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 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, 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 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, 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, 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, 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, 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. 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, Patel VV, Kim J, Eberwine JH. 2011. Transcriptome transfer provides a model for understanding the phenotype of cardiomyocytes. Proc Natl Acad Sci U S A 108(29), 11918-11923.

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.

Bell TJ, Miyashiro KY, Sul JY, Buckley PT, Lee MT, McCullough R, Jochems J, Kim J, Cantor CR, Parsons TD, Eberwine JH. 2010. Intron retention facilitates splice variant diversity in calcium-activated big potassium channel populations. Proc Natl Acad Sci U S A 107(49), 21152-21157.

Sul JY, Wu CW, Zeng F, Jochems J, Lee MT, Kim TK, Peritz T, Buckley P, Cappelleri DJ, Maronski M, Kim M, Kumar V, Meaney D, Kim J, Eberwine J. 2009. Transcriptome transfer produces a predictable cellular phenotype. Proc Natl Acad Sci U S A 106(18), 7624-7629.

May E, Lee MT, Dolan P, Crozier P, Brozik S, Manginell M. 2008. Computational sensing and in vitro classification of GMOs and biomolecular events. Proc of the 26th Army Science Conference.

Lee MT, Kim J. 2008. Self containment, a property of modular RNA structures, distinguishes microRNAs. PLoS Comput Biol 4(8), e1000150.

‡ Corresponding authors.  # Equal contribution.