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Natasha Caplen

Natasha J. Caplen, Ph.D.

  • Center for Cancer Research
  • National Cancer Institute
Senior Investigator
Genetics Branch
Head, Functional Genetics Section

RESEARCH SUMMARY

Dr. Caplen contributed to the discovery of RNA interference (RNAi) in mammalian cells and has pioneered approaches for exploiting this gene regulatory mechanism to investigate cancer biology and treatment. Dr. Caplen applies the perturbations induced by RNA- or DNA-based technologies to interrogate specific aspects of the genetic, transcriptional, and cell-signaling alterations observed in cancer cells. These functional genetic approaches enhance our understanding of the mechanistic basis of cancer and offer opportunities for the discovery of new cancer treatments. Dr. Caplen’s current studies focus on the functional genetic analysis of cancers driven by fusion oncogenes, particularly the pediatric tumor Ewing sarcoma. These studies include investigating the function of two heterogeneous ribonucleoproteins (hnRNPs), HNRNPH1 and EWSR1, and the mechanisms regulated by the transcriptional activity of EWSR1::FLI1/ERG fusion oncoproteins.

Areas of Expertise

Functional Genetics
RNA Interference (RNAi)
RNAi Screening
Regulation of Gene Expression

Publications

Selected Recent Publications

ETS1, a target gene of the EWSR1::FLI1 fusion oncoprotein, regulates the expression of the focal adhesion protein TENSIN3

Ebegboni VJ, Jones TL, Brownmiller T, Zhao PX, Pehrsson EC, Sundara Rajan S, Caplen NJ.
2024.
Full-Text Article
[ Journal Article ]

Endogenous EWSR1 Exists in Two Visual Modalities That Reflect Its Associations with Nucleic Acids and Concentration at Sites of Active Transcription

Sundara Rajan S, Ebegboni VJ, Pichling P, Ludwig KR, Jones TL, Chari R, Tran A, Kruhlak MJ, Loncarek J, Caplen NJ.
Molecular and Cellular Biology. 2024.
Full-Text Article
[ Journal Article ]

HNRNPH1 destabilizes the G-quadruplex structures formed by G-rich RNA sequences that regulate the alternative splicing of an oncogenic fusion transcript.

Vo T, Brownmiller T, Hall K, Jones TL, Choudhari S, Grammatikakis I, Ludwig KR, Caplen NJ
Nucleic Acids Research. 2022.
Full-Text Article
[ Journal Article ]

HNRNPH1-dependent splicing of a fusion oncogene reveals a targetable RNA G-quadruplex interaction.

Neckles C, Boer RE, Aboreden N, Cross AM, Walker RL, Kim BH, Kim S, Schneekloth JS Jr, Caplen NJ.
RNA. 2019. [ Journal Article ]

Functional Genomic Screening Reveals Splicing of the EWS-FLI1 Fusion Transcript as a Vulnerability in Ewing Sarcoma

Grohar PJ, Kim S, Rangel Rivera GO, Sen N, Haddock S, Harlow ML, Maloney NK, Zhu J, O'Neill M, Jones TL, Huppi K, Grandin M, Gehlhaus K, Klumpp-Thomas CA, Buehler E, Helman LJ, Martin SE, Caplen NJ.
Cell Reports. 14: 598-610, 2016. [ Journal Article ]

Biography

Natasha J. Caplen, Ph.D.
Senior Investigator

Natasha J. Caplen, Ph.D.

Dr. Caplen received her Ph.D. from the University of London (Kings College Hospital Medical School), where her studies investigated the genetics of type I diabetes and its complications. Dr. Caplen's post-doctoral training began at St Mary's Hospital Medical School, Imperial College, where she focused on the development of gene therapy approaches for cystic fibrosis (CF). As a post-doctoral fellow, Dr. Caplen made significant contributions to the first pre-clinical and clinical studies of lipid-mediated gene therapy for CF. These early studies paved the way for ongoing efforts to develop gene therapy strategies for CF and other genetic and acquired diseases, including cancer. In 1996, Dr. Caplen came to the National Human Genome Research Institute (NHGRI) at NIH as a Visiting Fellow, where she initially conducted studies investigating hybrid viral vector systems for the delivery of genes. It was while at NHGRI that Dr. Caplen developed a research interest in the newly identified gene silencing mechanism, RNA interference (RNAi) leading to studies that contributed to establishing the presence of RNAi in mammalian cells. Dr. Caplen joined CCR, NCI in 2004 as a Senior Scientist, where she pioneered approaches for exploiting RNAi to investigate cancer biology and treatment and helped establish a trans-NIH facility for genome-wide RNAi screening. In January 2016, Dr. Caplen became a Tenure-Track Investigator in CCR’s Genetics Branch. Her current research examines fundamental mechanisms that regulate gene expression, focusing on the function of specific heterogenous nuclear ribonucleoproteins in the regulation of RNA biosynthesis and the discovery of cancer-specific dependencies, with a concentration on the study of EWSR1-fusion driven tumors. In February 2025, Dr. Caplen was awarded tenure and appointed to Senior Investigator.

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Team

Postdoctoral Fellow (CRTA)
Tayvia Blake Brownmiller, Ph.D.
Postdoctoral Fellow (Visiting)
Vernon Ebegboni, Ph.D.
Research Biologist
Tamara L. Jones, M.S.
Postdoctoral Fellow (Visiting)
Soumya Sundara Rajan, Ph.D.
Program Support Specialist
Kristen Martin
post-baccalaureate fellow
Daniel Zelmanovich

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