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Shalini  Oberdoerffer, Ph.D.

Shalini Oberdoerffer, Ph.D.

  • Center for Cancer Research
  • National Cancer Institute

RESEARCH SUMMARY

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

Publications

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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