Miler T. Lee

  • Assistant Professor
  • Genomics

Contact

Office: (412) 624-9186
Lab: (412) 624-9186
A518 Langley Hall
4249 Fifth Avenue
Pittsburgh, PA 15260

My research addresses how gene expression programs change, leading to changes to cellular identity. In multicellular organisms, the genetic instructions that guide the initial stages of embryonic development are inherited from the egg as RNA. When the embryonic genome becomes active, new RNAs are transcribed, while maternally provided RNAs are destroyed. During this "maternal-to-zygotic transition," the embryo is effectively reprogrammed from an oocyte identity to pluripotency.

 To understand the molecular mechanisms that drive this transition in vertebrates, we combine high-throughput comparative genomics approaches with classical genetics and embryology in zebrafish, to identify conserved transcriptional and post-transcriptional regulators of cellular identity.

E-mail Lab

Yartseva V, Takacs CM, Vejnar CE, Lee MT‡, Gira

Yartseva V, Takacs CM, Vejnar CE, Lee MT‡, Giraldez AG‡. 2017. RESA identifies mRNA regulatory sequences with high resolution. Nature Methods 14, 201-207.

Reischauer S, Stone O, Villasenor A, Chi N, Jin

Reischauer S, Stone O, Villasenor A, Chi N, Jin SW, Martin M, Lee MT, Fukuda N, Marass M, Fiddes I, Kuo T, Chung WS, Salek S, Lerrigo R, Alsio J, Luo S, Tworus D, Augustine SA, Mucenieks S, Nystedt B, Giraldez AJ, Schroth GP, Andersson O, Stainier DY. 2016. Cloche is a bHLH-PAS transcription factor that drives haemato-vascular specification. Nature 535(7611), 294-8.

Francis C, Natarajan S, Lee MT, Khaladkar M, Bu

Francis C, Natarajan S, Lee MT, Khaladkar M, Buckley PT, Sul JY, Eberwine J, Kim J. 2014. Divergence of RNA localization between rat and mouse neurons reveals the potential for rapid brain evolution. BMC Genomics 15(1), 883.

Lee MT#, Bonneau AR#, Giraldez AJ‡. Zygotic gen

Lee MT#, Bonneau AR#, Giraldez AJ‡. Zygotic genome activation during the maternal-to-zygotic transition. 2014. Annu Rev Cell Dev Biol 30(1), 18.1-18.33.

Bazzini AA, Johnstone TG, Christiano R, Mackowi

Bazzini AA, Johnstone TG, Christiano R, Mackowiak SD, Obermayer B, Fleming ES, Vejnar CE, Lee MT, Rajewsky N, Walther TC, Giraldez AJ. 2014. Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation. EMBO J 33(9), 981-993.

Khaladkar M, Buckley PT, Lee MT, Francis C, Egh

Khaladkar M, Buckley PT, Lee MT, Francis C, Eghbal MM, Chuong T, Suresh S, Kuhn B, Eberwine J, Kim J. 2013. Subcellular RNA sequencing reveals broad presence of cytoplasmic intron-sequence retaining transcripts in mouse and rat neurons. PLoS One 8(10), e76194.

Lee MT#, Bonneau AR#, Takacs CM, Bazzini AB, Di

Lee MT#, Bonneau AR#, Takacs CM, Bazzini AB, DiVito KR, Fleming ES, Giraldez AJ. 2013. Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition. Nature 503(7476), 360-364.

Eberwine J, Lovatt D, Buckley P, Dueck H, Franc

Eberwine J, Lovatt D, Buckley P, Dueck H, Francis C, Kim, TK, Lee J, Lee M, Miyashiro K, Morris J, Peritz T, Schochet T, Spaethling J, Sul JY, Kim J. 2012. Quantitative biology of single neurons. J R Soc Interface 9(77), 3165-3183.

Bazzini AA#, Lee MT#, Giraldez AJ. 2012. Riboso

Bazzini AA#, Lee MT#, Giraldez AJ. 2012. Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish. Science 336(6078), 233-237.

Kim TK, Sul JY, Peternko NB, Lee JH, Lee M, Pat

Kim TK, Sul JY, Peternko NB, Lee JH, Lee M, Patel VV, Kim J, Eberwine JH. 2011. Transcriptome transfer provides a model for understanding the phenotype of cardiomyocytes. Proc Natl Acad Sci USA 108(29), 11918-11923.

Buckley PT#, Lee MT#, Sul JY, Miyashiro KY, Bel

Buckley PT#, Lee MT#, Sul JY, Miyashiro KY, Bell TJ, Fisher SA, Kim J, Eberwine J. 2011. Cytoplasmic intron retention provides multiple mechanisms for localizing dendritic mRNAs. Neuron 69(5), 877-884.