KmerKeys: a web resource for searching indexed genome assemblies and variants

por Pavlichin, Dmitri S, Lee, HoJoon, Greer, Stephanie U, Grimes, Susan M, Weissman, Tsachy, Ji, Hanlee P
Publicado 2022

Pan-conserved segment tags identify ultra-conserved sequences across assemblies in the human pangenome

por Lee, HoJoon, Greer, Stephanie U., Pavlichin, Dmitri S., Zhou, Bo, Urban, Alexander E., Weissman, Tsachy, Ji, Hanlee P.
Publicado 2023

Targeted short read sequencing and assembly of re-arrangements and candidate gene loci provide megabase diplotypes

por Shin, GiWon, Greer, Stephanie U, Xia, Li C, Lee, HoJoon, Zhou, Jun, Boles, T Christian, Ji, Hanlee P
Publicado 2019

Characterization of the consensus mucosal microbiome of colorectal cancer

por Zhao, Lan, Grimes, Susan M, Greer, Stephanie U, Kubit, Matthew, Lee, HoJoon, Nadauld, Lincoln D, Ji, Hanlee P
Publicado 2021

Implementation of Nanopore sequencing as a pragmatic workflow for copy number variant confirmation in the clinic

por Greer, Stephanie U., Botello, Jacquelin, Hongo, Donna, Levy, Brynn, Shah, Premal, Rabinowitz, Matthew, Miller, Danny E., Im, Kate, Kumar, Akash
Publicado 2023

Linked read sequencing resolves complex genomic rearrangements in gastric cancer metastases

por Greer, Stephanie U., Nadauld, Lincoln D., Lau, Billy T., Chen, Jiamin, Wood-Bouwens, Christina, Ford, James M., Kuo, Calvin J., Ji, Hanlee P.
Publicado 2017

Chromosome-scale mega-haplotypes enable digital karyotyping of cancer aneuploidy

por Bell, John M., Lau, Billy T., Greer, Stephanie U., Wood-Bouwens, Christina, Xia, Li C., Connolly, Ian D., Gephart, Melanie H., Ji, Hanlee P.
Publicado 2017

Profiling diverse sequence tandem repeats in colorectal cancer reveals co-occurrence of microsatellite and chromosomal instability involving Chromosome 8

por Shin, GiWon, Greer, Stephanie U., Hopmans, Erik, Grimes, Susan M., Lee, HoJoon, Zhao, Lan, Miotke, Laura, Suarez, Carlos, Almeda, Alison F., Haraldsdottir, Sigurdis, Ji, Hanlee P.
Publicado 2021

Whole genome analysis identifies the association of TP53 genomic deletions with lower survival in Stage III colorectal cancer

por Xia, Li C., Van Hummelen, Paul, Kubit, Matthew, Lee, HoJoon, Bell, John M., Grimes, Susan M., Wood-Bouwens, Christina, Greer, Stephanie U., Barker, Tyler, Haslem, Derrick S., Ford, James M., Fulde, Gail, Ji, Hanlee P., Nadauld, Lincoln D.
Publicado 2020

Haplotype-resolved and integrated genome analysis of the cancer cell line HepG2

por Zhou, Bo, Ho, Steve S, Greer, Stephanie U, Spies, Noah, Bell, John M, Zhang, Xianglong, Zhu, Xiaowei, Arthur, Joseph G, Byeon, Seunggyu, Pattni, Reenal, Saha, Ishan, Huang, Yiling, Song, Giltae, Perrin, Dimitri, Wong, Wing H, Ji, Hanlee P, Abyzov, Alexej, Urban, Alexander E
Publicado 2019

Germline variants of ATG7 in familial cholangiocarcinoma alter autophagy and p62

por Greer, Stephanie U., Chen, Jiamin, Ogmundsdottir, Margret H., Ayala, Carlos, Lau, Billy T., Delacruz, Richard Glenn C., Sandoval, Imelda T., Kristjansdottir, Sigrun, Jones, David A., Haslem, Derrick S., Romero, Robin, Fulde, Gail, Bell, John M., Jonasson, Jon G., Steingrimsson, Eirikur, Ji, Hanlee P., Nadauld, Lincoln D.
Publicado 2022

Comprehensive, integrated, and phased whole-genome analysis of the primary ENCODE cell line K562

por Zhou, Bo, Ho, Steve S., Greer, Stephanie U., Zhu, Xiaowei, Bell, John M., Arthur, Joseph G., Spies, Noah, Zhang, Xianglong, Byeon, Seunggyu, Pattni, Reenal, Ben-Efraim, Noa, Haney, Michael S., Haraksingh, Rajini R., Song, Giltae, Ji, Hanlee P., Perrin, Dimitri, Wong, Wing H., Abyzov, Alexej, Urban, Alexander E.
Publicado 2019