Hanlee P Ji (Hanlee Ji)

ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 30

Top Venues

Genome medicine

Nature

Analytical chemistry

Proceedings of the National Academy of Sciences of the United States of America

This page only lists publications with an associated author ORCID identifier.

Publications

Bo Zhou, Carolin Purmann, Hanmin Guo, GiWon Shin, Yiling Huang, Reenal Pattni, Qingxi Meng, Stephanie U Greer, Tanmoy Roychowdhury, Raegan N Wood, Marcus Ho, Heinrich Zu Dohna, Alexej Abyzov, Joachim F Hallmayer, Wing Hung Wong, Hanlee P Ji, Alexander E Urban
Resolving the 22q11.2 deletion using CTLR-Seq reveals chromosomal rearrangement mechanisms and individual variance in breakpoints. Proceedings of the National Academy of Sciences of the United States of America 121 (31) (2024)
Bo Zhou, Carolin Purmann, Hanmin Guo, GiWon Shin, Yiling Huang, Reenal Pattni, Qingxi Meng, Stephanie U Greer, Tanmoy Roychowdhury, Raegan N Wood, Marcus Ho, Heinrich Zu Dohna, Alexej Abyzov, Joachim F Hallmayer, Wing Hung Wong, Hanlee P Ji, Alexander E Urban
Resolving the 22q11.2 deletion using CTLR-Seq reveals chromosomal rearrangement mechanisms and individual variance in breakpoints. Proceedings of the National Academy of Sciences of the United States of America 121 (31) (2024)
Bo Zhou, Carolin Purmann, Hanmin Guo, GiWon Shin, Yiling Huang, Reenal Pattni, Qingxi Meng, Stephanie U Greer, Tanmoy Roychowdhury, Raegan N Wood, Marcus Ho, Heinrich Zu Dohna, Alexej Abyzov, Joachim F Hallmayer, Wing Hung Wong, Hanlee P Ji, Alexander E Urban
Resolving the 22q11.2 deletion using CTLR-Seq reveals chromosomal rearrangement mechanisms and individual variance in breakpoints. Proceedings of the National Academy of Sciences of the United States of America 121 (31) (2024)
Adrian H Bustos, Elisa Martiny, Nadia Bom Pedersen, Rohith Pavan Parvathaneni, Jonas Hansen, Hanlee P Ji, Kira Astakhova
Short Tandem Repeat DNA Profiling Using Perylene-Oligonucleotide Fluorescence Assay. Analytical chemistry (2023)
Billy T Lau, Alison Almeda, Marie Schauer, Madeline McNamara, Xiangqi Bai, Qingxi Meng, Mira Partha, Susan M Grimes, HoJoon Lee, Gregory M Heestand, Hanlee P Ji
Single-molecule methylation profiles of cell-free DNA in cancer with nanopore sequencing. Genome medicine 15 (1) (2023)
Billy T Lau, Alison Almeda, Marie Schauer, Madeline McNamara, Xiangqi Bai, Qingxi Meng, Mira Partha, Susan M Grimes, HoJoon Lee, Gregory M Heestand, Hanlee P Ji
Single-molecule methylation profiles of cell-free DNA in cancer with nanopore sequencing. Genome medicine 15 (1) (2023)
Wen-Wei Liao, Mobin Asri, Jana Ebler, Daniel Doerr, Marina Haukness, Glenn Hickey, Shuangjia Lu, Julian K Lucas, Jean Monlong, Haley J Abel, Silvia Buonaiuto, Xian H Chang, Haoyu Cheng, Justin Chu, Vincenza Colonna, Jordan M Eizenga, Xiaowen Feng, Christian Fischer, Robert S Fulton, Shilpa Garg, Cristian Groza, Andrea Guarracino, William T Harvey, Simon Heumos, Kerstin Howe, Miten Jain, Tsung-Yu Lu, Charles Markello, Fergal J Martin, Matthew W Mitchell, Katherine M Munson, Moses Njagi Mwaniki, Adam M Novak, Hugh E Olsen, Trevor Pesout, David Porubsky, Pjotr Prins, Jonas A Sibbesen, Jouni Sirén, Chad Tomlinson, Flavia Villani, Mitchell R Vollger, Lucinda L Antonacci-Fulton, Gunjan Baid, Carl A Baker, Anastasiya Belyaeva, Konstantinos Billis, Andrew Carroll, Pi-Chuan Chang, Sarah