List of Faculty Publications
Below is a list of Faculty publications imported from PubMed or manually added. By default, publications are sorted by year with titles displayed in ascending alphabetical order.
Shortcuts: Wühr, Martin | Wingreen, Ned | Wieschaus, Eric | Troyanskaya, Olga | Tilghman, Shirley | Storey, John | Singh, Mona | Shvartsman, Stanislav | Shaevitz, Joshua | Rabinowitz, Joshua | Murphy, Coleen | Levine, Michael {Levine, Michael S.} | Gregor, Thomas | Botstein, David | Bialek, William | Ayroles, Julien | Andolfatto, Peter | Akey, Joshua
“The pre-vertebrate origins of neurogenic placodes.”, Nature, vol. 524, no. 7566, pp. 462-5, 2015.
, “Ephrin-mediated restriction of ERK1/2 activity delimits the number of pigment cells in the Ciona CNS.”, Dev Biol, vol. 394, no. 1, pp. 170-80, 2014.
, “Fly wing vein patterns have spatial reproducibility of a single cell.”, J R Soc Interface, vol. 11, no. 97, p. 20140443, 2014.
, “Quantitative 4D analyses of epithelial folding during Drosophila gastrulation.”, Development, vol. 141, no. 14, pp. 2895-900, 2014.
, “Development: lights, camera, action--the Drosophila embryo goes live!”, Curr Biol, vol. 23, no. 21, pp. R965-7, 2013.
, “Dynamic interpretation of maternal inputs by the Drosophila segmentation gene network.”, Proc Natl Acad Sci U S A, vol. 110, no. 17, pp. 6724-9, 2013.
, “Kinetics of gene derepression by ERK signaling.”, Proc Natl Acad Sci U S A, vol. 110, no. 25, pp. 10330-5, 2013.
, “Quantitative imaging of transcription in living Drosophila embryos links polymerase activity to patterning.”, Curr Biol, vol. 23, no. 21, pp. 2140-5, 2013.
, “EGFR-dependent network interactions that pattern Drosophila eggshell appendages.”, Development, vol. 139, no. 15, pp. 2814-20, 2012.
, “FGF signaling establishes the anterior border of the Ciona neural tube.”, Development, vol. 139, no. 13, pp. 2351-9, 2012.
, “HOT DNAs: a novel class of developmental enhancers.”, Genes Dev, vol. 26, no. 9, pp. 873-6, 2012.
, “RTK signaling modulates the Dorsal gradient.”, Development, vol. 139, no. 16, pp. 3032-9, 2012.
, “Temporal dynamics, spatial range, and transcriptional interpretation of the Dorsal morphogen gradient.”, Curr Opin Genet Dev, vol. 22, no. 6, pp. 542-6, 2012.
, “Torso RTK controls Capicua degradation by changing its subcellular localization.”, Development, vol. 139, no. 21, pp. 3962-8, 2012.
, “The formation of the Bicoid morphogen gradient requires protein movement from anteriorly localized mRNA.”, PLoS Biol, vol. 9, no. 3, p. e1000596, 2011.
, “Local kinetics of morphogen gradients.”, Proc Natl Acad Sci U S A, vol. 108, no. 15, pp. 6157-62, 2011.
, “Multiple enhancers ensure precision of gap gene-expression patterns in the Drosophila embryo.”, Proc Natl Acad Sci U S A, vol. 108, no. 33, pp. 13570-5, 2011.
, “Neural tube patterning by Ephrin, FGF and Notch signaling relays.”, Development, vol. 138, no. 24, pp. 5429-39, 2011.
, “Pattern formation by a moving morphogen source.”, Phys Biol, vol. 8, no. 4, p. 045003, 2011.
, “The snail repressor inhibits release, not elongation, of paused Pol II in the Drosophila embryo.”, Curr Biol, vol. 21, no. 18, pp. 1571-7, 2011.
, “The Bicoid gradient is shaped independently of nuclei.”, Development, vol. 137, no. 17, pp. 2857-62, 2010.
, “A compartmental model for the bicoid gradient.”, Dev Biol, vol. 345, no. 1, pp. 12-7, 2010.
, “MAPK substrate competition integrates patterning signals in the Drosophila embryo.”, Curr Biol, vol. 20, no. 5, pp. 446-51, 2010.
, “Multiscale modeling of diffusion in the early Drosophila embryo.”, Proc Natl Acad Sci U S A, vol. 107, no. 22, pp. 10092-6, 2010.
, “Conservation of enhancer location in divergent insects.”, Proc Natl Acad Sci U S A, vol. 106, no. 34, pp. 14414-9, 2009.
, “Dynamics of the Dorsal morphogen gradient.”, Proc Natl Acad Sci U S A, vol. 106, no. 51, pp. 21707-12, 2009.
, “Expression patterns of cadherin genes in Drosophila oogenesis.”, Gene Expr Patterns, vol. 9, no. 1, pp. 31-6, 2009.
, “Feedback control of the EGFR signaling gradient: superposition of domain-splitting events in Drosophila oogenesis.”, Development, vol. 136, no. 17, pp. 2903-11, 2009.
, “Pattern formation by dynamically interacting network motifs.”, Proc Natl Acad Sci U S A, vol. 106, no. 9, pp. 3213-8, 2009.
, “Regulation of Hox gene activity by transcriptional elongation in Drosophila.”, Curr Biol, vol. 19, no. 8, pp. 688-93, 2009.
, “Cad74A is regulated by BR and is required for robust dorsal appendage formation in Drosophila oogenesis.”, Dev Biol, vol. 322, no. 2, pp. 289-301, 2008.
, “Drosophila eggshell is patterned by sequential action of feedforward and feedback loops.”, Development, vol. 135, no. 2, pp. 343-51, 2008.
