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
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“β-arrestin Kurtz inhibits MAPK and Toll signalling in Drosophila development.”, EMBO J, vol. 29, no. 19, pp. 3222-35, 2010.
, “Zygotically controlled F-actin establishes cortical compartments to stabilize furrows during Drosophila cellularization.”, J Cell Sci, vol. 121, no. Pt 11, pp. 1815-24, 2008.
, “Zygotic activity of the nullo locus is required to stabilize the actin-myosin network during cellularization in Drosophila.”, Development, vol. 110, no. 3, pp. 851-63, 1990.
, “The zonal expression of alpha-fetoprotein transgenes in the livers of adult mice.”, Dev Dyn, vol. 195, no. 1, pp. 55-66, 1992.
, “ZMP: a master regulator of one-carbon metabolism.”, Mol Cell, vol. 57, no. 2, pp. 203-4, 2015.
, “Yeast: an experimental organism for 21st Century biology.”, Genetics, vol. 189, no. 3, pp. 695-704, 2011.
, “X-gal staining of electroporated sea squirt (Ciona) embryos.”, Cold Spring Harb Protoc, vol. 2009, no. 12, p. pdb.prot5346, 2009.
, “X chromosomes and autosomes evolve at similar rates in Drosophila: no evidence for faster-X protein evolution.”, Genome Res, vol. 16, no. 4, pp. 498-504, 2006.
, “Wolbachia utilizes host microtubules and Dynein for anterior localization in the Drosophila oocyte.”, PLoS Pathog, vol. 1, no. 2, p. e14, 2005.
, “Wingless signaling in the Drosophila embryo: zygotic requirements and the role of the frizzled genes.”, Development, vol. 126, no. 3, pp. 577-86, 1999.
, “wingless signal and Zeste-white 3 kinase trigger opposing changes in the intracellular distribution of Armadillo.”, Development, vol. 120, no. 2, pp. 369-80, 1994.
, “Willing to do the math: an interview with David Botstein. Interview by Jane Gitschier.”, PLoS Genet, vol. 2, no. 5, p. e79, 2006.
, “Whole-mount in situ hybridization on sea squirt (Ciona intestinalis) embryos.”, Cold Spring Harb Protoc, vol. 2009, no. 12, p. pdb.prot5348, 2009.
, “Whole-genome expression profiles identify gene batteries in Drosophila.”, Dev Cell, vol. 3, no. 4, pp. 464-5, 2002.
, “Whole-genome analysis of Drosophila gastrulation.”, Curr Opin Genet Dev, vol. 14, no. 5, pp. 477-84, 2004.
, “Whole-genome analysis of dorsal-ventral patterning in the Drosophila embryo.”, Cell, vol. 111, no. 5, pp. 687-701, 2002.
, “Wg/Wnt signal can be transmitted through arrow/LRP5,6 and Axin independently of Zw3/Gsk3beta activity.”, Dev Cell, vol. 4, no. 3, pp. 407-18, 2003.
, “Weak pairwise correlations imply strongly correlated network states in a neural population.”, Nature, vol. 440, no. 7087, pp. 1007-12, 2006.
, “Volume conservation principle involved in cell lengthening and nucleus movement during tissue morphogenesis.”, Proc Natl Acad Sci U S A, vol. 109, no. 47, pp. 19298-303, 2012.
, “The vertebrate adhesive junction proteins beta-catenin and plakoglobin and the Drosophila segment polarity gene armadillo form a multigene family with similar properties.”, J Cell Biol, vol. 118, no. 3, pp. 681-91, 1992.
, “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.
, “Vectors and parameters that enhance the efficacy of RNAi-mediated gene disruption in transgenic Drosophila.”, Proc Natl Acad Sci U S A, vol. 107, no. 25, pp. 11435-40, 2010.
, “On the utility of short intron sequences as a reference for the detection of positive and negative selection in Drosophila.”, Mol Biol Evol, vol. 27, no. 6, pp. 1226-34, 2010.
, “Using whole-genome sequence data to predict quantitative trait phenotypes in Drosophila melanogaster.”, PLoS Genet, vol. 8, no. 5, p. e1002685, 2012.
, “Using context to improve protein domain identification.”, BMC Bioinformatics, vol. 12, p. 90, 2011.
