Now showing items 1-20 of 58

    • 29 mammalian genomes reveal novel exaptations of mobile elements for likely regulatory functions in the human genome. 

      Lowe, Craig B; Haussler, David (PloS one, 2012-01)
      Recent research supports the view that changes in gene regulation, as opposed to changes in the genes themselves, play a significant role in morphological evolution. Gene regulation is largely dependent on transcription ...
    • A complex intronic enhancer regulates expression of the CFTR gene by direct interaction with the promoter. 

      Ott, Christopher J; Suszko, Magdalena; Blackledge, Neil P; Wright, Jane E; Crawford, Gregory E; Harris, Ann (J Cell Mol Med, 2009-04)
      Genes can maintain spatiotemporal expression patterns by long-range interactions between cis-acting elements. The cystic fibrosis transmembrane conductance regulator gene (CFTR) is expressed primarily in epithelial cells. ...
    • A framework for integrating the songbird brain. 

      Jarvis, ED; Smith, VA; Wada, K; Rivas, MV; McElroy, M; Smulders, TV; Carninci, P; ... (15 authors) (J Comp Physiol A Neuroethol Sens Neural Behav Physiol, 2002-12)
      Biological systems by default involve complex components with complex relationships. To decipher how biological systems work, we assume that one needs to integrate information over multiple levels of complexity. The songbird ...
    • A Functionally Conserved Gene Regulatory Network Module Governing Olfactory Neuron Diversity. 

      Li, Qingyun; Barish, Scott; Okuwa, Sumie; Maciejewski, Abigail; Brandt, Alicia T; Reinhold, Dominik; Jones, Corbin D; ... (8 authors) (PLoS Genet, 2016-01)
      Sensory neuron diversity is required for organisms to decipher complex environmental cues. In Drosophila, the olfactory environment is detected by 50 different olfactory receptor neuron (ORN) classes that are clustered in ...
    • A genome-wide RNAi screen reveals multiple regulators of caspase activation. 

      Yi, Caroline H; Sogah, Dodzie K; Boyce, Michael; Degterev, Alexei; Christofferson, Dana E; Yuan, Junying (The Journal of cell biology, 2007-11-12)
      Apoptosis is an evolutionally conserved cellular suicide mechanism that can be activated in response to a variety of stressful stimuli. Increasing evidence suggests that apoptotic regulation relies on specialized cell death ...
    • A nucleosome-guided map of transcription factor binding sites in yeast. 

      Narlikar, Leelavati; Gordân, Raluca; Hartemink, Alexander J (PLoS Comput Biol, 2007-11)
      Finding functional DNA binding sites of transcription factors (TFs) throughout the genome is a crucial step in understanding transcriptional regulation. Unfortunately, these binding sites are typically short and degenerate, ...
    • Animal models of soft-tissue sarcoma. 

      Dodd, Rebecca D; Mito, Jeffery K; Kirsch, David G (Dis Model Mech, 2010-09)
      Soft-tissue sarcomas (STSs) are rare mesenchymal tumors that arise from muscle, fat and connective tissue. Currently, over 75 subtypes of STS are recognized. The rarity and heterogeneity of patient samples complicate clinical ...
    • Association between the ERCC5 Asp1104His polymorphism and cancer risk: a meta-analysis. 

      Zhu, Mei-Ling; Wang, Mengyun; Cao, Zhi-Gang; He, Jing; Shi, Ting-Yan; Xia, Kai-Qin; Qiu, Li-Xin; ... (8 authors) (PloS one, 2012-01)
      BACKGROUND: Excision repair cross complementing group 5 (ERCC5 or XPG) plays an important role in regulating DNA excision repair, removal of bulky lesions caused by environmental chemicals or UV light. Mutations in this ...
    • Behaviourally driven gene expression reveals song nuclei in hummingbird brain. 

      Jarvis, ED; Ribeiro, S; da Silva, ML; Ventura, D; Vielliard, J; Mello, CV (Nature, 2000-08-10)
      Hummingbirds have developed a wealth of intriguing features, such as backwards flight, ultraviolet vision, extremely high metabolic rates, nocturnal hibernation, high brain-to-body size ratio and a remarkable species-specific ...
    • beta-Arrestin1 modulates lymphoid enhancer factor transcriptional activity through interaction with phosphorylated dishevelled proteins. 

      Chen, W; Hu, LA; Semenov, MV; Yanagawa, S; Kikuchi, A; Lefkowitz, RJ; Miller, WE (Proc Natl Acad Sci U S A, 2001-12-18)
      One aspect of the function of the beta-arrestins is to serve as scaffold or adapter molecules coupling G-protein coupled receptors (GPCRs) to signal transduction pathways distinct from traditional second messenger pathways. ...
    • C. elegans germline-deficient mutants respond to pathogen infection using shared and distinct mechanisms. 

