David Chen Lab
Research Lab Overview
The long-term goal of Dr. Chen’s research program is to provide novel opportunities for advanced leukemia/cancer therapies by understanding how genetic/epigenetic regulators and their networks control gene expression, epigenetic landscape, and genome integrity under normal and disease conditions. His prior study based on a genome-wide functional genomic screen has identified cross-inhibitory genetic interactions between multiple chromatin effectors in MLL-r leukemias, a highly malignant disease that affects about 50% of infant acute leukemia patients (and nearly 10% of the acute leukemia in all patients). These results have been published in Nature Medicine (Chen et al. 2015) and have led his current research towards combinational therapies for multiple types of malignant diseases. His recent publications include Mol Cell (2015, 2017, 2021), Nat Med (2015, 2016), Cell (2018), Blood (2019, 2019, 2020, 2021, 2022, 2022), Genes & Development (2019), Sci Transl Med (2019, 2023), Front Cell Dev Biol (2019*), J Clin Invest (2016, 2022), Cell Stem Cell (2020, 2023), Cells (2020*, 2023), Nature (2020, 2020), Cancer Discovery (2016, 2020, 2022, 2023), Leukemia (2022*), Adv Sci (2023*), Nat Cell Biol (2022), Sci Adv (2022*) and Nat Commun (2021*, 2022, 2023). Dr. Chen also leads technological development and pioneered a single-cell CRISPR gene tiling pipeline “sc-Tiling” for structural/functional genomics and therapeutic pocket discovery (Yang et al. 2021, Nat Commun*)(*corresponding).
Dr. Chen’s research program is funded by several NIH (R37 MERIT, R01s, K99/R00) and foundation (ASH Scholar, ALSF Innovation) awards. He also supports consortium research efforts including a NIH/NCI U54 FusOnC2 (PI: Charles Mullighan) and a SU2C-CRUK Pediatric Cancer New Discoveries Challenge (PI: Alex Bishop).
Dr. Chen has more than 10 years research experience in high-throughput genetic screens (CRISPR, RNAi), fusion oncoproteins (MLL-r, NUP98-fusions, EWS-FLI1), pediatric cancers (leukemia, Ewing sarcoma), and epigenetic mechanisms.
As an Associate Professor of Department of Systems Biology and Department of Neurodegenerative Diseases, and as a member of City of Hope Comprehensive Cancer Center, David Chen also serves as Director of Division of Epigenetics and Transcriptional Engineering at City of Hope. His lab focuses on epigenetic mechanisms, drug resistance, and therapeutic target discovery in cancers using high throughput genetic screens.
Research Focus
- Molecular cell biology and epigenetics in cancer research
- Therapeutic target discovery using high-throughput CRISPR genetic screens
- Drug discovery using a combination of in silico modeling, in vitro binding assays, and cell-based methods
Research Focus
- Hematologic malignancies
- Cancer predisposition syndromes
- Centrosomal biology and chromosomal aneuploidy and its roles in developmental biology and cancer
Research Focus
- Molecular cell biology and biochemistry in cancer research
- Drug discovery using cell-based disease model screening
- Identification of novel therapeutic targets to eliminate cancer cells
Dr. Priyanka Singh obtained her Ph.D. from the Post Graduate Institute of Medical Education and Research, India. She is experienced in epigenetics and molecular biology techniques which help find new treatments for cancer patients. Dr. Singh joined David Chen’s laboratory at the Department of Systems Biology in March 2022. Her current projects focus on identifying novel therapeutic targets in leukemia using genetic and epigenetic approaches using CRISPR-based systems.
