Nicholas Navin

Affiliations

Department of Genetics, The University of Texas MD Anderson Cancer Center, Houston, USA.

Publications (14)

MEDALT: single-cell copy number lineage tracing enabling gene discovery.

Genome biology

Avec: Fang Wang , Qihan Wang , Vakul Mohanty , Shaoheng Liang , Jinzhuang Dou , Jincheng Han , Darlan Conterno Minussi , Ruli Gao , Li Ding , Nicholas Navin , Ken Chen

Publisher Correction: Clonal evolution of acute myeloid leukemia revealed by high-throughput single-cell genomics.

Nature communications

Avec: Kiyomi Morita , Feng Wang , Katharina Jahn , Tianyuan Hu , Tomoyuki Tanaka , Yuya Sasaki , Jack Kuipers , Sanam Loghavi , Sa A Wang , Yuanqing Yan , Ken Furudate , Jairo Matthews , Latasha Little , Curtis Gumbs , Jianhua Zhang , Xingzhi Song , Erika Thompson , Keyur P Patel , Carlos E Bueso-Ramos , Courtney D DiNardo , Farhad Ravandi , Elias Jabbour , Michael Andreeff , Jorge Cortes , Kapil Bhalla , Guillermo Garcia-Manero , Hagop Kantarjian , Marina Konopleva , Daisuke Nakada , Nicholas Navin , Niko Beerenwinkel , P Andrew Futreal , Koichi Takahashi

SiCloneFit: Bayesian inference of population structure, genotype, and phylogeny of tumor clones from single-cell genome sequencing data.

Genome research

Avec: Hamim Zafar , Nicholas Navin , Ken Chen , Luay Nakhleh

CoCo-ST: Comparing and Contrasting Spatial Transcriptomics data sets using graph contrastive learning.

Research square

Avec: Jia Wu , Muhammad Aminu , Bo Zhu , Natalie Vokes , Hong Chen , Lingzhi Hong , Jianrong Li , Junya Fujimoto , Alissa Poteete , Monique Nilsson , Xiuning Li , Tina Cascone , David Jaffray , Nicholas Navin , Lauren Byers , Don Gibbons , John Heymach , Ken Chen , Chao Cheng , Jianjun Zhang , Yuqui Yang , Tao Wang , Bo Wang

Single cell genome and epigenome co-profiling reveals hardwiring and plasticity in breast cancer.

bioRxiv : the preprint server for biology

Avec: Kaile Wang , Yun Yan , Heba Elgamal , Jianzhuo Li , Chenling Tang , Shanshan Bai , Zhenna Xiao , Emi Sei , Yiyun Lin , Junke Wang , Jessica Montalvan , Changandeep Nagi , Alastair M Thompson , Nicholas Navin

Clonal evolution of acute myeloid leukemia revealed by high-throughput single-cell genomics.

Nature communications

Avec: Kiyomi Morita , Feng Wang , Katharina Jahn , Tianyuan Hu , Tomoyuki Tanaka , Yuya Sasaki , Jack Kuipers , Sanam Loghavi , Sa A Wang , Yuanqing Yan , Ken Furudate , Jairo Matthews , Latasha Little , Curtis Gumbs , Jianhua Zhang , Xingzhi Song , Erika Thompson , Keyur P Patel , Carlos E Bueso-Ramos , Courtney D DiNardo , Farhad Ravandi , Elias Jabbour , Michael Andreeff , Jorge Cortes , Kapil Bhalla , Guillermo Garcia-Manero , Hagop Kantarjian , Marina Konopleva , Daisuke Nakada , Nicholas Navin , Niko Beerenwinkel , P Andrew Futreal , Koichi Takahashi

Mesenchymal and stem-like prostate cancer linked to therapy-induced lineage plasticity and metastasis.

Cell reports

Avec: Hyunho Han , Yan Wang , Josue Curto , Sreeharsha Gurrapu , Sara Laudato , Alekya Rumandla , Goutam Chakraborty , Xiaobo Wang , Hong Chen , Yan Jiang , Dhiraj Kumar , Emily G Caggiano , Monica Capogiri , Boyu Zhang , Yan Ji , Sankar N Maity , Min Hu , Shanshan Bai , Ana M Aparicio , Eleni Efstathiou , Christopher J Logothetis , Nicholas Navin , Nora M Navone , Yu Chen , Filippo G Giancotti

MEDICC2: whole-genome doubling aware copy-number phylogenies for cancer evolution.

