Now showing items 1-20 of 38

    • The Ability of Flux Balance Analysis to Predict Evolution of Central Metabolism Scales with the Initial Distance to the Optimum 

      Harcombe, William R.; Delaney, Nigel F.; Leiby, Nicholas; Klitgord, Niels; Marx, Christopher J. (Public Library of Science, 2013)
      The most powerful genome-scale framework to model metabolism, flux balance analysis (FBA), is an evolutionary optimality model. It hypothesizes selection upon a proposed optimality criterion in order to predict the set of ...
    • Analysis of a Mouse Skin Model of Tuberous Sclerosis Complex 

      Guo, Yanan; Dreier, John R.; Cao, Juxiang; Du, Heng; Granter, Scott R.; Kwiatkowski, David J. (Public Library of Science, 2016)
      Tuberous Sclerosis Complex (TSC) is an autosomal dominant tumor suppressor gene syndrome in which patients develop several types of tumors, including facial angiofibroma, subungual fibroma, Shagreen patch, angiomyolipomas, ...
    • Bilateral Nerve Alterations in a Unilateral Experimental Neurotrophic Keratopathy Model: A Lateral Conjunctival Approach for Trigeminal Axotomy 

      Yamaguchi, Takefumi; Turhan, Aslihan; Harris, Deshea L.; Hu, Kai; Prüss, Harald; von Andrian, Ulrich; Hamrah, Pedram (Public Library of Science, 2013)
      To study bilateral nerve changes in a newly developed novel mouse model for neurotrophic keratopathy by approaching the trigeminal nerve from the lateral fornix. Surgical axotomy of the ciliary nerve of the trigeminal nerve ...
    • Bioelectric Signaling Regulates Size in Zebrafish Fins 

      Perathoner, Simon; Daane, Jacob M.; Henrion, Ulrike; Seebohm, Guiscard; Higdon, Charles W.; Johnson, Stephen L.; Nüsslein-Volhard, Christiane; Harris, Matthew P. (Public Library of Science, 2014)
      The scaling relationship between the size of an appendage or organ and that of the body as a whole is tightly regulated during animal development. If a structure grows at a different rate than the rest of the body, this ...
    • Caveolin-1 Is a Critical Determinant of Autophagy, Metabolic Switching, and Oxidative Stress in Vascular Endothelium 

      Shiroto, Takashi; Romero, Natalia; Sugiyama, Toru; Sartoretto, Juliano L.; Kalwa, Hermann; Yan, Zhonghua; Shimokawa, Hiroaki; Michel, Thomas (Public Library of Science, 2014)
      Caveolin-1 is a scaffolding/regulatory protein that interacts with diverse signaling molecules. Caveolin-1null mice have marked metabolic abnormalities, yet the underlying molecular mechanisms are incompletely understood. ...
    • Cell-Cycle Dependent Expression of a Translocation-Mediated Fusion Oncogene Mediates Checkpoint Adaptation in Rhabdomyosarcoma 

      Kikuchi, Ken; Hettmer, Simone; Aslam, M. Imran; Michalek, Joel E.; Laub, Wolfram; Wilky, Breelyn A.; Loeb, David M.; Rubin, Brian P.; Wagers, Amy J.; Keller, Charles (Public Library of Science, 2014)
      Rhabdomyosarcoma is the most commonly occurring soft-tissue sarcoma in childhood. Most rhabdomyosarcoma falls into one of two biologically distinct subgroups represented by alveolar or embryonal histology. The alveolar ...
    • Comprehensive Evaluation of Peripheral Nerve Regeneration in the Acute Healing Phase Using Tissue Clearing and Optical Microscopy in a Rodent Model 

      Jung, Yookyung; Ng, Joanna H.; Keating, Cameron P.; Senthil-Kumar, Prabhu; Zhao, Jie; Randolph, Mark A.; Winograd, Jonathan M.; Evans, Conor L. (Public Library of Science, 2014)
      Peripheral nerve injury (PNI), a common injury in both the civilian and military arenas, is usually associated with high healthcare costs and with patients enduring slow recovery times, diminished quality of life, and ...
    • Controlling Airborne Cues to Study Small Animal Navigation 

      Gershow, Marc; Berck, Matthew E; Mathew, Dennis; Luo, Linjiao; Kane, Elizabeth Anne; Carlson, John R; Samuel, Aravinthan DT (Nature Publishing Group, 2012)
      Small animals such as nematodes and insects analyze airborne chemical cues to infer the direction of favorable and noxious locations. In these animals, the study of navigational behavior evoked by airborne cues has been ...
    • Cooperation and the Fate of Microbial Societies 

      Allen, Benjamin Isaac; Nowak, Martin A. (Public Library of Science, 2013)
      Microorganisms have been cooperating with each other for billions of years: by sharing resources, communicating with each other, and joining together to form biofilms and other large structures. These cooperative behaviors ...
    • Dimethyl Sulfoxide (DMSO) Exacerbates Cisplatin-induced Sensory Hair Cell Death in Zebrafish (Danio rerio) 

      Uribe, Phillip M.; Mueller, Melissa; Gleichman, Julia S.; Kramer, Matthew; Wang, Qi; Sibrian-Vazquez, Martha; Strongin, Robert M.; Steyger, Peter S.; Cotanche, Douglas; Matsui, Jonathan I. (Public Library of Science, 2013)
      Inner ear sensory hair cells die following exposure to aminoglycoside antibiotics or chemotherapeutics like cisplatin, leading to permanent auditory and/or balance deficits in humans. Zebrafish (Danio rerio) are used to ...
    • Dynamics of the Microbiota in Response to Host Infection 

