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Ken Chen 封面图

Ken Chen

The University of Texas MD Anderson Cancer Centermember, Promotion and Tenure Committee-Research (PTC-R), The University of Texas MD Anderson Cancer…
H指数:102
被引数:9.9万

个人简介

Received a B.E. from Tsinghua University (Beijing), a Ph.D. from University of Illinois at Urbana-Champaign, and completed postdoctoral training at University of California at San Diego. From 2005 to 2011, he worked as a senior scientist and research faculty at Washington University School of Medicine in St. Louis. His primary research interest is developing computational tools to analyze and interpret human omics and clinical data towards evidence-based medicine. He has developed widely applied tools such as BreakDancer, VarScan, Monovar, and METAFlux. He is also interested in constructing cancer genomes, transcriptomes, proteomes, and metabolomes, and in using systems-biological approaches to identify molecular-cellular biomarkers from tissue, single-cell, and spatial omics data. His lab actively develops New Approach Methodologies (NAM) integrating multimodal omics data and mathematical models to predict therapeutic responses, particularly for adoptive cell therapies.

教育背景

  • 2004.12

    University of Illinois, Urbana-Champaign, Illinois, US Ph.D Electrical and Computer Engineering

  • 1996.12

    Tsinghua University, Beijing, CN BE Precision Instruments

工作经历

  • 2026.01 – 至今

    MDA 2024-05-01 Investigation Committee, The University of Texas MD Anderson Cancer Center, Houston, TX

    member, Promotion and Tenure Committee-Research (PTC-R), The University of Texas MD Anderson Cancer Center, Houston, TX

  • 2026.01 – 至今

    The University of Texas MD Anderson Cancer Center, Houston, TX

    Faculty member, Executive Research Compliance Committee (ERCC), The University of Texas MD Anderson Cancer Center, Houston, TX

  • 2026.01 – 至今

    Frontiers in immunology

    Guest editor, Frontiers in immunology

  • 2025.01 – 至今

    The University of Texas MD Anderson Cancer Center, Houston, TX

    Member, General Oncology Chair search committee, The University of Texas MD Anderson Cancer Center, Houston, TX

  • 2025.01 – 至今

    Genome Medicine

    Editorial Board member, Genome Medicine

  • 2025.01 – 至今

    Frontiers in Immunology

    Guest editor, Frontiers in Immunology

  • 2024.01 – 至今

    Genomics, Proteomics & Bioinformatics (GPB)

    Editorial Board Member, Genomics, Proteomics & Bioinformatics (GPB)

  • 2022.01 – 至今

    The University of Texas MD Anderson Cancer Center, Houston, TX

    Member, Faculty Search Committee, Department of Epidemiology, The University of Texas MD Anderson Cancer Center, Houston, TX

  • 2022.01 – 2023.12

    Frontiers in Oncology

    Guest editor, Frontiers in Oncology

  • 2022.01 – 至今

    Frontiers Immunology

    Associate Editor, Frontiers Immunology

  • 2021.01 – 至今

    Emerging Topics in Life Sciences

    Editor, Emerging Topics in Life Sciences

  • 2017.01 – 2018.12

    The University of Texas MD Anderson Cancer Center, Houston, TX

    Member, Faculty Search Committee Dept. Genetics, The University of Texas MD Anderson Cancer Center, Houston, TX

  • 2016.01 – 2021.12

    The University of Texas MD Anderson Cancer Center, Houston, TX

    Associate Professor, Bioinformatics and Computational Biology

  • 2016.01 – 至今

    The University of Texas MD Anderson Cancer Center, Houston, TX

    Member, Faculty Search Committee, Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX

  • 2011.01 – 2016.12

    The University of Texas MD Anderson Cancer Center, Houston, TX

    Assistant Professor, Quantitative Sciences

  • 2009.01 – 2011.12

    Washington University, St. Louis, MO

    Research Instructor, Genetics

荣誉奖项

  1. Elected Fellow, Asia-Pacific Artificial Intelligence Association (AAIA)（2025 - Present）｜Asia-Pacific Artificial Intelligence Association (AAIA)
  2. Elected Fellow, American Institute of Medical and Biological Engineering (AIMBE)（2025 - Present）｜American Institute of Medical and Biological Engineering (AIMBE)
  3. MD Anderson Celebration of Faculty Excellence in Research Excellence（2024）｜MD Anderson Cancer Center
  4. Mentor’s Choice Award（2024）｜Biomedical Data Science Innovation Lab
  5. 2024 NIH Common Fund Complement-ARIE (Complement Animal Research In Experimentation) award（2024）｜NIH
  6. 1st place in subtask 2 of international AI chemotimeline reconstruction challenge from clinical narratives（2024）｜NIH
  7. Highest Commendation（2023）｜University of Texas Graduate School of Biomedical Science
  8. Robert M. Chamberlain Distinguished Mentor Award（2023）｜MD Anderson Cancer Centre Postdoctoral Association
  9. "Wall of Science" Publication Gallery（2023）｜The University of Texas MD Anderson Cancer Center
  10. President’s Recognition of Faculty Excellence（2021）｜MD Anderson Cancer Center
  11. Highly Cited Researcher 2020（2020）｜Clarivate
  12. Andrew Sabin Family Fellow（2016 - 2018）
  13. Nominee, Robert M. Chamberlain Distinguished Mentor Award（2016）｜MD Anderson Cancer Center
  14. Best performer in ICGC-TCGA DREAM 8.5 Somatic Mutation Calling Challenge（2014）｜dreamchallenge.org
  15. Senior Member, Institute of Electrical and Electronics Engineers（2009 - Present）
  16. Sigma Xi（2009）
  17. Phi Kappa Phi（2003）｜University of Illinois at Urbana-Champaign
  18. 1st place in high school software competition（1990）｜The science and technology society, Sichuan Province, China
A pilot translational study of neoadjuvant fulvestrant plus abemaciclib in women with advanced low-grade serous carcinoma

晚期低级别浆液性癌患者新辅助fulvestrant联合abemaciclib治疗的初步转化研究

Nature Communications
IF15.7
2026-06-290
OAAI
Lauren P. Cobb; Yibo Dai; Max Molina Ayala; Nejla Ozirmak Lermi; Sharia D. Hernandez; Joseph Davis; Sanghoon Lee; Barrett Craig Lawson; Richard A. Hajek; Joseph Celestino; Jinsong Liu; Linghua Wang; Luisa Maren Solis Soto; Cara Haymaker; Ken Chen; Mei Jiang; Wei Lu; Beatriz Sanchez-Espiridion; Minghao Dang; Sara Hull; David Vining; Bryan Fellman; Ying Yuan; Anil K. Sood; Shannon N. Westin; Jolyn Taylor; Michael Bevers; Aaron Shafer; Nicole D. Fleming; Karen H. Lu; David M. Gershenson; Amir A. Jazaeri
Genomic and Epigenomic Signatures Can Distinguish Aggressive Chromophobe Renal Cell Carcinoma from Indolent Renal Oncocytic Tumors in Clinical-grade Samples

基因组与表观基因组特征能够区分临床级样本中侵袭性的嗜酸性肾细胞癌与惰性的肾源性肿瘤。

European Urology Oncology
IF9.3
2025-11-040
PRE
Roberto Ruiz-Cordero; Qi Wang; Gayatri Kumar; Mahmut Akgul; Chad J. Creighton; Priya Rao; Pheroze Tamboli; Lan Zheng; Jianping Zhao; Paari Murugan; Steven Shen; Fadi Brimo; Ravesanker Ezhilarasan; Erik Sulman; Khalida Wani; Alexander J. Lazar; Taebeom Kim; Ken Chen; Krishna P.L. Bhat; Kasthuri Kannan; Jing Wang; Jose A. Karam; Kanishka Sircar
Insights, opportunities, and challenges provided by large cell atlases