, “The use of 'normal' and 'transformed' gynandromorphs in mapping the primordial germ cells and the gonadal mesoderm in Drosophila.”, J Embryol Exp Morphol, vol. 35, no. 3, pp. 607-16, 1976.
, “Unraveling genomic regulatory networks in the simple chordate, Ciona intestinalis.”, Genome Res, vol. 15, no. 12, pp. 1668-74, 2005.
, “Unmasking activation of the zygotic genome using chromosomal deletions in the Drosophila embryo.”, PLoS Biol, vol. 5, no. 5, p. e117, 2007.
, “Universal Reference RNA as a standard for microarray experiments.”, BMC Genomics, vol. 5, no. 1, p. 20, 2004.
, “Unit operations of tissue development: epithelial folding.”, Annu Rev Chem Biomol Eng, vol. 1, pp. 231-46, 2010.
, “Uncoupling heart cell specification and migration in the simple chordate Ciona intestinalis.”, Development, vol. 132, no. 21, pp. 4811-8, 2005.
, “Ultra-fast absorption of amorphous pure drug aerosols via deep lung inhalation.”, J Pharm Sci, vol. 95, no. 11, pp. 2438-51, 2006.
, “Two regulatory domains flank the mouse H19 gene.”, Mol Cell Biol, vol. 8, no. 11, pp. 4707-15, 1988.
, “Two new roles for the Drosophila AP patterning system in early morphogenesis.”, Development, vol. 128, no. 24, pp. 5129-38, 2001.
, “Two dominant mutations in the mouse fused gene are the result of transposon insertions.”, Genetics, vol. 147, no. 2, pp. 777-86, 1997.
, “Turning to the cold.”, Nat Cell Biol, vol. 9, no. 9, pp. 1029-31, 2007.
, “Transitions in the model of epithelial patterning.”, Dev Dyn, vol. 226, no. 1, pp. 155-9, 2003.
, “The transcription/migration interface in heart precursors of Ciona intestinalis.”, Science, vol. 320, no. 5881, pp. 1349-52, 2008.
, “Transcriptional repression via antilooping in the Drosophila embryo.”, Proc Natl Acad Sci U S A, vol. 109, no. 24, pp. 9460-4, 2012.
, “A transcriptional network associated with natural variation in Drosophila aggressive behavior.”, Genome Biol, vol. 10, no. 7, p. R76, 2009.
, “Transcriptional interpretation of the EGF receptor signaling gradient.”, Proc Natl Acad Sci U S A, vol. 109, no. 5, pp. 1572-7, 2012.
, “Transcription regulation and animal diversity.”, Nature, vol. 424, no. 6945, pp. 147-51, 2003.
, “Torso RTK controls Capicua degradation by changing its subcellular localization.”, Development, vol. 139, no. 21, pp. 3962-8, 2012.
, “Tissue-specific transcription of the mouse alpha-fetoprotein gene promoter is dependent on HNF-1.”, Mol Cell Biol, vol. 9, no. 10, pp. 4204-12, 1989.
, “Tissue-specific functional networks for prioritizing phenotype and disease genes.”, PLoS Comput Biol, vol. 8, no. 9, p. e1002694, 2012.
, “Tissue entrainment by feedback regulation of insulin gene expression in the endoderm of Caenorhabditis elegans.”, Proc Natl Acad Sci U S A, vol. 104, no. 48, pp. 19046-50, 2007.
, “Time course of precision in smooth-pursuit eye movements of monkeys.”, J Neurosci, vol. 27, no. 11, pp. 2987-98, 2007.
, “Time course of information about motion direction in visual area MT of macaque monkeys.”, J Neurosci, vol. 24, no. 13, pp. 3210-22, 2004.
, “Three-dimensional epithelial morphogenesis in the developing Drosophila egg.”, Dev Cell, vol. 24, no. 4, pp. 400-10, 2013.
, “TGF-β and insulin signaling regulate reproductive aging via oocyte and germline quality maintenance.”, Cell, vol. 143, no. 2, pp. 299-312, 2010.
, “TGF-beta Sma/Mab signaling mutations uncouple reproductive aging from somatic aging.”, PLoS Genet, vol. 5, no. 12, p. e1000789, 2009.
, “Testing models of selection and demography in Drosophila simulans.”, Genetics, vol. 162, no. 1, pp. 203-16, 2002.
