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Gene Expression Regulation, Developmental

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  • Grimm, Oliver, Victoria Sanchez Zini, Yoosik Kim, Jordi Casanova, Stanislav Y Shvartsman, and Eric Wieschaus. (2012) 2012. “Torso RTK Controls Capicua Degradation by Changing Its Subcellular Localization.”. Development 139 (21): 3962-8.
    Reference Link
  • Markstein, Michele, Robert Zinzen, Peter Markstein, Ka-Ping Yee, Albert Erives, Angela Stathopoulos, and Michael Levine. (2004) 2004. “A Regulatory Code for Neurogenic Gene Expression in the Drosophila Embryo.”. Development 131 (10): 2387-94.
    Reference Link
  • Tepper, Ronald G, Jasmine M Ashraf, Rachel Kaletsky, Gunnar Kleemann, Coleen T Murphy, and Harmen J Bussemaker. (2013) 2013. “PQM-1 Complements DAF-16 As a Key Transcriptional Regulator of DAF-2-Mediated Development and Longevity.”. Cell 154 (3): 676-90.
    Reference Link
  • Krotov, Dmitry, Julien Dubuis, Thomas Gregor, and William Bialek. (2014) 2014. “Morphogenesis at Criticality.”. Proc Natl Acad Sci U S A 111 (10): 3683-8.
    Reference Link
  • Farley, Emma, and Michael Levine. (2012) 2012. “HOT DNAs: A Novel Class of Developmental Enhancers.”. Genes Dev 26 (9): 873-6.
    Reference Link
  • Shvartsman, Stanislav Y, Mathieu Coppey, and Alexander M Berezhkovskii. (2008) 2008. “Dynamics of Maternal Morphogen Gradients in Drosophila.”. Curr Opin Genet Dev 18 (4): 342-7.
    Reference Link
  • Cande, Jessica Doran, Yury Goltsev, and Michael S Levine. (2009) 2009. “Conservation of Enhancer Location in Divergent Insects.”. Proc Natl Acad Sci U S A 106 (34): 14414-9.
    Reference Link
  • Zhou, Jian, Ignacio E Schor, Victoria Yao, Chandra L Theesfeld, Raquel Marco-Ferreres, Alicja Tadych, Eileen E M Furlong, and Olga G Troyanskaya. (2019) 2019. “Accurate Genome-Wide Predictions of Spatio-Temporal Gene Expression During Embryonic Development.”. PLoS Genet 15 (9): e1008382. doi:10.1371/journal.pgen.1008382.
    Reference Link
  • Osterfield, Miriam, XinXin Du, Trudi Schüpbach, Eric Wieschaus, and Stanislav Y Shvartsman. (2013) 2013. “Three-Dimensional Epithelial Morphogenesis in the Developing Drosophila Egg.”. Dev Cell 24 (4): 400-10.
    Reference Link
  • Chopra, Vivek S, Joung-Woo Hong, and Michael Levine. (2009) 2009. “Regulation of Hox Gene Activity by Transcriptional Elongation in Drosophila.”. Curr Biol 19 (8): 688-93.
    Reference Link
  • Dubuis, Julien, Gašper Tkačik, Eric F Wieschaus, Thomas Gregor, and William Bialek. (2013) 2013. “Positional Information, in Bits.”. Proc Natl Acad Sci U S A 110 (41): 16301-8.
    Reference Link
  • Bothma, Jacques P, Michael Levine, and Alistair N Boettiger. (2010) 2010. “Morphogen Gradients: Limits to Signaling or Limits to Measurement?”. Curr Biol 20 (5).
    Reference Link
  • Lakhina, Vanisha, Rachel Arey, Rachel Kaletsky, Amanda Kauffman, Geneva Stein, William Keyes, Daniel Xu, and Coleen T Murphy. (2015) 2015. “Genome-Wide Functional Analysis of CREB Long-Term Memory-Dependent Transcription Reveals Distinct Basal and Memory Gene Expression Programs.”. Neuron 85 (2): 330-45.
    Reference Link
  • Bothma, Jacques P, Hernan G Garcia, Emilia Esposito, Gavin Schlissel, Thomas Gregor, and Michael Levine. (2014) 2014. “Dynamic Regulation of Eve Stripe 2 Expression Reveals Transcriptional Bursts in Living Drosophila Embryos.”. Proc Natl Acad Sci U S A 111 (29): 10598-603.
    Reference Link
  • Kanodia, Jitendra S, Yoosik Kim, Raju Tomer, Zia Khan, Kwanghun Chung, John D Storey, Hang Lu, Philipp J Keller, and Stanislav Y Shvartsman. (2011) 2011. “A Computational Statistics Approach for Estimating the Spatial Range of Morphogen Gradients.”. Development 138 (22): 4867-74.
    Reference Link
  • Shin, M K, J M Levorse, R S Ingram, and S M Tilghman. (1999) 1999. “The Temporal Requirement for Endothelin Receptor-B Signalling During Neural Crest Development.”. Nature 402 (6761): 496-501.
