PUBLICATIONS

2018

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• Temporal dynamics of pair-rule stripes in living Drosophila embryos

       Bomyi Lim#, Takashi Fukaya, Tyler Heist, and Michael Levine#. (# co-corresponding authors)

       PNAS (2018). 115(33):8376-8381.

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• Visualization of transvection in living Drosophila embryos

  ​    Bomyi Lim*, Tyler Heist*, Michael Levine, and Takashi Fukaya.

       Molecular Cell (2018). 70(2):287-296

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• Imaging transcriptional dynamics

       Bomyi Lim

       Current Opinion in Biotechnology (2018). 52;49-55.

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• Synthesizing developmental trajectories

       Paul Villoutreix, Joakim Anden, Bomyi Lim, Hang Lu, Ioannis G. Kevrekidis, Amit Singer, and Stanislav Y. Shvartsman

       PLoS Computational Biology (2018). 13(9):e1005742

2017​

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• A novel function for the IkB inhibitor Cactus in promoting Dorsal nuclear localization and activity in the Drosophila embryo

       Maira Arruda Cardoso, Marcio Fontenele, Bomyi Lim, Paulo Mascarello Bisch, Stanislav Y. Shvartsman, and Helena Araujo

       Development (2017). 144(16):2907-2913

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• Rapid rates of Pol II elongation in the Drosophila embryo​

       Takashi Fukaya*, Bomyi Lim*, and Michael Levine​

       Current Biology (2017). 23;27(9):1387-1391.

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• Transcriptional pre-patterning of Drosophila gastrulation

       Bomyi Lim, Michael Levine, and Yuji Yamazaki​

       Current Biology (2017). 23;27(2):286-290.

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• Reconstructing ERK signaling in the Drosophila embryo from fixed images

       Bomyi Lim, Carmeline J. Dsilva, Ioannis Y. Kevrekidis, and Stanislav Y. Shvartsman

       Methods in Molecular Biology (2017). 2017:1487-337-351.

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2016​

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• Mitosis-associated repression in development

       Emilia Esposito, Bomyi Lim, Ghita Guessous, Hanieh Falahati, and Michael Levine

       Genes and Development (2016). 30(13):1508-8.

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• Enhancer control of transcriptional bursting

       Takashi Fukaya*, Bomyi Lim*, and Michael Levine

       Cell (2016). 166(2):358-68.

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• Microfluidics for high-throughput quantitative studies of early development

       Thomas J. Levario, Bomyi Lim, Stanislav Y. Shvartsman, and Hang Lu

       Annual Review of Biomedical Engineering (2016). 18:285-309.

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2015

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• A systematic ensemble approach to thermodynamic modeling of gene expression from sequence data

       Md. Abul Hassan Samee, Bomyi Lim, Nuria Samper, Hang Lu, Christine Rushlow, Gerardo Jimenez, Stanislav Y.      

       Shvartsman, and Saurabh Sinha

       Cell Systems (2015)

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• Dynamics of inductive ERK signaling in the Drosophila embryo

       Bomyi Lim, Carmeline J. Dsilva, Thomas J. Levario, Hang Lu, Trudi Schupbach, Ioannis G. Kevrekidis, and Stanislav

       Y. Shvartsman

       Current Biology (2015)

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• Temporal ordering and registration of images in studies of developmental dynamics

       Carmeline J. Dsilva*, Bomyi Lim*, Hang Lu, Amit Singer, Stanislav Y. Shvartsman, and Ioannis G. Kevrekidis

       Development (2015)

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2014

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• Zelda potentiates morphogen activity by increasing chromatin accessibility

       Sun M. Foo, Yujia Sun, Bomyi Lim, Ruta Ziukaite, Kevin O'Brien, Chung-Yi Nien, Nikolai Kirov, Stanislav Y.

       Shvartsman, and Christine Rushlow

       Current Biology (2014)

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2013

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• Kinetics of gene derepression by ERK signaling

       Bomyi Lim, Nuria Samper, Hang Lu, Christine Rushlow, Gerardo Jimenez, and Stanislav Y. Shvartsman

       PNAS (2013)

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• Calpain A modulates Toll responses by limited Cactus/Ik-B proteolysis

       Marcio Fontenele, Bomyi Lim, Danielle Oliveira, David H. Perlman, Trudi Schupbach, and Helen Araujo

       Molecular Biology of the Cell (2013)

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• Microfluidic trap array for massively parallel imaging of Drosophila embryos

       Thomas J. Levario, Mei Zhan, Bomyi Lim, Stanislav Y. Shvartsman, and Hang Lu

       Nature Protocols (2013)

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2012

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• RTK signaling modulates the Dorsal gradient

       Aharon Helman, Bomyi Lim, Maria Jose Andreu, Yoosik Kim, Tatyana Shestkin, Hang Lu, Gerardo Jimenez,

       Stanislav Y. Shvartsman, and Ze'ev Paroush

       Development (2012)

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• Pattern formation by graded and uniform signals in the early Drosophila embryo

       Jitendra S. Kanodia, Hsiao-Lang Liang, Yoosik Kim, Bomyi Lim, Mei Zhan, Hang Lu, Christine Rushlow, and

       Stanislav Y. Shvartsman

       Biophysical Journal (2012)

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2011

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• Gene regulation by MAPK substrate competition

       Yoosik Kim, Mari Jose Andreu, Bomyi Lim, Kwanghun Chung, Mark Terayama, Gerardo Jimenez, Celeste A. Berg,

       Hang Lu, and Stanislav Y. Shvartsman

       Developmental Cell (2011)

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