, “Tensions divide.”, Nat Cell Biol, vol. 12, no. 1, pp. 5-7, 2010.
, “The temporal requirement for endothelin receptor-B signalling during neural crest development.”, Nature, vol. 402, no. 6761, pp. 496-501, 1999.
, “Temporal dynamics, spatial range, and transcriptional interpretation of the Dorsal morphogen gradient.”, Curr Opin Genet Dev, vol. 22, no. 6, pp. 542-6, 2012.
, “Tail morphogenesis in the ascidian, Ciona intestinalis, requires cooperation between notochord and muscle.”, Dev Biol, vol. 244, no. 2, pp. 385-95, 2002.
, “T cell receptor-independent basal signaling via Erk and Abl kinases suppresses RAG gene expression.”, PLoS Biol, vol. 1, no. 2, p. E53, 2003.
, “Systems-level metabolic flux profiling identifies fatty acid synthesis as a target for antiviral therapy.”, Nat Biotechnol, vol. 26, no. 10, pp. 1179-86, 2008.
, “Systems-level dynamic analyses of fate change in murine embryonic stem cells.”, Nature, vol. 462, no. 7271, pp. 358-62, 2009.
, “Systems genetics of complex traits in Drosophila melanogaster.”, Nat Genet, vol. 41, no. 3, pp. 299-307, 2009.
, “Systems genetics analysis of body weight and energy metabolism traits in Drosophila melanogaster.”, BMC Genomics, vol. 11, p. 297, 2010.
, “Synthetic gene expression perturbation systems with rapid, tunable, single-gene specificity in yeast.”, Nucleic Acids Res, vol. 41, no. 4, p. e57, 2013.
, “The synthesis-diffusion-degradation model explains Bicoid gradient formation in unfertilized eggs.”, Phys Biol, vol. 9, no. 5, p. 055004, 2012.
, “Synergy, redundancy, and independence in population codes.”, J Neurosci, vol. 23, no. 37, pp. 11539-53, 2003.
, “Synergy from silence in a combinatorial neural code.”, J Neurosci, vol. 31, no. 44, pp. 15732-41, 2011.
, “Synchronous and stochastic patterns of gene activation in the Drosophila embryo.”, Science, vol. 325, no. 5939, pp. 471-3, 2009.
, “Super-resolution for a 3D world.”, Nat Methods, vol. 5, no. 6, pp. 471-2, 2008.
, “Substrate-dependent control of MAPK phosphorylation in vivo.”, Mol Syst Biol, vol. 7, p. 467, 2011.
, “The structure and expression of a novel gene activated in early mouse embryogenesis.”, EMBO J, vol. 7, no. 3, pp. 673-81, 1988.
, “The structural H19 gene is required for transgene imprinting.”, Proc Natl Acad Sci U S A, vol. 93, no. 24, pp. 13876-83, 1996.
, “Stochastic model of autocrine and paracrine signals in cell culture assays.”, Biophys J, vol. 85, no. 6, pp. 3659-65, 2003.
, “Statistical properties of spike trains: universal and stimulus-dependent aspects.”, Phys Rev E Stat Nonlin Soft Matter Phys, vol. 66, no. 3 Pt 1, p. 031907, 2002.
, “Statistical mechanics for natural flocks of birds.”, Proc Natl Acad Sci U S A, vol. 109, no. 13, pp. 4786-91, 2012.
, “The Stanford Microarray Database: data access and quality assessment tools.”, Nucleic Acids Res, vol. 31, no. 1, pp. 94-6, 2003.
, “Stalled Hox promoters as chromosomal boundaries.”, Genes Dev, vol. 23, no. 13, pp. 1505-9, 2009.
, “Stability and nuclear dynamics of the bicoid morphogen gradient.”, Cell, vol. 130, no. 1, pp. 141-52, 2007.
, “src64 and tec29 are required for microfilament contraction during Drosophila cellularization.”, Development, vol. 131, no. 4, pp. 863-71, 2004.
, “Spatio-temporal intersection of Lhx3 and Tbx6 defines the cardiac field through synergistic activation of Mesp.”, Dev Biol, vol. 328, no. 2, pp. 552-60, 2009.
, “Spatial regulation of microRNA gene expression in the Drosophila embryo.”, Proc Natl Acad Sci U S A, vol. 102, no. 44, pp. 15907-11, 2005.