Genome biology

Avec: Tom L Kaufmann , Marina Petkovic , Thomas B K Watkins , Emma C Colliver , Sofya Laskina , Nisha Thapa , Darlan C Minussi , Nicholas Navin , Charles Swanton , Peter Van Loo , Kerstin Haase , Maxime Tarabichi , Roland F Schwarz

A spatially resolved single cell genomic atlas of the adult human breast.

bioRxiv : the preprint server for biology

Avec: Tapsi Kumar , Kevin Nee , Runmin Wei , Siyuan He , Quy H Nguyen , Shanshan Bai , Kerrigan Blake , Yanwen Gong , Maren Pein , Emi Sei , Min Hu , Anna Casasent , Aatish Thennavan , Jianzhuo Li , Tuan Tran , Ken Chen , Benedikt Nilges , Nachiket Kashikar , Oliver Braubach , Bassem Ben Cheikh , Nadya Nikulina , Hui Chen , Mediget Teshome , Brian Menegaz , Huma Javaid , Chandandeep Nagi , Jessica Montalvan , Delia F Tifrea , Robert Edwards , Erin Lin , Ritesh Parajuli , Sebastian Winocour , Alastair Thompson , Bora Lim , Devon A Lawson , Kai Kessenbrock , Nicholas Navin

Assessing the performance of methods for copy number aberration detection from single-cell DNA sequencing data.

PLoS computational biology

Avec: Xian F Mallory , Mohammadamin Edrisi , Nicholas Navin , Luay Nakhleh

Methods for copy number aberration detection from single-cell DNA-sequencing data.

Genome biology

Avec: Xian F Mallory , Mohammadamin Edrisi , Nicholas Navin , Luay Nakhleh

Spatially resolved analyses link genomic and immune diversity and reveal unfavorable neutrophil activation in melanoma.

Nature communications

Avec: Akash Mitra , Miles C Andrews , Whijae Roh , Marianna Petaccia De Macedo , Courtney W Hudgens , Fernando Carapeto , Shailbala Singh , Alexandre Reuben , Feng Wang , Xizeng Mao , Xingzhi Song , Khalida Wani , Samantha Tippen , Kwok-Shing Ng , Aislyn Schalck , Donald A Sakellariou-Thompson , Eveline Chen , Sangeetha M Reddy , Christine N Spencer , Diana Wiesnoski , Latasha D Little , Curtis Gumbs , Zachary A Cooper , Elizabeth M Burton , Patrick Hwu , Michael A Davies , Jianhua Zhang , Chantale Bernatchez , Nicholas Navin , Padmanee Sharma , James P Allison , Jennifer A Wargo , Cassian Yee , Michael T Tetzlaff , Wen-Jen Hwu , Alexander J Lazar , P Andrew Futreal

EGFR is a master switch between immunosuppressive and immunoactive tumor microenvironment in inflammatory breast cancer.

Science advances

Avec: Xiaoping Wang , Takashi Semba , Ganiraju C Manyam , Jing Wang , Shan Shao , Francois Bertucci , Pascal Finetti , Savitri Krishnamurthy , Lan Thi Hanh Phi , Troy Pearson , Steven J Van Laere , Jared K Burks , Evan N Cohen , James M Reuben , Fei Yang , Hu Min , Nicholas Navin , Van Ngu Trinh , Toshiaki Iwase , Harsh Batra , Yichao Shen , Xiang Zhang , Debu Tripathy , Naoto T Ueno

Anaplastic transformation in thyroid cancer revealed by single-cell transcriptomics.

The Journal of clinical investigation

Avec: Lina Lu , Jennifer Rui Wang , Ying C Henderson , Shanshan Bai , Jie Yang , Min Hu , Cheng-Kai Shiau , Timothy Pan , Yuanqing Yan , Tuan M Tran , Jianzhuo Li , Rachel Kieser , Xiao Zhao , Jiping Wang , Roza Nurieva , Michelle D Williams , Maria E Cabanillas , Ramona Dadu , Naifa Lamki Busaidy , Mark Zafereo , Nicholas Navin , Stephen Y Lai , Ruli Gao

