for Integrative Genomics Lewis-Sigler Institute

Off screen link: Skip to content Off screen link: Skip to search
Princeton University
Home
for Integrative Genomics
Lewis-Sigler Institute

Main Menu

  • Research
    Research
    • Research Overview
    • Research Areas
      • Biophysics: Theory and Experiment
      • Computational Genomics
      • Evolutionary and Population Genomics
      • Experimental Genomics
      • Statistical Genomics
      • Systems Biology: Development/Aging
      • Systems Biology: Metabolomics/Proteomics
    • Faculty Research Labs
    • Research Facilities & Resources
      • Genomics Computing Resources
      • LSI Media Facility
      • Genomics Core Facility
        • Instructions
        • RNA-Seq
        • Microarray
        • Contacts
    • Research Centers
      • Center for Quantitative Biology
      • Glenn Laboratories For Aging Research
    • Faculty Publications
  • People
    People
    • Faculty
    • Associated Faculty
    • Faculty Emeriti
    • Lewis-Sigler Scholars
    • Graduate Students
    • Staff
  • Education
    Education
    • Education Overview
    • Quantitative & Computational Biology Graduate Program
      • Ph.D. Program Requirements
      • How to Apply
      • Financial Support
      • Faculty & Research
      • Graduate Students
      • Student Committees
      • Peer Mentoring Program
    • Graduate Program in Biophysics
      • Program Requirements
      • Faculty and Research
      • Graduate Students
    • Undergraduate Certificate in Quantitative & Computational Biology
      • Certificate Requirements
      • Application
      • Program Committee
      • Frequently Asked Questions
    • Integrated Science Curriculum
      • Course details
      • Paths from ISC
      • Student perspectives
      • Instructor perspectives
      • ISC Revitalization
    • NIH NHGRI Training Program
    • QCB Scholars Program
  • Seminars & Events
  • News
  • Diversity & Inclusion
  • About
    About
    • Founding Donors
    • History
    • Opportunities
  • Contact Us
  • Visitor Information