, “Spatial regulation of BMP signaling by patterned receptor expression.”, Tissue Eng Part A, vol. 14, no. 9, pp. 1469-77, 2008.
, “Spatial expression of the Drosophila segment polarity gene armadillo is posttranscriptionally regulated by wingless.”, Cell, vol. 63, no. 3, pp. 549-60, 1990.
, “SOURCE: a unified genomic resource of functional annotations, ontologies, and gene expression data.”, Nucleic Acids Res, vol. 31, no. 1, pp. 219-23, 2003.
, “Somatic stem cell niche tropism in Wolbachia.”, Nature, vol. 441, no. 7092, pp. 509-12, 2006.
, “Social interactions dominate speed control in poising natural flocks near criticality.”, Proc Natl Acad Sci U S A, vol. 111, no. 20, pp. 7212-7, 2014.
, “The Snail repressor positions Notch signaling in the Drosophila embryo.”, Development, vol. 129, no. 7, pp. 1785-93, 2002.
, “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.
, “Slow stress propagation in adherent cells.”, Biophys J, vol. 95, no. 12, pp. 6052-9, 2008.
, “slam encodes a developmental regulator of polarized membrane growth during cleavage of the Drosophila embryo.”, Dev Cell, vol. 2, no. 4, pp. 425-36, 2002.
, “The sins of the fathers and mothers: genomic imprinting in mammalian development.”, Cell, vol. 96, no. 2, pp. 185-93, 1999.
, “A simplified miRNA-based gene silencing method for Drosophila melanogaster.”, Dev Biol, vol. 321, no. 2, pp. 482-90, 2008.
, “Simple topological features reflect dynamics and modularity in protein interaction networks.”, PLoS Comput Biol, vol. 9, no. 10, p. e1003243, 2013.
, “Signaling gradients in cascades of two-state reaction-diffusion systems.”, Proc Natl Acad Sci U S A, vol. 106, no. 4, pp. 1087-92, 2009.
, “Signaling activities of the Drosophila wingless gene are separately mutable and appear to be transduced at the cell surface.”, Genetics, vol. 139, no. 1, pp. 309-20, 1995.
, “Short-term integration of Cdc25 dynamics controls mitotic entry during Drosophila gastrulation.”, Dev Cell, vol. 22, no. 4, pp. 763-74, 2012.
, “short gastrulation, a mutation causing delays in stage-specific cell shape changes during gastrulation in Drosophila melanogaster.”, Dev Biol, vol. 129, no. 2, pp. 417-27, 1988.
, “Shooting from the hip: spatial control of signal release by intracellular waves.”, Proc Natl Acad Sci U S A, vol. 99, no. 14, pp. 9087-9, 2002.
, “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.
, “Shadow enhancers foster robustness of Drosophila gastrulation.”, Curr Biol, vol. 20, no. 17, pp. 1562-7, 2010.
, “Shadow enhancers as a source of evolutionary novelty.”, Science, vol. 321, no. 5894, p. 1314, 2008.
, “Is sex determination in germ line and soma controlled by separate genetic mechanisms?”, Nature, vol. 272, no. 5650, pp. 249-51, 1978.
, “A sensory source for motor variation.”, Nature, vol. 437, no. 7057, pp. 412-6, 2005.
, “Selection, recombination and demographic history in Drosophila miranda.”, Genetics, vol. 174, no. 4, pp. 2045-59, 2006.
, “Segregating variation in the transcriptome: cis regulation and additivity of effects.”, Genetics, vol. 173, no. 3, pp. 1347-55, 2006.
, “Segment polarity gene interactions modulate epidermal patterning in Drosophila embryos.”, Development, vol. 119, no. 2, pp. 501-17, 1993.
, “The segment polarity gene armadillo interacts with the wingless signaling pathway in both embryonic and adult pattern formation.”, Development, vol. 111, no. 4, pp. 1029-43, 1991.
, “The segment polarity gene armadillo encodes a functionally modular protein that is the Drosophila homolog of human plakoglobin.”, Cell, vol. 63, no. 6, pp. 1167-76, 1990.
, “A second-generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence.”, Genome Res, vol. 23, no. 1, pp. 89-98, 2013.