大型细胞图谱提供的见解、机遇与挑战

Genome Biology
IF9.4
2025-10-220
OAAI
Martin Hemberg; Federico Marini; Shila Ghazanfar; Ahmad Al Ajami; Najla Abassi; Benedict Anchang; Bérénice A. Benayoun; Yue Cao; Ken Chen; Yesid Cuesta-Astroz; Zachary DeBruine; Calliope A. Dendrou; Iwijn De Vlaminck; Katharina Imkeller; Ilya Korsunsky; Alex R. Lederer; Jessica Jingyi Li; Pieter Meysman; Clint L. Miller; Kerry A. Mullan; Uwe Ohler; Pratibha Panwar; Nikolaos Patikas; Jonas Schuck; Jacqueline H. Y. Siu; Timothy J. Triche; Alex Tsankov; Sander W. van der Laan; Masanao Yajima; Jean Yang; Fabio Zanini; Ivana Jelic
CoCo-ST detects global and local biological structures in spatial transcriptomics datasets

Coco-st检测空间转录组数据集中的全局和局部生物结构

Nature Cell Biology
IF19.1
2025-10-130
OA
Muhammad Aminu; Bo Zhu; Natalie Vokes; Hong Chen; Lingzhi Hong; Jianrong Li; Junya Fujimoto; Mehdi Chaib; Yuqiu Yang; Bo Wang; Alissa Poteete; Monique B. Nilsson; Xiuning Le; Tina Cascone; David Jaffray; Nicholas Navin; Tao Wang; Lauren A. Byers; Don L. Gibbons; John Heymach; Ken Chen; Chao Cheng; Jianjun Zhang; Jia Wu
Comparison of imaging based single-cell resolution spatial transcriptomics profiling platforms using formalin-fixed paraffin-embedded tumor samples

基于成像的单细胞分辨率空间转录组学分析平台比较：使用福尔马林固定石蜡包埋肿瘤样本

Nature Communications
IF15.7
2025-09-260
OAAI
Nejla Ozirmak Lermi; Max Molina Ayala; Sharia Hernandez; Wei Lu; Khaja Khan; Alejandra Serrano; Idania Lubo; Leticia Hamana; Katarzyna Tomczak; Sean Barnes; Jinzhuang Dou; Qingnan Liang; Maria Gabriela Raso; Ximing Tang; Mei Jiang; Beatriz Sanchez-Espiridion; Annikka Weissferdt; John Heymach; Jianjun Zhang; Boris Sepesi; Tina Cascone; Anne Tsao; Mehmet Altan; Reza Mehran; Don Gibbons; Ignacio Wistuba; Cara Haymaker; Ken Chen; Luisa M. Solis Soto
Genome-wide CRISPR screens identify critical targets to enhance CAR-NK cell antitumor potency

全基因组CRISPR筛选鉴定出增强CAR-NK细胞抗肿瘤效力的关键靶点

Cancer Cell
IF44.5
2025-08-210
OAAI
Alexander Biederstädt; Rafet Basar; Jeong-Min Park; Nadima Uprety; Rejeena Shrestha; Francia Reyes Silva; Merve Dede; John Watts; Sunil Acharya; Donghai Xiong; Bin Liu; May Daher; Hind Rafei; Pinaki Banerjee; Ping Li; Sanjida Islam; Huihui Fan; Mayra Shanley; Jingling Jin; Bijender Kumar; Vernikka Woods; Paul Lin; Silvia Tiberti; Ana Karen Nunez Cortes; Xin Ru Jiang; Inci Biederstädt; Patrick Zhang; Ye Li; Seema Rawal; Enli Liu; Luis Muniz-Feliciano; Gary M. Deyter; Elizabeth J. Shpall; Natalie Wall Fowlkes; Ken Chen; Katayoun Rezvani
A visual–omics foundation model to bridge histopathology with spatial transcriptomics

陈，W.; 张，P.; Tran，T.N.; 肖Y.; 李S.; Shah，V.V.; 程H.; Brannan，K.W.; Youker，K.; Lai，L.; 等. 一种用于连接组织病理学与空间转录组学的视觉组学基础模型。Nat. Methods 2025, 22, 1568–1582. [Google Scholar] [CrossRef] [PubMed]