Research Focus
Investigation and identification of genes related to epigenetics in leukemia using CRISPR library screening
Degrees
- 2015-2020, Ph.D., Post Graduate Institute of Medical Education and Research, Chandigarh, India
- 2010-2012, M.Sc. (Hons), Biochemistry, Panjab University, Chandigarh, India
- 2007-2010, B.Sc. (Hons), Biochemistry, Panjab University, Chandigarh, India
Fellowships
- 2022-present, Fellowship, Department of Systems Biology, City of Hope Beckman Research Institute, Monrovia, CA
- 2015-2020, Junior and Senior Research Fellowship, Indian Council of Medical Research, India
- 2014, National Eligibility Test-Lectureship, Council of Science and Industrial Research, India
Professional Experience
- 2022-present, Postdoctoral Fellow, Beckman Research Institute of City of Hope, Monrovia, CA
- 2021-2022, Research Associate, National Institute of Malaria Research-ICMR, New Delhi, India
- 2015-2020, Ph.D. Post Graduate Institute of Medical Education and Research (PGIMER), Chandigarh, India
Awards
- 2020, Second Prize in Oral Presentation in Indian Society for Bone and Mineral Research, India
- 2020, Travel Award (ECTS-East meets West award) European Calcified Tissue Society, France (virtual event)
- 2020, Young Investigator Emerging Country Award, American Society of Bone and Mineral Research (virtual event)
- 2019, First prize in oral presentation in Indian Society for Bone and Mineral Research, Bangalore, India
- 2018, YUVA scholarship, NextGen Genomics, Biology, Bioinformatics and Technologies Conference, Jaipur, India
- 2018, Women in Endocrinology “Young Investigator Award," ENDO US, Chicago, IL
- 2016, Young Investigator Award, International Osteoporosis Foundation Meeting, Singapore
Memberships
- Member of Indian Society of Bone and Mineral Research (ISBMR), India
Publications
- Singh, P., Bhadada, S.K., Dahiya, D., Arya, A.K., Saikia, U.N., Kaur, J., Sachdeva, N., Behera, A., Brandi, M.L., & Rao, S.D. GCM2 Silencing in Parathyroid Adenoma is associated with Promoter Hypermethylation and Gain of Methylation on Histone 3, Journal of Clinical Endocrinology and Metabolism. 2021
- Singh, P., Bhadada, S.K., Arya, A.K., Saikia, U.N., Dahiya, D., Kaur, J., Sachdeva, N., Brandi, M.L., & Rao, S.D. Aberrant epigenetic alteration of PAX1 expression contributes to parathyroid tumorigenesis. Journal of Clinical Endocrinology and Metabolism. 2021
- Singh, P., Bhadada, S.K., Dahiya, D., Arya, A.K., Saikia, U.N., Kaur, J., Sachdeva, N., Brandi, M.L., & Rao, S.D., Reduced Calcium Sensing Receptor is Epigenetically Inactivated in Parathyroid Adenomas. Journal of Clinical Endocrinology and Metabolism. 2020
- Arya, A.K., Kumari, P., Bhadada, S.K., Agrawal, K., Singh, P., Mukherjee, S., Sood, A., & Rao, S.D. Progressive rise in the prevalence of asymptomatic primary hyperparathyroidism in India: Data from PHPT registry. J Bone Miner Metab. 2020
- Pal, R., Arya, A.K., Aggarwal, A., Singh, P., Dahiya, D., Sood, A., Singh, T., Ram, S., Bhansali, A., & Bhadada, S.K. Weight gain after curative parathyroidectomy predicts increase in bone mineral density in patients with symptomatic primary hyperparathyroidism. Clin Endocrinol (Oxf). 2020
- Singh, P., Vadi, S.K., Saikia, U.N., Sood, A., Dahiya, D., Arya, A.K., Behera, A., Mukherjee, S., Arvindkumar, S.M., & Bhadada, S.K. Minimally invasive parathyroid carcinoma-A missing entity between parathyroid adenoma and carcinoma: Scintigraphic and histological features. Clinical Endocrinology (Oxf). 2019
- Arya, A.K., Bhadada, S.K., Singh, P., Sachdeva, N., Saikia, U.N., Dahiya, D., Behera, A., Bhansali, A., & Rao, S.D., Promoter hypermethylation inactivates CDKN2A, CDKN2B and RASSF1A genes in sporadic parathyroid adenomas. Sci Rep. 2017
Research Focus
- Mechanisms underlying the therapeutic resistance in leukemia
Education
- 2009-2017, M.D., Clinical Medicine, Southern Medical University, Guangzhou, Guangdong, China
Professional Experience
- 2021-present, Visiting Scholar, Department of Systems Biology, Beckman Research Institute of City of Hope, Monrovia, CA
- 2017-present, Internist, Department of Hematology, The First Affiliated Hospital of Soochow University, Suzhou, Jiangsu, China
Publications
- Zhang, L., Wang, J., Xu, M., Wu, T., Huang, S., Cao, H., Sun, A., Liu, S., & Xue, S. Rapid and Efficient Response to Gilteritinib and Venetoclax-Based Therapy in Two AML Patients with FLT3-ITD Mutation Unresponsive to Venetoclax Plus Azacitidine. OncoTargets and therapy 2022, 15:159-164.
- Kong, J., Hao, Y., Wan, S., Li, Z., Zou, D., Zhang, L., Lu, Y., Wang, J., Chen, X., & Fu, J. Comparative study of hematological and radiological feature of severe/critically ill patients with COVID-19, influenza A H7N9, and H1N1 pneumonia, J Clin Lab Anal 2021 35(12):e24100.