Search

  1. Home
  2. Research
  3. Faculty Publications

RNA, Messenger

Section Menu

  • Research Overview
  • Research Areas
  • Faculty Research Labs
  • Research Facilities & Resources
  • Research Centers
  • Faculty Publications
  • Feuerman, M H, R Godbout, R S Ingram, and S M Tilghman. (1989) 1989. “Tissue-Specific Transcription of the Mouse Alpha-Fetoprotein Gene Promoter Is Dependent on HNF-1.”. Mol Cell Biol 9 (10): 4204-12.
    Reference Link
  • Kurihara, L J, T Kikuchi, K Wada, and S M Tilghman. (2001) 2001. “Loss of Uch-L1 and Uch-L3 Leads to Neurodegeneration, Posterior Paralysis and Dysphagia.”. Hum Mol Genet 10 (18): 1963-70.
    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
  • Ayroles, Julien, Mary Anna Carbone, Eric A Stone, Katherine W Jordan, Richard F Lyman, Michael M Magwire, Stephanie M Rollmann, et al. (2009) 2009. “Systems Genetics of Complex Traits in Drosophila Melanogaster.”. Nat Genet 41 (3): 299-307.
    Reference Link
  • Boer, Viktor M, Christopher A Crutchfield, Patrick H Bradley, David Botstein, and Joshua D Rabinowitz. (2010) 2010. “Growth-Limiting Intracellular Metabolites in Yeast Growing under Diverse Nutrient Limitations.”. Mol Biol Cell 21 (1): 198-211.
    Reference Link
  • Bae, Esther, Vincent C Calhoun, Michael Levine, Edward B Lewis, and Robert A Drewell. (2002) 2002. “Characterization of the Intergenic RNA Profile at Abdominal-A and Abdominal-B in the Drosophila Bithorax Complex.”. Proc Natl Acad Sci U S A 99 (26): 16847-52.
    Reference Link
  • Drescher, Knut, Carey D Nadell, Howard A Stone, Ned S Wingreen, and Bonnie L Bassler. (2014) 2014. “Solutions to the Public Goods Dilemma in Bacterial Biofilms.”. Curr Biol 24 (1): 50-5.
    Reference Link
  • Diehn, Maximilian, Ramona Bhattacharya, David Botstein, and Patrick O Brown. (2006) 2006. “Genome-Scale Identification of Membrane-Associated Human MRNAs.”. PLoS Genet 2 (1): e11.
    Reference Link
  • Schejter, E D, and E Wieschaus. (1993) 1993. “Bottleneck Acts As a Regulator of the Microfilament Network Governing Cellularization of the Drosophila Embryo.”. Cell 75 (2): 373-85.
    Reference Link
  • Lenz, Derrick H, Kenny C Mok, Brendan N Lilley, Rahul Kulkarni V, Ned S Wingreen, and Bonnie L Bassler. (2004) 2004. “The Small RNA Chaperone Hfq and Multiple Small RNAs Control Quorum Sensing in Vibrio Harveyi and Vibrio Cholerae.”. Cell 118 (1): 69-82.
    Reference Link
  • Alter, Orly, Patrick O Brown, and David Botstein. (2003) 2003. “Generalized Singular Value Decomposition for Comparative Analysis of Genome-Scale Expression Data Sets of Two Different Organisms.”. Proc Natl Acad Sci U S A 100 (6): 3351-6.
    Reference Link
  • Grady, Sarah L, John G Purdy, Joshua D Rabinowitz, and Thomas Shenk. (2013) 2013. “Argininosuccinate Synthetase 1 Depletion Produces a Metabolic State Conducive to Herpes Simplex Virus 1 Infection.”. Proc Natl Acad Sci U S A 110 (51).
    Reference Link
  • Hughes, Kimberly A, Julien Ayroles, Melissa M Reedy, Jenny M Drnevich, Kevin C Rowe, Elizabeth A Ruedi, Carla E Cáceres, and Ken N Paige. (2006) 2006. “Segregating Variation in the Transcriptome: Cis Regulation and Additivity of Effects.”. Genetics 173 (3): 1347-55.
    Reference Link
  • Little, Shawn C, Gašper Tkačik, Thomas B Kneeland, Eric F Wieschaus, and Thomas Gregor. (2011) 2011. “The Formation of the Bicoid Morphogen Gradient Requires Protein Movement from Anteriorly Localized MRNA.”. PLoS Biol 9 (3): e1000596.
    Reference Link
  • Tkačik, Gašper, Thomas Gregor, and William Bialek. 2008. “The Role of Input Noise in Transcriptional Regulation.”. PLoS One 3 (7): e2774.
    Reference Link
  • Kurihara, L J, E Semenova, J M Levorse, and S M Tilghman. (2000) 2000. “Expression and Functional Analysis of Uch-L3 During Mouse Development.”. Mol Cell Biol 20 (7): 2498-504.
    Reference Link
  • Vacher, J, S A Camper, R Krumlauf, R S Compton, and S M Tilghman. (1992) 1992. “Raf Regulates the Postnatal Repression of the Mouse Alpha-Fetoprotein Gene at the Posttranscriptional Level.”. Mol Cell Biol 12 (2): 856-64.
    Reference Link
  • Mehta, Pankaj, Ranjan Mukhopadhyay, and Ned S Wingreen. 2008. “Exponential Sensitivity of Noise-Driven Switching in Genetic Networks.”. Phys Biol 5 (2): 026005.
    Reference Link
  • Mehta, Pankaj, Sidhartha Goyal, and Ned S Wingreen. 2008. “A Quantitative Comparison of SRNA-Based and Protein-Based Gene Regulation.”. Mol Syst Biol 4: 221.
    Reference Link
  • Wyart, Matthieu, David Botstein, and Ned S Wingreen. 2010. “Evaluating Gene Expression Dynamics Using Pairwise RNA FISH Data.”. PLoS Comput Biol 6 (11): e1000979.
    Reference Link
  • van Raamsdonk, C D, and S M Tilghman. (2001) 2001. “Optimizing the Detection of Nascent Transcripts by RNA Fluorescence in Situ Hybridization.”. Nucleic Acids Res 29 (8).
    Reference Link