      TeKippe, Michael; Aballay, Alejandro (PLoS One, 2010-07-26)
      Reproduction extracts a cost in resources that organisms are then unable to utilize to deal with a multitude of environmental stressors. In the nematode C. elegans, development of the germline shortens the lifespan of the ...
    • Chromatin Modulatory Proteins and Olfactory Receptor Signaling in the Refinement and Maintenance of Fruitless Expression in Olfactory Receptor Neurons. 

      Hueston, Catherine E; Olsen, Douglas; Li, Qingyun; Okuwa, Sumie; Peng, Bo; Wu, Jianni; Volkan, Pelin Cayirlioglu (PLoS Biol, 2016-04)
      During development, sensory neurons must choose identities that allow them to detect specific signals and connect with appropriate target neurons. Ultimately, these sensory neurons will successfully integrate into appropriate ...
    • Chromatin: bind at your own RSC. 

      Buchler, Nicolas E; Bai, Lu (Curr Biol, 2011-03-22)
      Recent work has identified a novel RSC-nucleosome complex that both strongly phases flanking nucleosomes and presents regulatory sites for ready access. These results challenge several widely held views.
    • Complex evolutionary trajectories of sex chromosomes across bird taxa. 

      Zhou, Qi; Zhang, Jilin; Bachtrog, Doris; An, Na; Huang, Quanfei; Jarvis, Erich D; Gilbert, M Thomas P; ... (8 authors) (Science, 2014-12-12)
      Sex-specific chromosomes, like the W of most female birds and the Y of male mammals, usually have lost most genes owing to a lack of recombination. We analyze newly available genomes of 17 bird species representing the avian ...
    • Core and region-enriched networks of behaviorally regulated genes and the singing genome. 

      Whitney, Osceola; Pfenning, Andreas R; Howard, Jason T; Blatti, Charles A; Liu, Fang; Ward, James M; Wang, Rui; ... (14 authors) (Science, 2014-12-12)
      Songbirds represent an important model organism for elucidating molecular mechanisms that link genes with complex behaviors, in part because they have discrete vocal learning circuits that have parallels with those that ...
    • CYLD inhibits melanoma growth and progression through suppression of the JNK/AP-1 and β1-integrin signaling pathways. 

      Ke, Hengning; Augustine, Christina K; Gandham, Vineela D; Jin, Jane Y; Tyler, Douglas S; Akiyama, Steven K; Hall, Russell P; ... (8 authors) (J Invest Dermatol, 2013-01)
      The molecular mechanisms mediating cylindromatosis (CYLD) tumor suppressor function appear to be manifold. Here, we demonstrate that, in contrast to the increased levels of phosphorylated c-Jun NH(2)-terminal kinase (pJNK), ...
    • Cytokinesis proteins Tum and Pav have a nuclear role in Wnt regulation. 

      Jones, Whitney M; Chao, Anna T; Zavortink, Michael; Saint, Robert; Bejsovec, Amy (J Cell Sci, 2010-07-01)
      Wg/Wnt signals specify cell fates in both invertebrate and vertebrate embryos and maintain stem-cell populations in many adult tissues. Deregulation of the Wnt pathway can transform cells to a proliferative fate, leading ...
    • Different Mechanisms Confer Gradual Control and Memory at Nutrient- and Stress-Regulated Genes in Yeast. 

      Rienzo, Alessandro; Poveda-Huertes, Daniel; Aydin, Selcan; Buchler, Nicolas E; Pascual-Ahuir, Amparo; Proft, Markus (Mol Cell Biol, 2015-11)
      Cells respond to environmental stimuli by fine-tuned regulation of gene expression. Here we investigated the dose-dependent modulation of gene expression at high temporal resolution in response to nutrient and stress signals ...
    • Dynamics of Delta/Notch signaling on endomesoderm segregation in the sea urchin embryo. 

      Croce, Jenifer C; McClay, David R (Development, 2010-01)
      Endomesoderm is the common progenitor of endoderm and mesoderm early in the development of many animals. In the sea urchin embryo, the Delta/Notch pathway is necessary for the diversification of this tissue, as are two early ...
    • Endangered species hold clues to human evolution. 

      Lowe, Craig B; Bejerano, Gill; Salama, Sofie R; Haussler, David (The Journal of heredity, 2010-07)
      We report that 18 conserved, and by extension functional, elements in the human genome are the result of retroposon insertions that are evolving under purifying selection in mammals. We show evidence that 1 of the 18 elements ...