Below you may find selected research articles from Biology, Chemistry, and Environmental Sciences faculty in the Schmid College of Science and Technology.

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Submissions from 2007

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Music to His Antennae, Douglas S. Fudge

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She's Got Legs, Douglas S. Fudge

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Peroxin Pex21p Interacts with C-terminal Noncatalytic Domain of Yeast Seryl-tRNA Synthetase and Forms a Specific Ternary Complex with tRNASer, Vlatka Godinic, Marko Mocibob, Sandra Rocak, Michael Ibba, and Ivana Weygand-Durasevic

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The Function of Stilt Roots in the Growth Strategy of Socratea exorrhiza (Arecaceae) at Two Neotropical Sites, Gregory R. Goldsmith and Rakan A. Zahawi

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Estimation of Agonist Activity at G Protein-Coupled Receptors: Analysis of M2 Muscarinic Receptor Signaling through Gi/o, Gs, and G15, Michael T. Griffin, Katherine W. Figueroa, Sarah Liller, and Frederick J. Ehlert

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An Aminoacyl-tRNA Synthetase: Elongation Factor Complex for Substrate Channeling in Archaeal Translation, Corinne D. Hausmann, Mette Praetorius-Ibba, and Michael Ibba

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Differential Classical Conditioning of the Gill-Withdrawal Reflex In Aplysia Recruits Both Nmda Receptor-Dependent Enhancement and Nmda Receptor-Dependent Depression Of the Reflex, Shekib A. Jami, William G. Wright, and David L. Glanzman

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Pathways of Anaerobic Carbon Cycling Across an Ombrotrophic–Minerotrophic Peatland Gradient, Jason K. Keller and Scott D. Bridgham

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Anticodon Recognition and Discrimination by the Alpha-Helix Cage Domain of Class I Lysyl-tRNA Synthetase, Jeffrey D. Levengood, Hervé Roy, Ryuichiro Ishitani, Dieter Söll, Osamu Nureki, and Michael Ibba

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Mechanism of tRNA-Dependent Editing in Translational Quality Control, Jiaqing Ling, Hervé Roy, and Michael Ibba

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Pathogenic Mechanism of a Human Mitochondrial tRNAPhe Mutation Associated with MERRF syndrome, Jiaqing Ling, Hervé Roy, Daoming Qin, Mary Anne T. Rubio, Juan D. Alfonzo, Kurt Fredrick, and Michael Ibba

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Phenylalanyl-tRNA Synthetase Editing Defects Result in Efficient Mistranslation of Phenylalanine Codons as Tyrosine, Jiqiang Ling, Srujana S. Yadavalli, and Michael Ibba

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Genomewide Spatial Correspondence Between Nonsynonymous Divergence and Neutral Polymorphism Reveals Extensive Adaptation in Drosophila, J. Michael Macpherson, Guy Sella, Jerel C. Davis, and Dmitri A. Petrov

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Eddy Correlation Measurements Of the Air/Sea Flux Of Dimethylsulfide Over the North Pacific Ocean, Christa A. Marandino, Warren J. De Bruyn, Scott D. Miller, and Eric S. Saltzman

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The Endogenous Cannabinoid Anandamide Inhibits Cromakalim-Activated K+ Currents in Follicle-Enclosed Xenopus Oocytes, Murat Oz, Keun-Hang Susan Yang, Meral Dinc, and Toni S. Shippenberg

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Cholecystokinin B-type Receptors Mediate a G-Protein-Dependent Depolarizing Action of Sulphated Cholecystokinin Ocatapeptide (CCK-8s) on Rodent Neonatal Spinal Ventral Horn Neurons, Murat Oz, Keun-Hang Susan Yang, Toni S. Shippenberg, Leo P. Renaud, and Michael J. O'Donovan

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Coupling Coherence Distinguishes Structure Sensitivity in Protein Electron Transfer, Tatiana Prytkova, Igor V. Kurnikov, and David Beratan

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Similar Levels of X-linked and Autosomal Nucleotide Variation in African and Non-African populations of Drosophila melanogaster, Nadia D. Singh, J. Michael Macpherson, Jeffrey D. Jensen, and Dmitri A. Petrov

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Flavin Charge Transfer Transitions Assist DNA Photolyase Electron Transfer, Spiros S. Skourtis, Tatiana Prytkova, and David Beratan

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Effect of Wave Action on Movement in the Owl Limpet, Lottia gigantea, in Santa Cruz, California, William G. Wright and James W. Nybakken

Submissions from 2006

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Bouncing Bites, Douglas S. Fudge

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Getting a Jump on the Competition, Douglas S. Fudge

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Jaws of Life, Douglas S. Fudge

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Nano-fast Nematocysts, Douglas S. Fudge

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Review of "Introduction to the Plant Life of Southern California: Coast to Foothills", Jennifer L. Funk

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Influence of Nutrient Availability, Stand Age, and Canopy Structure on Isoprene Flux in a Eucalyptus saligna Experimental Forest, Jennifer L. Funk, Christian P. Giardina, Alexander Knohl, and Manuel T. Lerdau

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α-Helical Protein Based Materials and Methods for Making Same, John M. Gosline, Douglas S. Fudge, and Paul Guerrette

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Associative Memory In Three Aplysiids: Correlation With Heterosynaptic Modulation, Brian A. Hoover, Hoang Nguyen, Laura Thompson, and William G. Wright