  • Brunkow, M E, and S M Tilghman. (1991) 1991. “Ectopic Expression of the H19 Gene in Mice Causes Prenatal Lethality.”. Genes Dev 5 (6): 1092-101.
    Reference Link
  • Tyner, A L, R Godbout, R S Compton, and S M Tilghman. (1990) 1990. “The Ontogeny of Alpha-Fetoprotein Gene Expression in the Mouse Gastrointestinal Tract.”. J Cell Biol 110 (4): 915-27.
    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
  • Shin, M K, L B Russell, and S M Tilghman. (1997) 1997. “Molecular Characterization of Four Induced Alleles at the Ednrb Locus.”. Proc Natl Acad Sci U S A 94 (24): 13105-10.
    Reference Link
  • Shyamsundar, Radha, Young H Kim, John P Higgins, Kelli Montgomery, Michelle Jorden, Anand Sethuraman, Matt van de Rijn, David Botstein, Patrick O Brown, and Jonathan R Pollack. 2005. “A DNA Microarray Survey of Gene Expression in Normal Human Tissues.”. Genome Biol 6 (3): R22.
    Reference Link
  • Christiaen, Lionel, Eileen Wagner, Weiyang Shi, and Michael Levine. (2009) 2009. “Whole-Mount in Situ Hybridization on Sea Squirt (Ciona Intestinalis) Embryos.”. Cold Spring Harb Protoc 2009 (12): pdb.prot5348.
    Reference Link
  • Riggleman, B, E Wieschaus, and P Schedl. (1989) 1989. “Molecular Analysis of the Armadillo Locus: Uniformly Distributed Transcripts and a Protein With Novel Internal Repeats Are Associated With a Drosophila Segment Polarity Gene.”. Genes Dev 3 (1): 96-113.
    Reference Link
  • Chang, Howard Y, Jen-Tsan Chi, Sandrine Dudoit, Chanda Bondre, Matt van de Rijn, David Botstein, and Patrick O Brown. (2002) 2002. “Diversity, Topographic Differentiation, and Positional Memory in Human Fibroblasts.”. Proc Natl Acad Sci U S A 99 (20): 12877-82.
    Reference Link
  • McIsaac, Scott, Sanford J Silverman, Lance Parsons, Ping Xu, Ryan Briehof, Megan N McClean, and David Botstein. 2013. “Visualization and Analysis of MRNA Molecules Using Fluorescence in Situ Hybridization in Saccharomyces Cerevisiae.”. J Vis Exp, no. 76: e50382.
    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
  • Slavov, Nikolai, and David Botstein. (2011) 2011. “Coupling Among Growth Rate Response, Metabolic Cycle, and Cell Division Cycle in Yeast.”. Mol Biol Cell 22 (12): 1997-2009.
    Reference Link
  • Haley, Benjamin, Bryon Foys, and Michael Levine. (2010) 2010. “Vectors and Parameters That Enhance the Efficacy of RNAi-Mediated Gene Disruption in Transgenic Drosophila.”. Proc Natl Acad Sci U S A 107 (25): 11435-40.
    Reference Link
  • Pollack, Jonathan R, Therese Sørlie, Charles M Perou, Christian A Rees, Stefanie S Jeffrey, Per E Lonning, Robert Tibshirani, David Botstein, Anne-Lise Børresen-Dale, and Patrick O Brown. (2002) 2002. “Microarray Analysis Reveals a Major Direct Role of DNA Copy Number Alteration in the Transcriptional Program of Human Breast Tumors.”. Proc Natl Acad Sci U S A 99 (20): 12963-8.
    Reference Link
  • Rauskolb, C, and E Wieschaus. (1994) 1994. “Coordinate Regulation of Downstream Genes by Extradenticle and the Homeotic Selector Proteins.”. EMBO J 13 (15): 3561-9.
    Reference Link
  • De Renzis, Stefano, Olivier Elemento, Saeed Tavazoie, and Eric F Wieschaus. (2007) 2007. “Unmasking Activation of the Zygotic Genome Using Chromosomal Deletions in the Drosophila Embryo.”. PLoS Biol 5 (5): e117.
    Reference Link
  • Slavov, Nikolai, Joanna Macinskas, Amy A Caudy, and David Botstein. (2011) 2011. “Metabolic Cycling Without Cell Division Cycling in Respiring Yeast.”. Proc Natl Acad Sci U S A 108 (47): 19090-5.
    Reference Link
  • Oliveira, Riva P, Jess Porter Abate, Kieran Dilks, Jessica Landis, Jasmine M Ashraf, Coleen T Murphy, and Keith Blackwell. (2009) 2009. “Condition-Adapted Stress and Longevity Gene Regulation by Caenorhabditis Elegans SKN-1 Nrf.”. Aging Cell 8 (5): 524-41.
    Reference Link
  • Vasicek, T J, L Zeng, X J Guan, T Zhang, F Costantini, and S M Tilghman. (1997) 1997. “Two Dominant Mutations in the Mouse Fused Gene Are the Result of Transposon Insertions.”. Genetics 147 (2): 777-86.
    Reference Link
  • Silverman, Sanford J, Allegra A Petti, Nikolai Slavov, Lance Parsons, Ryan Briehof, Stephan Y Thiberge, Daniel Zenklusen, et al. (2010) 2010. “Metabolic Cycling in Single Yeast Cells from Unsynchronized Steady-State Populations Limited on Glucose or Phosphate.”. Proc Natl Acad Sci U S A 107 (15): 6946-51.
    Reference Link
  • Reeves, Gregory T, Rachel Kalifa, Daryl E Klein, Mark A Lemmon, and Stanislav Y Shvartsman. (2005) 2005. “Computational Analysis of EGFR Inhibition by Argos.”. Dev Biol 284 (2): 523-35.
    Reference Link

Footer

Lewis-Sigler Institute for Integrative Genomics
South Drive, Carl Icahn Laboratory
Princeton University
Princeton, NJ 08544 USA

General Information:  [email protected]

  • Diversity & Non-Discrimination
  • Accessibility Help

© 2025 The Trustees of Princeton University

Princeton University