Nature Methods
IF32.1
2025-05-290
OAAI
Weiqing Chen; Pengzhi Zhang; Tu N Tran; Yiwei Xiao; Shengyu Li; Vrutant V. Shah; Hao Cheng; Kristopher W. Brannan; Keith Youker; Li Lai; Longhou Fang; Yu Yang; Nhat-Tu Le; Jun-ichi Abe; Shu-Hsia Chen; Qin Ma; Ken Chen; Qianqian Song; John P. Cooke; Guangyu Wang
Spatial and multiomics analysis of human and mouse lung adenocarcinoma precursors reveals TIM-3 as a putative target for precancer interception

人类和小鼠肺腺癌前体物的空间与多组学分析揭示TIM-3可作为癌症拦截的潜在靶点

Cancer Cell
IF44.5
2025-05-080
OA
Bo Zhu; Pingjun Chen; Muhammad Aminu; Jian-Rong Li; Junya Fujimoto; Yanhua Tian; Lingzhi Hong; Hong Chen; Xin Hu; Chenyang Li; Natalie Vokes; Andre L. Moreira; Don L. Gibbons; Luisa M. Solis Soto; Edwin Roger Parra Cuentas; Ou Shi; Songhui Diao; Jie Ye; Frank R. Rojas; Eduardo Vilar; Anirban Maitra; Ken Chen; Nicolas Navin; Monique Nilsson; Beibei Huang; Simon Heeke; Jianhua Zhang; Cara L. Haymaker; Vamsidhar Velcheti; Daniel H. Sterman; Veena Kochat; William I. Padron; Ludmil B. Alexandrov; Zhubo Wei; Xiuning Le; Linghua Wang; Junya Fukuoka; J. Jack Lee; Ignacio I. Wistuba; Harvey I. Pass; Mark Davis; Samir Hanash; Chao Cheng; Steven Dubinett; Avrum Spira; Kunal Rai; Scott M. Lippman; P. Andrew Futreal; John V. Heymach; Alexandre Reuben; Jia Wu; Jianjun Zhang
Integrated analysis of molecular and clinical features associated with overall survival in melanoma patients with brain metastasis

黑色素瘤脑转移患者总体生存相关的分子和临床特征的综合分析

ACTA NEUROPATHOLOGICA COMMUNICATIONS
IF5.7
2025-04-150
OA
Kumar, S; Pelster, MS; Hasanov, M; Guerrieri, RA; Hudgens, CW; Ledesma, DA; Wang, FCC; Fischer, GM; Simon, JM; Haydu, LE; Katlowitz, KV; Gopal, YNV; McQuade, JL; Kwong, LN; Huse, JT; Lazar, AJ; Tetzlaff, MT; Gershenwald, JE; Joon, AY; Chen, K; Li, ZY; Ram, PT; Ferguson, SD; Davies, MA

研究方向

machine learningstatistical signal processingcancer genomicscomputational toolsevidence-based medicinemolecular-cellular biomarkerssingle-cellspatial omicsNew Approach Methodologiesadoptive cell therapiesmultimodal omics datamathematical models
G
Gordon B. Mills
H 指数:231论文数:3,475被引数:26.3万
F
Funda Meric‐Bernstam
H 指数:146论文数:2,622被引数:10.5万
李丁 封面图
李丁
H 指数:135论文数:1,113被引数:12.4万
V
Vakul Mohanty
H 指数:19论文数:181被引数:1,942
A
Agda Karina Eterovic
H 指数:26论文数:159被引数:3,944
S
Shaoheng Liang
H 指数:19论文数:99被引数:1,676
K
Katayoun Rezvani
H 指数:73论文数:542被引数:2.7万
N
Nicholas E. Navin
H 指数:53论文数:332被引数:2.1万
R
Rafet Başar
H 指数:30论文数:178被引数:8,384
M
May Daher
H 指数:33论文数:223被引数:6,293