, “Searching for simplicity in the analysis of neurons and behavior.”, Proc Natl Acad Sci U S A, vol. 108 Suppl 3, pp. 15565-71, 2011.
, “Searching for collective behavior in a large network of sensory neurons.”, PLoS Comput Biol, vol. 10, no. 1, p. e1003408, 2014.
, “The search for DAF-16/FOXO transcriptional targets: approaches and discoveries.”, Exp Gerontol, vol. 41, no. 10, pp. 910-21, 2006.
, “The sea squirt Ciona intestinalis.”, Cold Spring Harb Protoc, vol. 2009, no. 12, p. pdb.emo138, 2009.
, “SCAR is a primary regulator of Arp2/3-dependent morphological events in Drosophila.”, J Cell Biol, vol. 156, no. 4, pp. 689-701, 2002.
, “Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms.”, Nucleic Acids Res, vol. 32, no. Database issue, pp. D311-4, 2004.
, “Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO).”, Nucleic Acids Res, vol. 30, no. 1, pp. 69-72, 2002.
, “RTK signaling modulates the Dorsal gradient.”, Development, vol. 139, no. 16, pp. 3032-9, 2012.
, “Role of the zygotic genome in the restructuring of the actin cytoskeleton at the cycle-14 transition during Drosophila embryogenesis.”, Cold Spring Harb Symp Quant Biol, vol. 57, pp. 653-9, 1992.
, “The role of the transformer genes in the development of genitalia and analia of Drosophila melanogaster.”, Dev Biol, vol. 90, no. 2, pp. 320-34, 1982.
, “The role of insulin/IGF-like signaling in C. elegans longevity and aging.”, Dis Model Mech, vol. 3, no. 7-8, pp. 415-9, 2010.
, “The role of input noise in transcriptional regulation.”, PLoS One, vol. 3, no. 7, p. e2774, 2008.
, “The role of heat shock transcription factor 1 in the genome-wide regulation of the mammalian heat shock response.”, Mol Biol Cell, vol. 15, no. 3, pp. 1254-61, 2004.
, “Role of boundary conditions in an experimental model of epithelial wound healing.”, Am J Physiol Cell Physiol, vol. 291, no. 1, pp. C68-75, 2006.
, “Role of alpha-fetoprotein regulatory elements in transcriptional activation in transient heterokaryons.”, Mol Cell Biol, vol. 10, no. 10, pp. 5047-54, 1990.
, “A role for the Drosophila segment polarity gene armadillo in cell adhesion and cytoskeletal integrity during oogenesis.”, Development, vol. 118, no. 4, pp. 1191-207, 1993.
, “Revisiting an old riddle: what determines genetic diversity levels within species?”, PLoS Biol, vol. 10, no. 9, p. e1001388, 2012.
, “Retrospective. Walter Gehring (1939-2014).”, Science, vol. 345, no. 6194, p. 277, 2014.
, “Rethinking WNT signaling.”, Trends Genet, vol. 20, no. 4, pp. 177-81, 2004.
, “Requirements for zygotic gene activity during gastrulation in Drosophila melanogaster.”, Dev Biol, vol. 111, no. 2, pp. 359-71, 1985.
, “Requirements for X-linked zygotic gene activity during cellularization of early Drosophila embryos.”, Development, vol. 104, no. 3, pp. 483-93, 1988.
, “Requirements for autosomal gene activity during precellular stages of Drosophila melanogaster.”, Development, vol. 104, no. 3, pp. 495-509, 1988.
, “Remodeling of the metabolome during early frog development.”, PLoS One, vol. 6, no. 2, p. e16881, 2011.
, “A regulatory code for neurogenic gene expression in the Drosophila embryo.”, Development, vol. 131, no. 10, pp. 2387-94, 2004.
, “Regulation of Hox gene activity by transcriptional elongation in Drosophila.”, Curr Biol, vol. 19, no. 8, pp. 688-93, 2009.
, “Regulation of armadillo by a Drosophila APC inhibits neuronal apoptosis during retinal development.”, Cell, vol. 93, no. 7, pp. 1171-82, 1998.
, “Regulation of aging and age-related disease by DAF-16 and heat-shock factor.”, Science, vol. 300, no. 5622, pp. 1142-5, 2003.
, “Regulated expression of nullo is required for the formation of distinct apical and basal adherens junctions in the Drosophila blastoderm.”, J Cell Biol, vol. 150, no. 2, pp. 391-401, 2000.