Cody, Daniel E Cook, Robert M Cook-Deegan, Omar E Cornejo, Mark E Diekhans, Peter Ebert, Susan Fairley, Olivier Fedrigo, Adam L Felsenfeld, Giulio Formenti, Adam Frankish, Yan Gao, Nanibaa' A Garrison, Carlos Garcia Giron, Richard E Green, Leanne Haggerty, Kendra Hoekzema, Thibaut Hourlier, Hanlee P Ji, Eimear E Kenny, Barbara A Koenig, Alexey Kolesnikov, Jan O Korbel, Jennifer Kordosky, Sergey Koren, HoJoon Lee, Alexandra P Lewis, Hugo Magalhães, Santiago Marco-Sola, Pierre Marijon, Ann McCartney, Jennifer McDaniel, Jacquelyn Mountcastle, Maria Nattestad, Sergey Nurk, Nathan D Olson, Alice B Popejoy, Daniela Puiu, Mikko Rautiainen, Allison A Regier, Arang Rhie, Samuel Sacco, Ashley D Sanders, Valerie A Schneider, Baergen I Schultz, Kishwar Shafin, Michael W Smith, Heidi J Sofia, Ahmad N Abou Tayoun, Françoise Thibaud-Nissen, Francesca Floriana Tricomi, Justin Wagner, Brian P Walenz, Jonathan M D Wood, Aleksey V Zimin, Guillaume Bourque, Mark J P Chaisson, Paul Flicek, Adam M Phillippy, Justin M Zook, Evan E Eichler, David Haussler, Ting Wang, Erich D Jarvis, Karen H Miga, Erik P Garrison, Tobias Marschall, Ira M Hall, Heng Li, Benedict Paten
A draft human pangenome reference. Nature 617 (7960) (2023)
Susan M Grimes, Heon Seok Kim, Sharmili Roy, Anuja Sathe, Carlos I Ayala, Xiangqi Bai, Alison F Almeda-Notestine, Sarah Haebe, Tanaya Shree, Ronald Levy, Billy T Lau, Hanlee P Ji
Single-cell multi-gene identification of somatic mutations and gene rearrangements in cancer. NAR cancer 5 (3) (2023)
Wen-Wei Liao, Mobin Asri, Jana Ebler, Daniel Doerr, Marina Haukness, Glenn Hickey, Shuangjia Lu, Julian K Lucas, Jean Monlong, Haley J Abel, Silvia Buonaiuto, Xian H Chang, Haoyu Cheng, Justin Chu, Vincenza Colonna, Jordan M Eizenga, Xiaowen Feng, Christian Fischer, Robert S Fulton, Shilpa Garg, Cristian Groza, Andrea Guarracino, William T Harvey, Simon Heumos, Kerstin Howe, Miten Jain, Tsung-Yu Lu, Charles Markello, Fergal J Martin, Matthew W Mitchell, Katherine M Munson, Moses Njagi Mwaniki, Adam M Novak, Hugh E Olsen, Trevor Pesout, David Porubsky, Pjotr Prins, Jonas A Sibbesen, Jouni Sirén, Chad Tomlinson, Flavia Villani, Mitchell R Vollger, Lucinda L Antonacci-Fulton, Gunjan Baid, Carl A Baker, Anastasiya Belyaeva, Konstantinos Billis, Andrew Carroll, Pi-Chuan Chang, Sarah Cody, Daniel E Cook, Robert M Cook-Deegan, Omar E Cornejo, Mark E Diekhans, Peter Ebert, Susan Fairley, Olivier Fedrigo, Adam L Felsenfeld, Giulio Formenti, Adam Frankish, Yan Gao, Nanibaa' A Garrison, Carlos Garcia Giron, Richard E Green, Leanne Haggerty, Kendra Hoekzema, Thibaut Hourlier, Hanlee P Ji, Eimear E Kenny, Barbara A Koenig, Alexey Kolesnikov, Jan O Korbel, Jennifer Kordosky, Sergey Koren, HoJoon Lee, Alexandra P Lewis, Hugo Magalhães, Santiago Marco-Sola, Pierre Marijon, Ann McCartney, Jennifer McDaniel, Jacquelyn Mountcastle, Maria Nattestad, Sergey Nurk, Nathan D Olson, Alice B Popejoy, Daniela Puiu, Mikko Rautiainen, Allison A Regier, Arang Rhie, Samuel Sacco, Ashley D Sanders, Valerie A Schneider, Baergen I Schultz, Kishwar Shafin, Michael W Smith, Heidi J Sofia, Ahmad N Abou Tayoun, Françoise Thibaud-Nissen, Francesca Floriana Tricomi, Justin Wagner, Brian P Walenz, Jonathan M D Wood, Aleksey V Zimin, Guillaume Bourque, Mark J P Chaisson, Paul Flicek, Adam M Phillippy, Justin M Zook, Evan E Eichler, David Haussler, Ting Wang, Erich D Jarvis, Karen H Miga, Erik P Garrison, Tobias Marschall, Ira M Hall, Heng Li, Benedict Paten