- Yang, Q., Chen, K., Zhang, L., Feng, L., Fu, G., Jiang, S., Bi, S., Lin, C., Zhou, Y., Zhao, H., Chen, X., Fu, G. & Xu, B. Synthetic lethality of combined AT-101 with idarubicin in acute myeloid leukemia via blockade of DNA repair and activation of intrinsic apoptotic pathway. CANCER LETT 2019, 461: 31-43.
- Zhang, L., Zhou, Y., Chen, K., Shi, P., Li, Y., Deng, M., Jiang, Z., Wang, X., Li, P. & Xu, B. The pan-Bcl2 Inhibitor AT101 Activates the Intrinsic Apoptotic Pathway and Causes DNA Damage in Acute Myeloid Leukemia Stem-Like Cells. TARGET ONCOL 2017, 12(5): 677-687.
- Li, Y., Wang, Y., Zhou, Y., Li, J., Chen, K., Zhang, L., Deng, M., Deng, S., Li, P. & Xu, B. Cooperative effect of chidamide and chemotherapeutic drugs induce apoptosis by DNA damage accumulation and repair defects in acute myeloid leukemia stem and progenitor cells, Clinical Epigenetics, 2017.8, 9(83).
- Shi, P., Zhang, L., Chen, K., Jiang, Z., Deng, M., Zha, J., Guo, X., Li, P., & Xu, B. Low-dose decitabine enhances chidamide-induced apoptosis in adult acute lymphoblast leukemia, especially for p16-deleted patients through DNA damage, Pharmacogenomics, 2017.8, 18(13): 1259~1270.
Our Publications
Mattson N, Chan ANK, Miyashita K, Mukhaleva E, Chang WH, Yang L, Ma N, Wang Y, Pokharel SP, Li M, Liu Q, Xu X, Chen R, Singh P, Zhang L, Elsayed Z, Chen B, Keen D, Pirrotte P, Rosen ST, Chen J, LaBarge MA, Shively JE, Vaidehi N, Rockne RC, Feng M, and Chen CW. Nature Structural Molecular Biology (accepted 2023-10-11; IF=18.3).
Li M, Yang L, Chan AKN, Pokharel SP, Liu Q, Mattson N, Xu X, Chang WH, Miyashita K, Singh P, Zhang L, Li M, Wu J, Wang J, Chen B, Chan LN, Lee J, Zhang XH, Rosen ST, Müschen M, Qi J, Chen J, Hiom K, Bishop AJR, Chen CW. Advanced science (Weinheim, Baden-Wurttemberg, Germany), 10(17), e2206584.
Research Highlights
High-throughput genetic screen pipeline:
Single-cell CRISPR tiling scan:
CRISPR multiomics:
Lab News
- March 2023, Welcome! Zeinab Elsayed (postdoc)
- April 2023, Nicole Mattson (PhD student) received AACR Scholar-in-Training Award
- June 2023, Mingli Li (postdoc) published in Advanced Sciences June 2023, Welcome! Li-Hui Lien (COH/NTU Summer Program)
- June 2023, Welcome! Yu-Hsin Cheng (COH/NTU Summer Program)
- June 2023, Welcome! Pradeep Bompada (postdoc)
- August 2023, Welcome! Benjamin Kuang (PhD student)
- September 2023, David Chen received NCI CBC NExT Award
- September 2023, Mingli Li (postdoc) published in Cells
- September 2023, Nicole Mattson (PhD student) passed thesis defense!
