Shalini  Oberdoerffer, Ph.D.

Shalini Oberdoerffer, Ph.D.

  • Center for Cancer Research
  • National Cancer Institute


Research in Dr. Oberdoerffer’s laboratory broadly examines how DNA and RNA epigenetics dynamically regulate gene expression. They ask how methylation of cytidine in DNA affects pre-mRNA splicing decisions, and how subsequent acetylation of cytidine in processed mRNA affects translation. They use a variety of tools to investigate the enzymatic regulation of cytidine modifications and the net impact at target genes and genome-wide. Current efforts in the laboratory are focused on developing methods to achieve base-resolution analysis of the modification landscape in single cells.

Areas of Expertise

1) alternative pre-mRNA splicing, 2) epigenetics, 3) epitranscriptome


Selected Recent Publications

Acetylation of Cytidine in mRNA Promotes Translation Efficiency

D Arango, D Sturgill, N Alhusaini, AA Dillman, TJ Sweet, G Hanson, M Hosogane, WR Sinclair, KK Nanan, MD Mandler, SD Fox, TT Zengeya, T Andresson, JL Meier, J Coller, and S Oberdoerffer
Cell. 175: 1-15, 2018. [ Journal Article ]

TET-Catalyzed 5-Carboxylcytosine Promotes CTCF Binding to Suboptimal Sequences Genome-wide

Nanan KK, Sturgill DM, Prigge MF, Thenoz M, Dillman AA, Mandler MD, Oberdoerffer S.
iScience. 19: 326-339, 2019. [ Journal Article ]

Independence between pre-mRNA splicing and DNA methylation in an isogenic minigene resource

Nanan, K.K., Ochletree, C., Sturgill, D., Mandler, M.D., Prigge, M., Varma, G., Oberdoerffer, S.
Nucleic Acids Research. 45(22): 12780-12797, 2017. [ Journal Article ]

TET-catalyzed oxidation of intragenic 5-methylcytosine regulates CTCF-dependent alternative splicing

Marina, R., Sturgill, D., Bailly, M., Thenoz, M., Varma, G., Prigge, M., Nanan, K., Shukla, S., Haque, N., Oberdoerffer, S.,
EMBO J.. 35(3): 335-55, 2016. [ Journal Article ]

CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing

Shukla S, Kavak E, Gregory M, Imashimizu M, Shutinoski B, Kashlev M, Oberdoerffer P, Sandberg R, Oberdoerffer S.
Nature. 479(7371): 74-79, 2011. [ Journal Article ]

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