A draft human pangenome reference. Nature 617 (7960) (2023)
Billy T Lau, Alison Almeda, Marie Schauer, Madeline McNamara, Xiangqi Bai, Qingxi Meng, Mira Partha, Susan M Grimes, HoJoon Lee, Gregory M Heestand, Hanlee P Ji
Single-molecule methylation profiles of cell-free DNA in cancer with nanopore sequencing. Genome medicine 15 (1) (2023)
Wen-Wei Liao, Mobin Asri, Jana Ebler, Daniel Doerr, Marina Haukness, Glenn Hickey, Shuangjia Lu, Julian K Lucas, Jean Monlong, Haley J Abel, Silvia Buonaiuto, Xian H Chang, Haoyu Cheng, Justin Chu, Vincenza Colonna, Jordan M Eizenga, Xiaowen Feng, Christian Fischer, Robert S Fulton, Shilpa Garg, Cristian Groza, Andrea Guarracino, William T Harvey, Simon Heumos, Kerstin Howe, Miten Jain, Tsung-Yu Lu, Charles Markello, Fergal J Martin, Matthew W Mitchell, Katherine M Munson, Moses Njagi Mwaniki, Adam M Novak, Hugh E Olsen, Trevor Pesout, David Porubsky, Pjotr Prins, Jonas A Sibbesen, Jouni Sirén, Chad Tomlinson, Flavia Villani, Mitchell R Vollger, Lucinda L Antonacci-Fulton, Gunjan Baid, Carl A Baker, Anastasiya Belyaeva, Konstantinos Billis, Andrew Carroll, Pi-Chuan Chang, Sarah Cody, Daniel E Cook, Robert M Cook-Deegan, Omar E Cornejo, Mark E Diekhans, Peter Ebert, Susan Fairley, Olivier Fedrigo, Adam L Felsenfeld, Giulio Formenti, Adam Frankish, Yan Gao, Nanibaa' A Garrison, Carlos Garcia Giron, Richard E Green, Leanne Haggerty, Kendra Hoekzema, Thibaut Hourlier, Hanlee P Ji, Eimear E Kenny, Barbara A Koenig, Alexey Kolesnikov, Jan O Korbel, Jennifer Kordosky, Sergey Koren, HoJoon Lee, Alexandra P Lewis, Hugo Magalhães, Santiago Marco-Sola, Pierre Marijon, Ann McCartney, Jennifer McDaniel, Jacquelyn Mountcastle, Maria Nattestad, Sergey Nurk, Nathan D Olson, Alice B Popejoy, Daniela Puiu, Mikko Rautiainen, Allison A Regier, Arang Rhie, Samuel Sacco, Ashley D Sanders, Valerie A Schneider, Baergen I Schultz, Kishwar Shafin, Michael W Smith, Heidi J Sofia, Ahmad N Abou Tayoun, Françoise Thibaud-Nissen, Francesca Floriana Tricomi, Justin Wagner, Brian P Walenz, Jonathan M D Wood, Aleksey V Zimin, Guillaume Bourque, Mark J P Chaisson, Paul Flicek, Adam M Phillippy, Justin M Zook, Evan E Eichler, David Haussler, Ting Wang, Erich D Jarvis, Karen H Miga, Erik P Garrison, Tobias Marschall, Ira M Hall, Heng Li, Benedict Paten
A draft human pangenome reference. Nature 617 (7960) (2023)
Anuja Sathe, Carlos Ayala, Xiangqi Bai, Susan M Grimes, Byrne Lee, Cindy Kin, Andrew Shelton, George Poultsides, Hanlee P Ji
GITR and TIGIT immunotherapy provokes divergent multicellular responses in the tumor microenvironment of gastrointestinal cancers. Genome medicine 15 (1) (2023)
Wen-Wei Liao, Mobin Asri, Jana Ebler, Daniel Doerr, Marina Haukness, Glenn Hickey, Shuangjia Lu, Julian K Lucas, Jean Monlong, Haley J Abel, Silvia Buonaiuto, Xian H Chang, Haoyu Cheng, Justin Chu, Vincenza Colonna, Jordan M Eizenga, Xiaowen Feng, Christian Fischer, Robert S Fulton, Shilpa Garg, Cristian Groza, Andrea Guarracino, William T Harvey, Simon Heumos, Kerstin Howe, Miten Jain, Tsung-Yu Lu, Charles Markello, Fergal J Martin, Matthew W Mitchell, Katherine M Munson, Moses Njagi Mwaniki, Adam M Novak, Hugh E Olsen, Trevor Pesout, David Porubsky, Pjotr Prins, Jonas A Sibbesen, Jouni Sirén, Chad