Réseau de co-auteurs

Ken Chen 4 collaborations

Shanshan Bai 4 collaborations

Feng Wang 3 collaborations

Yuanqing Yan 3 collaborations

Curtis Gumbs 3 collaborations

Jianhua Zhang 3 collaborations

Xingzhi Song 3 collaborations

P Andrew Futreal 3 collaborations

Luay Nakhleh 3 collaborations

Jianzhuo Li 3 collaborations

Min Hu 3 collaborations

Ruli Gao 2 collaborations

Kiyomi Morita 2 collaborations

Katharina Jahn 2 collaborations

Tianyuan Hu 2 collaborations

Tomoyuki Tanaka 2 collaborations

Yuya Sasaki 2 collaborations

Jack Kuipers 2 collaborations

Sanam Loghavi 2 collaborations

Sa A Wang 2 collaborations

Ken Furudate 2 collaborations

Jairo Matthews 2 collaborations

Latasha Little 2 collaborations

Erika Thompson 2 collaborations

Keyur P Patel 2 collaborations

Carlos E Bueso-Ramos 2 collaborations

Courtney D DiNardo 2 collaborations

Farhad Ravandi 2 collaborations

Elias Jabbour 2 collaborations

Michael Andreeff 2 collaborations

Jorge Cortes 2 collaborations

Kapil Bhalla 2 collaborations

Guillermo Garcia-Manero 2 collaborations

Hagop Kantarjian 2 collaborations

Marina Konopleva 2 collaborations

Daisuke Nakada 2 collaborations

Niko Beerenwinkel 2 collaborations

Koichi Takahashi 2 collaborations

Hong Chen 2 collaborations

Emi Sei 2 collaborations

Jessica Montalvan 2 collaborations

Xian F Mallory 2 collaborations

Mohammadamin Edrisi 2 collaborations

Fang Wang 1 collaboration

Qihan Wang 1 collaboration

Vakul Mohanty 1 collaboration

Shaoheng Liang 1 collaboration

Jinzhuang Dou 1 collaboration

Jincheng Han 1 collaboration

Darlan Conterno Minussi 1 collaboration

Li Ding 1 collaboration

Hamim Zafar 1 collaboration

Jia Wu 1 collaboration

Muhammad Aminu 1 collaboration

Bo Zhu 1 collaboration

Natalie Vokes 1 collaboration

Lingzhi Hong 1 collaboration

Jianrong Li 1 collaboration

Junya Fujimoto 1 collaboration

Alissa Poteete 1 collaboration

Monique Nilsson 1 collaboration

Xiuning Li 1 collaboration

Tina Cascone 1 collaboration

David Jaffray 1 collaboration

Lauren Byers 1 collaboration

Don Gibbons 1 collaboration

John Heymach 1 collaboration

Chao Cheng 1 collaboration

Jianjun Zhang 1 collaboration

Yuqui Yang 1 collaboration

Tao Wang 1 collaboration

Bo Wang 1 collaboration

Kaile Wang 1 collaboration

Yun Yan 1 collaboration

Heba Elgamal 1 collaboration

Chenling Tang 1 collaboration

Zhenna Xiao 1 collaboration

Yiyun Lin 1 collaboration

Junke Wang 1 collaboration

Changandeep Nagi 1 collaboration

Alastair M Thompson 1 collaboration

Hyunho Han 1 collaboration

Yan Wang 1 collaboration

Josue Curto 1 collaboration

Sreeharsha Gurrapu 1 collaboration

Sara Laudato 1 collaboration

Alekya Rumandla 1 collaboration

Goutam Chakraborty 1 collaboration

Xiaobo Wang 1 collaboration

Yan Jiang 1 collaboration

Dhiraj Kumar 1 collaboration

Emily G Caggiano 1 collaboration

Monica Capogiri 1 collaboration

Boyu Zhang 1 collaboration

Yan Ji 1 collaboration

Sankar N Maity 1 collaboration

Ana M Aparicio 1 collaboration

Eleni Efstathiou 1 collaboration

Christopher J Logothetis 1 collaboration

Nora M Navone 1 collaboration

Yu Chen 1 collaboration

Filippo G Giancotti 1 collaboration

Tom L Kaufmann 1 collaboration

Marina Petkovic 1 collaboration

Thomas B K Watkins 1 collaboration

Emma C Colliver 1 collaboration

Sofya Laskina 1 collaboration

Nisha Thapa 1 collaboration