, “raf regulates the postnatal repression of the mouse alpha-fetoprotein gene at the posttranscriptional level.”, Mol Cell Biol, vol. 12, no. 2, pp. 856-64, 1992.
, “Quiescent fibroblasts exhibit high metabolic activity.”, PLoS Biol, vol. 8, no. 10, p. e1000514, 2010.
, “Quantitative trait loci that modify the severity of spotting in piebald mice.”, Genome Res, vol. 5, no. 1, pp. 29-41, 1995.
, “Quantitative models of developmental pattern formation.”, Dev Cell, vol. 11, no. 3, pp. 289-300, 2006.
, “Quantitative imaging of transcription in living Drosophila embryos links polymerase activity to patterning.”, Curr Biol, vol. 23, no. 21, pp. 2140-5, 2013.
, “Quantitative flux analysis reveals folate-dependent NADPH production.”, Nature, vol. 510, no. 7504, pp. 298-302, 2014.
, “Quantitative analysis of the GAL4/UAS system in Drosophila oogenesis.”, Genesis, vol. 44, no. 2, pp. 66-74, 2006.
, “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.
, “Quantitative 4D analyses of epithelial folding during Drosophila gastrulation.”, Development, vol. 141, no. 14, pp. 2895-900, 2014.
, “Quantifying the Gurken morphogen gradient in Drosophila oogenesis.”, Dev Cell, vol. 11, no. 2, pp. 263-72, 2006.
, “Quantifying the Bicoid morphogen gradient in living fly embryos.”, Cold Spring Harb Protoc, vol. 2012, no. 4, pp. 398-406, 2012.
, “pyramus and thisbe: FGF genes that pattern the mesoderm of Drosophila embryos.”, Genes Dev, vol. 18, no. 6, pp. 687-99, 2004.
, “Putting microarrays in a context: integrated analysis of diverse biological data.”, Brief Bioinform, vol. 6, no. 1, pp. 34-43, 2005.
, “A putative cell signal encoded by the folded gastrulation gene coordinates cell shape changes during Drosophila gastrulation.”, Cell, vol. 76, no. 6, pp. 1075-89, 1994.
, “Pulsed contractions of an actin-myosin network drive apical constriction.”, Nature, vol. 457, no. 7228, pp. 495-9, 2009.
, “Protein quantification across hundreds of experimental conditions.”, Proc Natl Acad Sci U S A, vol. 106, no. 37, pp. 15544-8, 2009.
, “Promoter-proximal tethering elements regulate enhancer-promoter specificity in the Drosophila Antennapedia complex.”, Proc Natl Acad Sci U S A, vol. 99, no. 14, pp. 9243-7, 2002.
, “Promoter elements associated with RNA Pol II stalling in the Drosophila embryo.”, Proc Natl Acad Sci U S A, vol. 105, no. 22, pp. 7762-7, 2008.
, “The product of the H19 gene may function as an RNA.”, Mol Cell Biol, vol. 10, no. 1, pp. 28-36, 1990.
, “The product of the Drosophila melanogaster segment polarity gene armadillo is highly conserved in sequence and expression in the housefly Musca domestica.”, J Mol Evol, vol. 36, no. 3, pp. 224-33, 1993.
, “Probing the limits to positional information.”, Cell, vol. 130, no. 1, pp. 153-64, 2007.
, “Probing the kinesin reaction cycle with a 2D optical force clamp.”, Proc Natl Acad Sci U S A, vol. 100, no. 5, pp. 2351-6, 2003.
, “Probing for gene specificity in epithelial development.”, Int J Dev Biol, vol. 42, no. 3, pp. 249-55, 1998.
, “The Princeton Protein Orthology Database (P-POD): a comparative genomics analysis tool for biologists.”, PLoS One, vol. 2, no. 8, p. e766, 2007.
, “Predicting gene function in a hierarchical context with an ensemble of classifiers.”, Genome Biol, vol. 9 Suppl 1, p. S3, 2008.
, “Precision of hunchback expression in the Drosophila embryo.”, Curr Biol, vol. 22, no. 23, pp. 2247-52, 2012.
, “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.
, “Precise developmental gene expression arises from globally stochastic transcriptional activity.”, Cell, vol. 154, no. 4, pp. 789-800, 2013.
