Publications

A complete list of Hernan's publications can also be found in Google Scholar.

  • Books

    Physical Biology of the Cell, 2nd edition, Rob Phillips, Jane Kondev, Julie Theriot and Hernan G. Garcia, Garland Science, New York, (2013). Book website | Erratum

    Recipient of the 2013 The Society of Biology Award for an Outstanding Biology/Biosciences/Life Sciences Textbook for Undergraduates.

  • Articles

    Jonathan Liu, Donald Hansen, Elizabeth Eck, Yang Joon Kim, Meghan Turner, Simon Alamos and Hernan G. Garcia, Quantitative characterization of the eukaryotic transcription cycle using live imaging and statistical inference, bioRxiv 2020.08.29.273474; doi: https://doi.org/10.1101/2020.08.29.273474 [PDF]

    Articles

  • Myron Child VI, Jack R. Bateman, Amir Jahangiri, Armando Reimer, Nicholas C. Lammers, Nica Sabouni, Diego Villamarin, Grace C. McKenzie-Smith, Justine E. Johnson, Daniel Jost, and Hernan G. Garcia, Live imaging and biophysical modeling support a button-based mechanism of somatic homolog pairing in Drosophila 
    bioRxiv 2020.08.30.265108; doi: https://doi.org/10.1101/2020.08.30.265108 [PDF]

    Articles

  • Nicholas C. Lammers, Yang Joon Kim,  Jiaxi Zhao and Hernan G. Garcia, A matter of time: Using dynamics and theory to uncover mechanisms of transcriptional bursting,  https://arxiv.org/abs/2008.09225 submitted to Quantitative Biology,8.20.2020. [PDF]

    Articles

  • Simon Alamos, Armando Reimer, Krishna K. Niyogi, Hernan G. Garcia, Quantitative imaging of RNA polymerase II activity in plants reveals the single-cell basis of tissue-wide transcriptional dynamics, bioRxiv 2020.08.30.274621, doi: https://doi.org/10.1101/2020.08.30.274621 [PDF]

    Articles

  • Matthew G. Eason, Antonia T. Pandelieva, Marc M. Mayer, Safwat T. Khan, Hernan G. Garcia, Roberto A. Chica Genetically-encoded fluorescent biosensor for rapid detection of protein expression  bioRxiv 2020.07.30.229633;

    doi: https://doi.org/10.1101/2020.07.30.229633 [PDF]

    Articles

  • Hernan Garcia, Augusto Berrocal, Yang Joon Kim, Gabriella Martini, and Jiaxi Zhao, Lighting up the central dogma for predictive developmental biology, Current Topics in Developmental Biology, 137,1-35 (2020). [PDF]

    Articles

  • Elizabeth Eck, Jonathan Liu, Maryam Kazemzadeh-Atoufi, Sydney Ghoreishi, Shelby A Blythe, Hernan Garcia. Quantitative dissection of transcription in development yields evidence for transcription factor-driven chromatin accessibility, bioRxiv 2020.01.27.922054; 

    doi: https://doi.org/10.1101/2020.01.27.922054

    Articles

  • Nicholas Lammers, Vahe Galstyan, Armando Reimer, Sean Medin, Chris Wiggins, & Hernan Garcia, (2020). Multimodal transcriptional control of pattern formation in embryonic development. Proceedings of the National Academy of Sciences, 117(2), 836–847. http://doi.org/10.1073/PNAS.1912500117. [PDF | SI]

    Articles

  • Rob Phillips, Nathan M. Belliveau, Griffin Chure, Hernan G. Garcia, Manuel Razo-Mejia, and Clarissa Scholes: Figure 1 Theory Meets Figure 2 Experiments in the Study of Gene Expression, in Annual Review of Biophysics, vol.48, pp. 121-165 (May 2019).  [PDF]

    Articles

  • Julia Falo-Sanjuan, Nicholas C. Lammers, Hernan G. Garcia, Sarah Bray: Enhancer priming enables fast and sustained transcriptional responses to Notch signaling, Developmental Cell, 50: 411–435 (August 2019). [PDF]

    Articles
  • Shigehiro Yamada, Peter H. Whitney, Shao-Kuei Huang, Elizabeth C. Eck, Hernan G. Garcia, Christine A. Rushlow: The Drosophila pioneer factor Zelda modulates the nuclear microenvironment of a Dorsal target enhancer to potentiate transcriptional output, in Current Biology, 29(8):1387-1401 (2019).

    doi: 10.1016/j.cub.2019.03.019   [PDF] 