Darlan C Minussi 1 collaboration

Charles Swanton 1 collaboration

Peter Van Loo 1 collaboration

Kerstin Haase 1 collaboration

Maxime Tarabichi 1 collaboration

Roland F Schwarz 1 collaboration

Tapsi Kumar 1 collaboration

Kevin Nee 1 collaboration

Runmin Wei 1 collaboration

Siyuan He 1 collaboration

Quy H Nguyen 1 collaboration

Kerrigan Blake 1 collaboration

Yanwen Gong 1 collaboration

Maren Pein 1 collaboration

Anna Casasent 1 collaboration

Aatish Thennavan 1 collaboration

Tuan Tran 1 collaboration

Benedikt Nilges 1 collaboration

Nachiket Kashikar 1 collaboration

Oliver Braubach 1 collaboration

Bassem Ben Cheikh 1 collaboration

Nadya Nikulina 1 collaboration

Hui Chen 1 collaboration

Mediget Teshome 1 collaboration

Brian Menegaz 1 collaboration

Huma Javaid 1 collaboration

Chandandeep Nagi 1 collaboration

Delia F Tifrea 1 collaboration

Robert Edwards 1 collaboration

Erin Lin 1 collaboration

Ritesh Parajuli 1 collaboration

Sebastian Winocour 1 collaboration

Alastair Thompson 1 collaboration

Bora Lim 1 collaboration

Devon A Lawson 1 collaboration

Kai Kessenbrock 1 collaboration

Akash Mitra 1 collaboration

Miles C Andrews 1 collaboration

Whijae Roh 1 collaboration

Marianna Petaccia De Macedo 1 collaboration

Courtney W Hudgens 1 collaboration

Fernando Carapeto 1 collaboration

Shailbala Singh 1 collaboration

Alexandre Reuben 1 collaboration

Xizeng Mao 1 collaboration

Khalida Wani 1 collaboration

Samantha Tippen 1 collaboration

Kwok-Shing Ng 1 collaboration

Aislyn Schalck 1 collaboration

Donald A Sakellariou-Thompson 1 collaboration

Eveline Chen 1 collaboration

Sangeetha M Reddy 1 collaboration

Christine N Spencer 1 collaboration

Diana Wiesnoski 1 collaboration

Latasha D Little 1 collaboration

Zachary A Cooper 1 collaboration

Elizabeth M Burton 1 collaboration

Patrick Hwu 1 collaboration

Michael A Davies 1 collaboration

Chantale Bernatchez 1 collaboration

Padmanee Sharma 1 collaboration

James P Allison 1 collaboration

Jennifer A Wargo 1 collaboration

Cassian Yee 1 collaboration

Michael T Tetzlaff 1 collaboration

Wen-Jen Hwu 1 collaboration

Alexander J Lazar 1 collaboration

Xiaoping Wang 1 collaboration

Takashi Semba 1 collaboration

Ganiraju C Manyam 1 collaboration

Jing Wang 1 collaboration

Shan Shao 1 collaboration

Francois Bertucci 1 collaboration

Pascal Finetti 1 collaboration

Savitri Krishnamurthy 1 collaboration

Lan Thi Hanh Phi 1 collaboration

Troy Pearson 1 collaboration

Steven J Van Laere 1 collaboration

Jared K Burks 1 collaboration

Evan N Cohen 1 collaboration

James M Reuben 1 collaboration

Fei Yang 1 collaboration

Hu Min 1 collaboration

Van Ngu Trinh 1 collaboration

Toshiaki Iwase 1 collaboration

Harsh Batra 1 collaboration

Yichao Shen 1 collaboration

Xiang Zhang 1 collaboration

Debu Tripathy 1 collaboration

Naoto T Ueno 1 collaboration

Lina Lu 1 collaboration

Jennifer Rui Wang 1 collaboration

Ying C Henderson 1 collaboration

Jie Yang 1 collaboration

Cheng-Kai Shiau 1 collaboration

Timothy Pan 1 collaboration

Tuan M Tran 1 collaboration

Rachel Kieser 1 collaboration

Xiao Zhao 1 collaboration

Jiping Wang 1 collaboration

Roza Nurieva 1 collaboration

Michelle D Williams 1 collaboration

Maria E Cabanillas 1 collaboration

Ramona Dadu 1 collaboration

Naifa Lamki Busaidy 1 collaboration

Mark Zafereo 1 collaboration

Stephen Y Lai 1 collaboration