, “PQM-1 complements DAF-16 as a key transcriptional regulator of DAF-2-mediated development and longevity.”, Cell, vol. 154, no. 3, pp. 676-90, 2013.
, “Posttranslational control of Cdc25 degradation terminates Drosophila's early cell-cycle program.”, Curr Biol, vol. 23, no. 2, pp. 127-32, 2013.
, “Postnatal repression of the alpha-fetoprotein gene is enhancer independent.”, Genes Dev, vol. 3, no. 4, pp. 537-46, 1989.
, “Positive and negative selection on noncoding DNA in Drosophila simulans.”, Mol Biol Evol, vol. 25, no. 9, pp. 1825-34, 2008.
, “Positional information, in bits.”, Proc Natl Acad Sci U S A, vol. 110, no. 41, pp. 16301-8, 2013.
, “A population genetics-phylogenetics approach to inferring natural selection in coding sequences.”, PLoS Genet, vol. 7, no. 12, p. e1002395, 2011.
, “Polycomb mediates Myc autorepression and its transcriptional control of many loci in Drosophila.”, Genes Dev, vol. 19, no. 24, pp. 2941-6, 2005.
, “The polycomb group mutant esc leads to augmented levels of paused Pol II in the Drosophila embryo.”, Mol Cell, vol. 42, no. 6, pp. 837-44, 2011.
, “Polarized insertion of new membrane from a cytoplasmic reservoir during cleavage of the Drosophila embryo.”, J Cell Biol, vol. 150, no. 4, pp. 849-60, 2000.
, “PILGRM: an interactive data-driven discovery platform for expert biologists.”, Nucleic Acids Res, vol. 39, no. Web Server issue, pp. W368-74, 2011.
, “Piebald lethal (sl) acts early to disrupt the development of neural crest-derived melanocytes.”, Proc Natl Acad Sci U S A, vol. 91, no. 15, pp. 7159-63, 1994.
, “Physical linkage of two mammalian imprinted genes, H19 and insulin-like growth factor 2.”, Nat Genet, vol. 2, no. 1, pp. 61-5, 1992.
, “Phylogenomics reveals extensive reticulate evolution in Xiphophorus fishes.”, Evolution, vol. 67, no. 8, pp. 2166-79, 2013.
, “Phylogenetic portrait of the Saccharomyces cerevisiae functional genome.”, G3 (Bethesda), vol. 3, no. 8, pp. 1335-40, 2013.
, “Pervasive natural selection in the Drosophila genome?”, PLoS Genet, vol. 5, no. 6, p. e1000495, 2009.
, “Paused RNA polymerase II as a developmental checkpoint.”, Cell, vol. 145, no. 4, pp. 502-11, 2011.
, “Paused Pol II coordinates tissue morphogenesis in the Drosophila embryo.”, Cell, vol. 153, no. 5, pp. 976-87, 2013.
, “Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content.”, Genome Biol, vol. 6, no. 8, p. R67, 2005.
, “Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila.”, Genome Res, vol. 14, no. 2, pp. 273-9, 2004.
, “Patterned gene expression directs bipolar planar polarity in Drosophila.”, Dev Cell, vol. 6, no. 3, pp. 343-55, 2004.
, “Pattern formation by receptor tyrosine kinases: analysis of the Gurken gradient in Drosophila oogenesis.”, Curr Opin Genet Dev, vol. 21, no. 6, pp. 719-25, 2011.
, “Pattern formation by graded and uniform signals in the early Drosophila embryo.”, Biophys J, vol. 102, no. 3, pp. 427-33, 2012.
, “Pattern formation by dynamically interacting network motifs.”, Proc Natl Acad Sci U S A, vol. 106, no. 9, pp. 3213-8, 2009.
, “Pattern formation by a moving morphogen source.”, Phys Biol, vol. 8, no. 4, p. 045003, 2011.
, “Parental imprinting of the mouse H19 gene.”, Nature, vol. 351, no. 6322, pp. 153-5, 1991.
, “Parental imprinting of the H19 and Igf2 genes in the mouse.”, Cold Spring Harb Symp Quant Biol, vol. 58, pp. 287-95, 1993.
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, “Parallel molecular evolution in an herbivore community.”, Science, vol. 337, no. 6102, pp. 1634-7, 2012.
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