- October 2023, Nicole Mattson (PhD student) paper accepted at Nature Structural Molecular Biology
- December 2023, Leisi Zhang’s project oral presented at ASH annual meeting
- January 2022, Qiao Liu (Ph.D. student) published in Leukemia
- March 2022, Welcome! Priyanka Singh (postdoc)
- April 2022, Mingli Li (postdoc) received AACR Scholar-in-Training Award
- April 2022, Nicole Mattson (Ph.D. student) received AACR Scholar-in-Training Award
- April 2022, Xiaobao Xu (postdoc) presented at AACR
- April 2022, Welcome! Leisi Zhang (postdoc)
- April 2022, David Chen presented at The Science of Childhood Cancer Series, St. Jude
- May 2022, David Chen was appointed Associate Professor, Pediatrics (secondary appointment)
- June 2022, Mingli Li (postdoc) received the Sarcoma Foundation of America Award
- June 2022, Mingli Li (postdoc) published in Biomedicines
- June 2022, Welcome! Grace Aranda (CIRM Summer Fellow)
- July 2022, Welcome! David Gomez-Novy (CRISPR Summer Program)
- August 2022, Nicole Mattson (Ph.D. student) received NIH/NCI F99 Award
- September 2022, David Chen received 2022 Professor of the Year – City of Hope
- October 2022, Mingli Li (postdoc) published in Cancers
- December 2022, David Chen received NIH/NCI R01 CA278050 Award
- December 2022, Xiaobao Xu (postdoc) published in Science Advances
- January 2021, Alex Bishop (UTHSCSA) received SU2C-CRUK Award (Chen: co-I)
- January 2021, Srividya Swaminathan (COH) received LLS Research Award (Chen: co-I)
- May 2021, Michelle Garcia (Pomona College) received Goldwater Scholar
- June 2021, David Chen presented at 10X Genomics CRISPR Functional Genomics Symposium
- June 2021, Welcome! Renee Chen (CRISPR Summer Program)
- June 2021, Welcome! Maggie Li (Roberts Summer Program)
- July 2021, Lu Yang (Research Assistant Prof.) published in Nature Communications
- July 2021, David Chen appointed NCI-I Study Section member
- September 2021, David Chen presented at Genome Engineering Seminar, Harvard Medical School
- October 2021, Nicole Mattson (PhD student) received Payson Scholarship
- November 2021, David Chen appointed Associate Professor, Systems Biology
- January 2020, Kazuya Miyashita (postdoc) received Uehara Scholarship
- March 2022, COVID lockdown till June 2022
- March 2020, David Chen was appointed IBC member
- May 2020, David Chen presented at Dana-Farber/Harvard Cancer Center (DF/HCC) Connect
- May 2020, Michelle Garcia (Pomona College) received Caltech/Genentech WAVE Fellow
- August 2020, Qiao Liu (Ph.D. student) published in Cells
- August 2020, David Chen received NIH/NCI ITCR Award
- January 2019, Welcome! Xiaobao Xu (postdoc)
- February 2019, Welcome! Qiao Liu (Ph.D. student)
- April 2019, David Chen received NIH/NCI R01 Award
- May 2019, Welcome! Nicole Mattson (Ph.D. student)
- May 2019, Anthony Chan (postdoc) published in Frontiers in Cell and Developmental Biology
- June 2019, Welcome! Michelle Garcia (COH/Pomona College Intern Program)
- July 2019, Welcome! Po-Wei Chiu (NTU/COH Summer Program)
- August 2019, Welcome! Yi-Wei Chiang (MOST Scholarship)
- September 2019, Charles Mullighan (St. Jude) received U54 Award (David Chen leads Genome Editing Core)
- October 2019, David Chen received ALSF Innovation Award
- October 2019, David Chen received COSF Research Award
- October 2019, Welcome! Wei Lu (computational postdoc)
- December 2019, David Chen presented at TRTH, ASH
- December 2019, Anthony Chan (postdoc) presented at ASH annual meeting (Travel Award)
- April 2018, Welcome, Kazuya Miyashita (postdoc)
- June 2018, Welcome, Sandra Li (Roberts Summer Program)
- July 2018, David Chen received ASH Scholar Award
- July 2018, Steven Rosen (COH) received LLS Research Award (Chen: co-I)
- September 2018, David Chen presented at Illumina Sequencing Innovation Symposium
- December 2018, Steven Rosen (COH) received NIH/NCI R01 Award (Chen: co-I)
- December 2018, David Chen presented at ASH annual meeting
- December 2018, Welcome, Mingli Li (postdoc)
- December 2018, David Chen received NIH/NCI R37 MERIT Award
- July 2017, Grand Opening — David Chen Lab at City of Hope
- July 2017, David Chen appointed Assistant Professor, Systems Biology
- July 2017, David Chen appointed Director of Epigenetic and Transcriptional Engineering
- October 2017, Welcome! Anthony Chan (postdoc)
- November 2017, Welcome! Sheela Pangeni Pokharel (Lab Manager)
- December 2017, Welcome! Lu Yang (Research Assistant Professor, Bioinformatician)
- December 2017, Welcome! Wen-Han Chang (postdoc)
- March 2016, David Chen received NIH/NCI K99 Award
- June 2016, David Chen was appointed Instructor, Harvard Medical School
- December 2016, David Chen presented at ASH (Best of ASH)
- March 2015, David Chen received the ASH/EHA TRTH Award
Latest Research News
Contact Information
34.1293409, -117.971358
Duarte, CA 91010