    Reference Link
  • Ahmed, Yashi, S Hayashi, A Levine, and E Wieschaus. (1998) 1998. “Regulation of Armadillo by a Drosophila APC Inhibits Neuronal Apoptosis During Retinal Development.”. Cell 93 (7): 1171-82.
    Reference Link
  • Goodliffe, Julie M, Eric Wieschaus, and Michael D Cole. (2005) 2005. “Polycomb Mediates Myc Autorepression and Its Transcriptional Control of Many Loci in Drosophila.”. Genes Dev 19 (24): 2941-6.
    Reference Link
  • Christiaen, Lionel, Eileen Wagner, Weiyang Shi, and Michael Levine. (2009) 2009. “Microinjection of Morpholino Oligos and RNAs in Sea Squirt (Ciona) Embryos.”. Cold Spring Harb Protoc 2009 (12): pdb.prot5347.
    Reference Link
  • Murphy, Coleen T, Steven A McCarroll, Cornelia I Bargmann, Andrew Fraser, Ravi S Kamath, Julie Ahringer, Hao Li, and Cynthia Kenyon. (2003) 2003. “Genes That Act Downstream of DAF-16 to Influence the Lifespan of Caenorhabditis Elegans.”. Nature 424 (6946): 277-83.
    Reference Link
  • Liu, Feng, Alexander H Morrison, and Thomas Gregor. (2013) 2013. “Dynamic Interpretation of Maternal Inputs by the Drosophila Segmentation Gene Network.”. Proc Natl Acad Sci U S A 110 (17): 6724-9.
    Reference Link
  • Biemar, Frédéric, David A Nix, Jessica Piel, Brant Peterson, Matthew Ronshaugen, Victor Sementchenko, Ian Bell, Robert Manak, and Michael S Levine. (2006) 2006. “Comprehensive Identification of Drosophila Dorsal-Ventral Patterning Genes Using a Whole-Genome Tiling Array.”. Proc Natl Acad Sci U S A 103 (34): 12763-8.
    Reference Link
  • Rushlow, Christine A, and Stanislav Y Shvartsman. (2012) 2012. “Temporal Dynamics, Spatial Range, and Transcriptional Interpretation of the Dorsal Morphogen Gradient.”. Curr Opin Genet Dev 22 (6): 542-6.
    Reference Link
  • Hunter, C, and E Wieschaus. (2000) 2000. “Regulated Expression of Nullo Is Required for the Formation of Distinct Apical and Basal Adherens Junctions in the Drosophila Blastoderm.”. J Cell Biol 150 (2): 391-401.
    Reference Link
  • Levine, Michael. (2011) 2011. “Paused RNA Polymerase II As a Developmental Checkpoint.”. Cell 145 (4): 502-11.
    Reference Link
  • Lagha, Mounia, Jacques P Bothma, and Michael Levine. (2012) 2012. “Mechanisms of Transcriptional Precision in Animal Development.”. Trends Genet 28 (8): 409-16.
    Reference Link
  • Levine, Michael, and Eric H Davidson. (2005) 2005. “Gene Regulatory Networks for Development.”. Proc Natl Acad Sci U S A 102 (14): 4936-42.
    Reference Link
  • Papatsenko, Dmitri, and Michael S Levine. (2008) 2008. “Dual Regulation by the Hunchback Gradient in the Drosophila Embryo.”. Proc Natl Acad Sci U S A 105 (8): 2901-6.
    Reference Link
  • Kavousanakis, Michail E, Jitendra S Kanodia, Yoosik Kim, Ioannis G Kevrekidis, and Stanislav Y Shvartsman. (2010) 2010. “A Compartmental Model for the Bicoid Gradient.”. Dev Biol 345 (1): 12-7.
    Reference Link
  • Di Gregorio, Anna, Richard M Harland, Michael Levine, and Elena Silva Casey. (2002) 2002. “Tail Morphogenesis in the Ascidian, Ciona Intestinalis, Requires Cooperation Between Notochord and Muscle.”. Dev Biol 244 (2): 385-95.
    Reference Link
  • Pavan, W J, S Mac, M Cheng, and S M Tilghman. (1995) 1995. “Quantitative Trait Loci That Modify the Severity of Spotting in Piebald Mice.”. Genome Res 5 (1): 29-41.
    Reference Link
  • Lagha, Mounia, Jacques P Bothma, Emilia Esposito, Samuel Ng, Laura Stefanik, Chiahao Tsui, Jeffrey Johnston, et al. (2013) 2013. “Paused Pol II Coordinates Tissue Morphogenesis in the Drosophila Embryo.”. Cell 153 (5): 976-87.
    Reference Link
  • Shvartsman, Stanislav Y, and Ruth E Baker. (2012) 2012. “Mathematical Models of Morphogen Gradients and Their Effects on Gene Expression.”. Wiley Interdiscip Rev Dev Biol 1 (5): 715-30.
    Reference Link
  • Kim, Yoosik, María José Andreu, Bomyi Lim, Kwanghun Chung, Mark Terayama, Gerardo Jiménez, Celeste A Berg, Hang Lu, and Stanislav Y Shvartsman. (2011) 2011. “Gene Regulation by MAPK Substrate Competition.”. Dev Cell 20 (6): 880-7.