    Articles

  •  Nicholas Lammers, Vahe Galstyan, Armando Reimer, Sean Medin, Chris Wiggins, Hernan Garcia: Binary transcriptional control of pattern formation in development, PNAS (2019). [PDF | SI]

    Articles

  • Augusto Berrocal, Nicholas Lammers, Hernan Garcia, Michael Eisen: Kinetic sculpting of the seven stripes of the Drosophila even-skipped gene, bioRxiv, 335901 (2018). doi: https://doi.org/10.1101/335901

    Articles

  • Mustafa Mir, Armando Reimer, Michael Stadler, Astou Tangara, Anders S. Hansen, Dirk Hockemeyer, Michael Eisen, Hernan Garcia, Xavier Darzacq: Single Molecule Imaging in Live Embryos Using Lattice Light-Sheet Microscopy, in Nanoscale Imaging. Methods in Molecular Biology, vol.1814, pp. 541-559. Humana Press, New York (2018). [PDF]

    Articles

  • Vincent Boudreau, James Hazel, Jake Sellinger, Pan Chen, Kathryn Manakova, Rochelle Radzyminski, Hernan Garcia, Jun Allard, Jesse Gatlin, Paul Maddox: Nucleo-cytoplasmic trafficking regulates nuclear surface area during nuclear organogenesis, bioRxiv 326140;  doi: https://doi.org/10.1101/326140 (2018) [PDF]

    Articles

  • Hernan G. Garcia, Thomas Gregor: Live Imaging of mRNA Synthesis in Drosophila. In: Gaspar I. (eds) RNA Detection: Methods in Molecular Biology, vol 1649. Humana Press, New York, NY (2018). [PDF]

    Articles

  • Jacques P. Bohtma, Matthew R. Norstad, Simon Alamos, Hernan G. Garcia: LlamaTags: A Versatile Tool to Image Transcription Factor Dynamics in Live Embryos. Cell 173:1 (2018). PDF | SI movies

    Articles

  • Mustafa Mir, Armando Reimer, Jenna E. Haines, Xiao-Yong Li, Michael Stadler, Hernan G. Garcia, Michael E. Eisen and Xavier Darzacq: Dense Bicoid Hubs Accentuate Binding along the Morphogen Gradient. Genes Dev 31:1784 (2017). PDF | SI | Movies

    Articles

  • Hernan G. Garcia, Robert C Brewster and Rob Phillips: Using synthetic biology to make cells tomorrow’s test tubes. Integrative Biology 8:431 (2016). PDF

    Articles

  • Mattias Rydenfelt, Hernan G. Garcia, Robert Sidney Cox III and Rob Phillips: The influence of promoter architectures and regulatory motifs on gene expression in Escherichia coli. PLOS One, 10(3): e0121935 (2014). PDF | SI Figures | SI Tables

    Articles

  • Thomas Gregor, Hernan G. Garcia and Shawn C. Little: The embryo as a laboratory: quantifying transcription in Drosophila, Trends in Genetics 30:364 (2014). [pdf full text]

    Articles

  • Jacques P. Bothma*, Hernan G. Garcia*, Emilia Esposito, Gavin Schlissel, Thomas Gregor and Michael Levine: Dynamic Regulation of Eve Stripe 2 Expression Reveals Transcriptional Bursts in Living Drosophila Embryos, PNAS 111(29):10598 (2014).

    Articles

  • Hernan G. Garcia, Paul Grayson, Lin Han, Mandar Inamdar, Jane Kondev, Philip C. Nelson, Rob Phillips, Jonathan Widom and Paul A. Wiggins: Biological Consequences of Tightly Bent DNA: The Other Life of a Macromolecular Celebrity, Biopolymers 85(2):115-130 (2007). [pdf full text]

    Articles

  • Lacramioara Bintu, Nicolas E. Buchler, Hernan G. Garcia, Ulrich Gerland, Terence Hwa, Jane Kondev, Thomas Kuhlman and Rob Phillips.Transcriptional Regulation by the Numbers 2: Applications, Curr. Opin. Genet. & Dev. 15(2):125-135 (2005). [PDF]

    Articles

  • Lacramioara Bintu, Nicolas E. Buchler, Hernan G. Garcia, Ulrich Gerland, Terence Hwa, Jane Kondev, and Rob Phillips: Transcriptional Regulation by the Numbers 1: Models, Curr. Opin. Genet. & Dev. 15(2):116-124 (2005). [PDF]

    Articles