L. Williams
Publicado 2020

Effect of sequence depth and length in long-read assembly of the maize inbred NC358

por Shujun Ou, Jianing Liu, Kapeel M. Chougule, Arkarachai Fungtammasan, Arun S. Seetharam, Joshua C. Stein, Victor Llaca, Nancy Manchanda, Amanda M. Gilbert, Sharon Wei, Chen-Shan Chin, David E. Hufnagel, Sarah Pedersen, Samantha J. Snodgrass, Kevin Fengler, Margaret Woodhouse, Brian P. Walenz, Sergey Koren, Adam M. Phillippy, Brett T. Hannigan, R. Kelly Dawe, Candice N. Hirsch, Matthew B. Hufford, Doreen Ware
Publicado 2020

The channel catfish genome sequence provides insights into the evolution of scale formation in teleosts

por Zhanjiang Liu, Shikai Liu, Jun Yao, Lisui Bao, Jiaren Zhang, Yun Li, Chen Jiang, Luyang Sun, Ruijia Wang, Yu Zhang, Tao Zhou, Qifan Zeng, Qiang Fu, Sen Gao, Ning Li, Sergey Koren, Yanliang Jiang, Aleksey Zimin, Peng Xu, Adam M. Phillippy, Xin Geng, Lin Song, Fanyue Sun, Chao Li, Xiaozhu Wang, Ailu Chen, Yulin Jin, Zihao Yuan, Yujia Yang, Suxu Tan, Eric Peatman, Jianguo Lu, Zhenkui Qin, Rex Dunham, Zhaoxia Li, Tad Sonstegard, Jianbin Feng, Roy G. Danzmann, Steven Schroeder, Brian Scheffler, Mary V. Duke, Linda Ballard, Huseyin Kucuktas, Ludmilla Kaltenboeck, Haixia Liu, Jonathan Armbruster, Yangjie Xie, Mona L. Kirby, Yi Tian, Mary Elizabeth Flanagan, Weijie Mu, Geoffrey C. Waldbieser
Publicado 2016