Tomlinson, Flavia Villani, Mitchell R Vollger, Lucinda L Antonacci-Fulton, Gunjan Baid, Carl A Baker, Anastasiya Belyaeva, Konstantinos Billis, Andrew Carroll, Pi-Chuan Chang, Sarah Cody, Daniel E Cook, Robert M Cook-Deegan, Omar E Cornejo, Mark E Diekhans, Peter Ebert, Susan Fairley, Olivier Fedrigo, Adam L Felsenfeld, Giulio Formenti, Adam Frankish, Yan Gao, Nanibaa' A Garrison, Carlos Garcia Giron, Richard E Green, Leanne Haggerty, Kendra Hoekzema, Thibaut Hourlier, Hanlee P Ji, Eimear E Kenny, Barbara A Koenig, Alexey Kolesnikov, Jan O Korbel, Jennifer Kordosky, Sergey Koren, HoJoon Lee, Alexandra P Lewis, Hugo Magalhães, Santiago Marco-Sola, Pierre Marijon, Ann McCartney, Jennifer McDaniel, Jacquelyn Mountcastle, Maria Nattestad, Sergey Nurk, Nathan D Olson, Alice B Popejoy, Daniela Puiu, Mikko Rautiainen, Allison A Regier, Arang Rhie, Samuel Sacco, Ashley D Sanders, Valerie A Schneider, Baergen I Schultz, Kishwar Shafin, Michael W Smith, Heidi J Sofia, Ahmad N Abou Tayoun, Françoise Thibaud-Nissen, Francesca Floriana Tricomi, Justin Wagner, Brian P Walenz, Jonathan M D Wood, Aleksey V Zimin, Guillaume Bourque, Mark J P Chaisson, Paul Flicek, Adam M Phillippy, Justin M Zook, Evan E Eichler, David Haussler, Ting Wang, Erich D Jarvis, Karen H Miga, Erik P Garrison, Tobias Marschall, Ira M Hall, Heng Li, Benedict Paten
A draft human pangenome reference. Nature 617 (7960) (2023)
Adrian H Bustos, Elisa Martiny, Nadia Bom Pedersen, Rohith Pavan Parvathaneni, Jonas Hansen, Hanlee P Ji, Kira Astakhova
Short Tandem Repeat DNA Profiling Using Perylene-Oligonucleotide Fluorescence Assay. Analytical chemistry 95 (20) (2023)
Heon Seok Kim, Susan M Grimes, Tianqi Chen, Anuja Sathe, Billy T Lau, Gue-Ho Hwang, Sangsu Bae, Hanlee P Ji
Direct measurement of engineered cancer mutations and their transcriptional phenotypes in single cells. Nature biotechnology (2023)
Billy T Lau, Alison Almeda, Marie Schauer, Madeline McNamara, Xiangqi Bai, Qingxi Meng, Mira Partha, Susan M Grimes, HoJoon Lee, Gregory M Heestand, Hanlee P Ji
Single-molecule methylation profiles of cell-free DNA in cancer with nanopore sequencing. Genome medicine 15 (1) (2023)
Julie Tsu-Yu Wu, Victoria Y Ding, Sophia J Luo, Eunji Choi, Jessica Hellyer, Nathaniel Myall, A Solomon Henry, Douglas J Wood, Henning Stehr, Hanlee P Ji, Seema Nagpal, Melanie Hayden Gephart, Heather A Wakelee, Joel W Neal, Summer S Han
Predictive Model to Guide Brain Magnetic Resonance Imaging Surveillance in Patients With Metastatic Lung Cancer: Impact on Real-World Outcomes. JCO precision oncology 6 (2022)
Alison F Almeda, Susan M Grimes, HoJoon Lee, Stephanie Greer, GiWon Shin, Madeline McNamara, Anna C Hooker, Maya M Arce, Matthew Kubit, Marie C Schauer, Paul Van Hummelen, Cindy Ma, Meredith A Mills, Robert J Huang, Joo Ha Hwang, Manuel R Amieva, Summer S Han, James M Ford, Hanlee P Ji
The Gastric Cancer Registry: A Genomic Translational Resource for Multidisciplinary Research in Gastric Cancer. Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology 31 (9) (2022)
Dmitri S Pavlichin, HoJoon Lee, Stephanie U Greer, Susan M Grimes, Tsachy Weissman, Hanlee P Ji
KmerKeys: a web resource for searching indexed genome assemblies and variants. Nucleic acids research (2022)
Anuja Sathe, Kaishu Mason, Susan M Grimes, Zilu Zhou, Billy T Lau, Xiangqi Bai, Andrew Su, Xiao Tan, HoJoon Lee, Carlos J Suarez, Quan H Nguyen, George Poultsides, Nancy R Zhang, Hanlee P Ji