      Belzer, Clara; Gerber, Georg K.; Roeselers, Guus; Delaney, Mary; DuBois, Andrea; Liu, Qing; Belavusava, Vera; Yeliseyev, Vladimir; Houseman, Andres; Onderdonk, Andrew; Cavanaugh, Colleen; Bry, Lynn (Public Library of Science, 2014)
      Longitudinal studies of the microbiota are important for discovering changes in microbial communities that affect the host. The complexity of these ecosystems requires rigorous integrated experimental and computational ...
    • The ESX System in Bacillus subtilis Mediates Protein Secretion 

      Huppert, Laura A.; Ramsdell, Talia L.; Chase, Michael R.; Sarracino, David A.; Fortune, Sarah M.; Burton, Briana M. (Public Library of Science, 2014)
      Esat-6 protein secretion systems (ESX or Ess) are required for the virulence of several human pathogens, most notably Mycobacterium tuberculosis and Staphylococcus aureus. These secretion systems are defined by a conserved ...
    • The Evolutionarily Conserved Mediator Subunit MDT-15/MED15 Links Protective Innate Immune Responses and Xenobiotic Detoxification 

      Pukkila-Worley, Read; Feinbaum, Rhonda L.; McEwan, Deborah L.; Conery, Annie L.; Ausubel, Frederick M. (Public Library of Science, 2014)
      Metazoans protect themselves from environmental toxins and virulent pathogens through detoxification and immune responses. We previously identified a small molecule xenobiotic toxin that extends survival of Caenorhabditis ...
    • Ferristatin II Promotes Degradation of Transferrin Receptor-1 In Vitro and In Vivo 

      Byrne, Shaina L.; Buckett, Peter D.; Kim, Jonghan; Luo, Flora; Sanford, Jack; Chen, Juxing; Enns, Caroline; Wessling-Resnick, Marianne (Public Library of Science, 2013)
      Previous studies have shown that the small molecule iron transport inhibitor ferristatin (NSC30611) acts by down-regulating transferrin receptor-1 (TfR1) via receptor degradation. In this investigation, we show that another ...
    • Fibroblasts Derived from Human Pluripotent Stem Cells Activate Angiogenic Responses In Vitro and In Vivo 

      Shamis, Yulia; Silva, Eduardo A.; Hewitt, Kyle J.; Brudno, Yevgeny; Levenberg, Shulamit; Mooney, David J.; Garlick, Jonathan A. (Public Library of Science, 2013)
      Human embryonic and induced pluripotent stem cells (hESC/hiPSC) are promising cell sources for the derivation of large numbers of specific cell types for tissue engineering and cell therapy applications. We have describe ...
    • Genetic Characterization of smg-8 Mutants Reveals No Role in C. elegans Nonsense Mediated Decay 

      Rosains, Jacqueline; Mango, Susan (Public Library of Science, 2012)
      The nonsense mediated decay (NMD) pathway degrades mRNAs bearing premature translation termination codons. In mammals, SMG-8 has been implicated in the NMD pathway, in part by its association with SMG-1 kinase. Here we use ...
    • Germ Cells Are Not Required to Establish the Female Pathway in Mouse Fetal Gonads 

      Maatouk, Danielle M.; Mork, Lindsey; Hinson, Ashley; Kobayashi, Akio; McMahon, Andrew P.; Capel, Blanche (Public Library of Science, 2012)
      The fetal gonad is composed of a mixture of somatic cell lineages and germ cells. The fate of the gonad, male or female, is determined by a population of somatic cells that differentiate into Sertoli or granulosa cells and ...
    • An Insulin-to-Insulin Regulatory Network Orchestrates Phenotypic Specificity in Development and Physiology 

      Fernandes de Abreu, Diana Andrea; Caballero, Antonio; Fardel, Pascal; Stroustrup, Nicholas; Chen, Zhunan; Lee, KyungHwa; Keyes, William D.; Nash, Zachary M.; López-Moyado, Isaac F.; Vaggi, Federico; Cornils, Astrid; Regenass, Martin; Neagu, Anca; Ostojic, Ivan; Liu, Chang; Cho, Yongmin; Sifoglu, Deniz; Shen, Yu; Fontana, Walter; Lu, Hang; Csikasz-Nagy, Attila; Murphy, Coleen T.; Antebi, Adam; Blanc, Eric; Apfeld, Javier; Zhang, Yun; Alcedo, Joy; Ch'ng, QueeLim (Public Library of Science, 2014)
      Insulin-like peptides (ILPs) play highly conserved roles in development and physiology. Most animal genomes encode multiple ILPs. Here we identify mechanisms for how the forty Caenorhabditis elegans ILPs coordinate diverse ...
    • Interleukin-6 Secretion by Astrocytes Is Dynamically Regulated by PI3K-mTOR-Calcium Signaling 

      Codeluppi, Simone; Fernandez-Zafra, Teresa; Sandor, Katalin; Kjell, Jacob; Liu, Qingsong; Abrams, Mathew; Olson, Lars; Gray, Nathanael S.; Svensson, Camilla I.; Uhlén, Per (Public Library of Science, 2014)
      After contusion spinal cord injury (SCI), astrocytes become reactive and form a glial scar. While this reduces spreading of the damage by containing the area of injury, it inhibits regeneration. One strategy to improve the ...
    • The Isolation, Differentiation, and Survival In Vivo of Multipotent Cells from the Postnatal Rat filum terminale 

      Jha, Ruchira M.; Chrenek, Ryan; Magnotti, Laura M.; Cardozo, David L. (Public Library of Science, 2013)
      Neural stem cells (NSCs) are undifferentiated cells in the central nervous system (CNS) that are capable of self-renewal and can be induced to differentiate into neurons and glia. Current sources of mammalian NSCs are ...