, “Dual regulation by the Hunchback gradient in the Drosophila embryo.”, Proc Natl Acad Sci U S A, vol. 105, no. 8, pp. 2901-6, 2008.
, “Dynamics of maternal morphogen gradients in Drosophila.”, Curr Opin Genet Dev, vol. 18, no. 4, pp. 342-7, 2008.
, “How the Dorsal gradient works: insights from postgenome technologies.”, Proc Natl Acad Sci U S A, vol. 105, no. 51, pp. 20072-6, 2008.
, “Nuclear trapping shapes the terminal gradient in the Drosophila embryo.”, Curr Biol, vol. 18, no. 12, pp. 915-9, 2008.
, “Shadow enhancers as a source of evolutionary novelty.”, Science, vol. 321, no. 5894, p. 1314, 2008.
, “Shape and function of the Bicoid morphogen gradient in dipteran species with different sized embryos.”, Dev Biol, vol. 316, no. 2, pp. 350-8, 2008.
, “Modeling the bicoid gradient: diffusion and reversible nuclear trapping of a stable protein.”, Dev Biol, vol. 312, no. 2, pp. 623-30, 2007.
, “Probing the limits to positional information.”, Cell, vol. 130, no. 1, pp. 153-64, 2007.
, “Stability and nuclear dynamics of the bicoid morphogen gradient.”, Cell, vol. 130, no. 1, pp. 141-52, 2007.
, “Comprehensive identification of Drosophila dorsal-ventral patterning genes using a whole-genome tiling array.”, Proc Natl Acad Sci U S A, vol. 103, no. 34, pp. 12763-8, 2006.
, “Dorsal-ventral pattern of Delta trafficking is established by a Snail-Tom-Neuralized pathway.”, Dev Cell, vol. 10, no. 2, pp. 257-64, 2006.
, “Quantitative models of developmental pattern formation.”, Dev Cell, vol. 11, no. 3, pp. 289-300, 2006.
, “Computational analysis of EGFR inhibition by Argos.”, Dev Biol, vol. 284, no. 2, pp. 523-35, 2005.
, “Diffusion and scaling during early embryonic pattern formation.”, Proc Natl Acad Sci U S A, vol. 102, no. 51, pp. 18403-7, 2005.
, “folded gastrulation, cell shape change and the control of myosin localization.”, Development, vol. 132, no. 18, pp. 4165-78, 2005.
, “Gene regulatory networks for development.”, Proc Natl Acad Sci U S A, vol. 102, no. 14, pp. 4936-42, 2005.
, “Localized repressors delineate the neurogenic ectoderm in the early Drosophila embryo.”, Dev Biol, vol. 280, no. 2, pp. 482-93, 2005.
, “Precise domain specification in the developing Drosophila embryo.”, Phys Rev E Stat Nonlin Soft Matter Phys, vol. 72, no. 6 Pt 1, p. 061920, 2005.
, “Quantitative analysis of binding motifs mediating diverse spatial readouts of the Dorsal gradient in the Drosophila embryo.”, Proc Natl Acad Sci U S A, vol. 102, no. 14, pp. 4966-71, 2005.
, “Patterned gene expression directs bipolar planar polarity in Drosophila.”, Dev Cell, vol. 6, no. 3, pp. 343-55, 2004.
, “pyramus and thisbe: FGF genes that pattern the mesoderm of Drosophila embryos.”, Genes Dev, vol. 18, no. 6, pp. 687-99, 2004.
, “Discrete models of autocrine cell communication in epithelial layers.”, Biophys J, vol. 84, no. 6, pp. 3624-35, 2003.
, “Transitions in the model of epithelial patterning.”, Dev Dyn, vol. 226, no. 1, pp. 155-9, 2003.
, “Ventral dominance governs sequential patterns of gene expression across the dorsal-ventral axis of the neuroectoderm in the Drosophila embryo.”, Dev Biol, vol. 262, no. 2, pp. 335-49, 2003.
, “Clock regulatory elements control cyclic expression of Lunatic fringe during somitogenesis.”, Dev Cell, vol. 3, no. 1, pp. 75-84, 2002.
, “Decoding cis-regulatory DNAs in the Drosophila genome.”, Curr Opin Genet Dev, vol. 12, no. 5, pp. 601-6, 2002.
, “Dorsal gradient networks in the Drosophila embryo.”, Dev Biol, vol. 246, no. 1, pp. 57-67, 2002.
, “Establishment of developmental precision and proportions in the early Drosophila embryo.”, Nature, vol. 415, no. 6873, pp. 798-802, 2002.
, “Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome.”, Proc Natl Acad Sci U S A, vol. 99, no. 2, pp. 757-62, 2002.
, “Linear signaling in the Toll-Dorsal pathway of Drosophila: activated Pelle kinase specifies all threshold outputs of gene expression while the bHLH protein Twist specifies a subset.”, Development, vol. 129, no. 14, pp. 3411-9, 2002.
, “Modeling and computational analysis of EGF receptor-mediated cell communication in Drosophila oogenesis.”, Development, vol. 129, no. 11, pp. 2577-89, 2002.
, “Whole-genome analysis of dorsal-ventral patterning in the Drosophila embryo.”, Cell, vol. 111, no. 5, pp. 687-701, 2002.
, “Two new roles for the Drosophila AP patterning system in early morphogenesis.”, Development, vol. 128, no. 24, pp. 5129-38, 2001.
, “A genetic link between morphogenesis and cell division during formation of the ventral furrow in Drosophila.”, Cell, vol. 101, no. 5, pp. 523-31, 2000.
, “Integration of the head and trunk segmentation systems controls cephalic furrow formation in Drosophila.”, Development, vol. 124, no. 19, pp. 3747-54, 1997.
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