    Reference Link
  • Jaźwińska, A, N Kirov, E Wieschaus, S Roth, and C Rushlow. (1999) 1999. “The Drosophila Gene Brinker Reveals a Novel Mechanism of Dpp Target Gene Regulation.”. Cell 96 (4): 563-73.
    Reference Link
  • Yakoby, Nir, Christopher A Bristow, Danielle Gong, Xenia Schafer, Jessica Lembong, Jeremiah J Zartman, Marc S Halfon, Trudi Schüpbach, and Stanislav Y Shvartsman. (2008) 2008. “A Combinatorial Code for Pattern Formation in Drosophila Oogenesis.”. Dev Cell 15 (5): 725-37.
    Reference Link
  • Lu, Rong, Florian Markowetz, Richard D Unwin, Jeffrey T Leek, Edoardo M Airoldi, Ben D MacArthur, Alexander Lachmann, et al. (2009) 2009. “Systems-Level Dynamic Analyses of Fate Change in Murine Embryonic Stem Cells.”. Nature 462 (7271): 358-62.
    Reference Link
  • Garcia, Hernan G, Mikhail Tikhonov, Albert Lin, and Thomas Gregor. (2013) 2013. “Quantitative Imaging of Transcription in Living Drosophila Embryos Links Polymerase Activity to Patterning.”. Curr Biol 23 (21): 2140-5.
    Reference Link
  • Cheung, Lily S, Trudi Schüpbach, and Stanislav Y Shvartsman. (2011) 2011. “Pattern Formation by Receptor Tyrosine Kinases: Analysis of the Gurken Gradient in Drosophila Oogenesis.”. Curr Opin Genet Dev 21 (6): 719-25.
    Reference Link
  • Kim, Yoosik, Mathieu Coppey, Rona Grossman, Leiore Ajuria, Gerardo Jiménez, Ze’ev Paroush, and Stanislav Y Shvartsman. (2010) 2010. “MAPK Substrate Competition Integrates Patterning Signals in the Drosophila Embryo.”. Curr Biol 20 (5): 446-51.
    Reference Link
  • Sandell, Lisa L, Xiao-Juan Guan, Robert Ingram, and Shirley M Tilghman. (2003) 2003. “Gatm, a Creatine Synthesis Enzyme, Is Imprinted in Mouse Placenta.”. Proc Natl Acad Sci U S A 100 (8): 4622-7.
    Reference Link
  • Yakoby, Nir, Jessica Lembong, Trudi Schüpbach, and Stanislav Y Shvartsman. (2008) 2008. “Drosophila Eggshell Is Patterned by Sequential Action of Feedforward and Feedback Loops.”. Development 135 (2): 343-51.
    Reference Link
  • Cole, Susan E, John M Levorse, Shirley M Tilghman, and Thomas F Vogt. (2002) 2002. “Clock Regulatory Elements Control Cyclic Expression of Lunatic Fringe During Somitogenesis.”. Dev Cell 3 (1): 75-84.
    Reference Link
  • Boettiger, Alistair N, and Michael Levine. (2009) 2009. “Synchronous and Stochastic Patterns of Gene Activation in the Drosophila Embryo.”. Science 325 (5939): 471-3.
    Reference Link
  • Goentoro, Lea A, Nir Yakoby, Joseph Goodhouse, Trudi Schüpbach, and Stanislav Y Shvartsman. (2006) 2006. “Quantitative Analysis of the GAL4 UAS System in Drosophila Oogenesis.”. Genesis 44 (2): 66-74.
    Reference Link
  • Kanodia, Jitendra S, Hsiao-Lan Liang, Yoosik Kim, Bomyi Lim, Mei Zhan, Hang Lu, Christine A Rushlow, and Stanislav Y Shvartsman. (2012) 2012. “Pattern Formation by Graded and Uniform Signals in the Early Drosophila Embryo.”. Biophys J 102 (3): 427-33.
    Reference Link
  • Calhoun, Vincent C, and Michael Levine. (2003) 2003. “Long-Range Enhancer-Promoter Interactions in the Scr-Antp Interval of the Drosophila Antennapedia Complex.”. Proc Natl Acad Sci U S A 100 (17): 9878-83.
    Reference Link
  • Shi, Weiyang, Sara M Peyrot, Edwin Munro, and Michael Levine. (2009) 2009. “FGF3 in the Floor Plate Directs Notochord Convergent Extension in the Ciona Tadpole.”. Development 136 (1): 23-8.
    Reference Link
  • Ahmed, Yashi, Ali Nouri, and Eric Wieschaus. (2002) 2002. “Drosophila Apc1 and Apc2 Regulate Wingless Transduction Throughout Development.”. Development 129 (7): 1751-62.
    Reference Link
  • Hark, A T, and S M Tilghman. (1998) 1998. “Chromatin Conformation of the H19 Epigenetic Mark.”. Hum Mol Genet 7 (12): 1979-85.
    Reference Link

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