Colorectal cancer metastases in the liver establish immunosuppressive spatial networking between tumor associated SPP1+ macrophages and fibroblasts. Clinical cancer research : an official journal of the American Association for Cancer Research (2022)
Ting Wang, Lucinda Antonacci-Fulton, Kerstin Howe, Heather A Lawson, Julian K Lucas, Adam M Phillippy, Alice B Popejoy, Mobin Asri, Caryn Carson, Mark J P Chaisson, Xian Chang, Robert Cook-Deegan, Adam L Felsenfeld, Robert S Fulton, Erik P Garrison, Nanibaa' A Garrison, Tina A Graves-Lindsay, Hanlee P Ji, Eimear E Kenny, Barbara A Koenig, Daofeng Li, Tobias Marschall, Joshua F McMichael, Adam M Novak, Deepak Purushotham, Valerie A Schneider, Baergen I Schultz, Michael W Smith, Heidi J Sofia, Tsachy Weissman, Paul Flicek, Heng Li, Karen H Miga, Benedict Paten, Erich D Jarvis, Ira M Hall, Evan E Eichler, David Haussler, null null
The Human Pangenome Project: a global resource to map genomic diversity. Nature 604 (7906) (2022)
Lan Zhao, Susan M Grimes, Stephanie U Greer, Matthew Kubit, HoJoon Lee, Lincoln D Nadauld, Hanlee P Ji
Characterization of the consensus mucosal microbiome of colorectal cancer. NAR cancer 3 (4) (2021)
Sarah Haebe, Tanaya Shree, Anuja Sathe, Grady Day, Debra K Czerwinski, Susan M Grimes, HoJoon Lee, Michael Sargent Binkley, Steven R Long, Brock A Martin, Hanlee P Ji, Ronald Levy
Single-cell analysis can define distinct evolution of tumor sites in follicular lymphoma. Blood 137 (21) (2021)
Heon Seok Kim, Susan M Grimes, Anna C Hooker, Billy T Lau, Hanlee P Ji
Single-cell characterization of CRISPR-modified transcript isoforms with nanopore sequencing. Genome biology 22 (1) (2021)
Chi-Yun Wu, Billy T Lau, Heon Seok Kim, Anuja Sathe, Susan M Grimes, Hanlee P Ji, Nancy R Zhang
Integrative single-cell analysis of allele-specific copy number alterations and chromatin accessibility in cancer. Nature biotechnology 39 (10) (2021)
GiWon Shin, Stephanie U Greer, Erik Hopmans, Susan M Grimes, HoJoon Lee, Lan Zhao, Laura Miotke, Carlos Suarez, Alison F Almeda, Sigurdis Haraldsdottir, Hanlee P Ji
Profiling diverse sequence tandem repeats in colorectal cancer reveals co-occurrence of microsatellite and chromosomal instability involving Chromosome 8. Genome medicine 13 (1) (2021)
Billy T Lau, Dmitri Pavlichin, Anna C Hooker, Alison Almeda, Giwon Shin, Jiamin Chen, Malaya K Sahoo, Chun Hong Huang, Benjamin A Pinsky, Ho Joon Lee, Hanlee P Ji
Profiling SARS-CoV-2 mutation fingerprints that range from the viral pangenome to individual infection quasispecies. Genome medicine 13 (1) (2021)
HoJoon Lee, Ahmed Shuaibi, John M Bell, Dmitri S Pavlichin, Hanlee P Ji
Unique k-mer sequences for validating cancer-related substitution, insertion and deletion mutations. NAR cancer 2 (4) (2020)
Billy T Lau, Hanlee P Ji
Covalent "Click Chemistry"-Based Attachment of DNA onto Solid Phase Enables Iterative Molecular Analysis. Analytical chemistry 91 (3) (2019)
Billy T Lau, Christina Wood-Bouwens, Hanlee P Ji
Robust Multiplexed Clustering and Denoising of Digital PCR Assays by Data Gridding. Analytical chemistry 89 (22) (2017)

Hanlee P Ji.css-eqlu8i{font-size:small;padding-left:4px;} (Hanlee Ji)

Publication Activity (10 Years)

Top Topics

Top Venues

Hanlee P Ji (Hanlee Ji)