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Linking Ligand-Induced Alterations in Androgen Receptor Structure to Differential Gene Expression: A First Step in the Rational Design of Selective Androgen Receptor Modulators, Dmitri Kazmin, Tatiana Prytkova, C. Edgar Cook, Russell Wolfinger, Tzu-Ming Chu, David Beratan, J. D. Norris, Ching-yi Chang, and Donald P. McDonnell

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Nutrient Control of Microbial Carbon Cycling Along an Ombrotrophicminerotrophic Peatland Gradient, Jason K. Keller, Angela K. Bauers, Scott D. Bridgham, Laurie E. Kellogg, and Colleen M. Iversen

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Hagfish Slime Ecomechanics: Testing the Gill Clogging Hypothesis, Jeannette Lim, Douglas S. Fudge, Nimrod Levy, and John M. Gosline

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Correction to "Oceanic Uptake and the Global Atmospheric Acetone Budget", Christa Marandino, Warren J. De Bruyn, Scott Miller, M. J. Prather, and Eric S. Saltzman

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Aspartyl-tRNA Synthetase is the Target of Peptidenucleotide Antibiotic Microcin C, Anastasia Metlitskaya, Teymur Kazakov, Aigar Kommer, Olga Pavlova, Mette Praetorius-Ibba, Michael Ibba, Igor Krasheninnkov, Vyacheslav Kolb, Inessa Khmel, and Konstantin Severinov

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Functional Association Between Three Archaeal Aminoacyl-tRNA Synthetases, Mette Praetorius-Ibba, Corinne D. Hausmann, Molly Paras, Theresa E. Rogers, and Michael Ibba

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Molecular Biology: Sticky End in Protein Synthesis, Hervé Roy and Michael Ibba

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C to U Editing Stimulates A to I Editing in the Anticodon Loop of a Cytoplasmic Threonyl tRNA in Trypanosoma brucei, Mary Anne T. Rubio, Frank L. Ragone, Kirk W. Gaston, Michael Ibba, and Juan D. Alfonzo

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Discrimination of Cognate and Non-Cognate Substrates at the Active Site of Class I Lysyl-tRNA Synthetase, Shiming Wang, Mette Praetorius-Ibba, Sandro F. Ataide, Hervé Roy, and Michael Ibba

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Authorship in Ecology: Attribution, Accountability, and Responsibility, Jake F. Weltzin, R. Travis Belote, Leigh T. Williams, Jason K. Keller, and E. Cayenne Engel

Submissions from 2005

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Transfer RNA Recognition by Class I Lysyl-tRNA Synthetase from the Lyme Disease Pathogen Borrelia burgdorferi, Alexandre Ambrogelly, Magali Frugier, Michael Ibba, Dieter Söll, and Richard Giegé

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Stationary Phase Expression and Aminoacylation of a tRNA-like Small RNA, Sandro F. Ataide, Brian C. Jester, Kevin M. Devine, and Michael Ibba

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The M2 Muscarinic Receptor Mediates Contraction through Indirect Mechanisms in Mouse Urinary Bladder, Frederick J. Ehlert, Michael T. Griffin, Diane M. Abe, Tran H. Vo, Makoto M. Taketo, Toshiya Manabe, and Minoru Matsui

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Comparison of the Antimuscarinic Action of p-Fluorohexahydrosiladifenidol in Ileal and Tracheal Smooth Muscle, Frederick J. Ehlert, Jake Ching-Hsuan Hsu, Kevin Leung, Alex G. Lee, Darakhshanda Shehnaz, and Michael T. Griffin

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Chilly Waters, Hot Sharks, Douglas S. Fudge

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Composition, Morphology and Mechanics of Hagfish Slime, Douglas S. Fudge

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Sticky Feats, Douglas S. Fudge

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Stretchy to the Core, Douglas S. Fudge

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Review of "Photosynthesis - Regulation Under Varying Light Regimes", Jennifer L. Funk

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Variation in Isoprene Emission from Quercus rubra: Sources, Causes, and Consequences for Estimating Fluxes, Jennifer L. Funk, Clive G. Jones, Dennis W. Gray, Heather L. Throop, Laura A. Hyatt, and Manuel T. Lerdau

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Faststart Muscle Dynamics in the Rainbow Trout Oncorhynchus mykiss: Phase Relationship of White Muscle Shortening and Body Curvature, Jeremy A. Goldbogen, Robert E. Shadwick, Douglas S. Fudge, and John M. Gosline

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Oceanic Uptake and the Global Atmospheric Acetone Budget, Christa Marandino, Warren J. De Bruyn, Scott Miller, M. J. Prather, and Eric S. Saltzman

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Presynaptic Angiotensin II AT1 Receptors Enhance Inhibitory and Excitatory Synaptic Neurotransmission to Motoneurons and Other Ventral Horn Neurons in Neonatal Rat Spinal Cord, Murat Oz, Keun-Hang Susan Yang, Michael J. O'Donovan, and Leo P. Renaud

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Quality Control During Aminoacyl-tRNA Synthesis, M. Praetorius-Ibba, S. Ataide, C. Hausmann, J. Levengood, J. Ling, S. Wang, H. Roy, and Michael Ibba

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Association Between Archaeal Prolyl- and Leucyl-tRNA Synthetases Enhances tRNAPro Aminoacylation, Mette Praetorius-Ibba, Theresa E. Rogers, Rachel Samson, Zvi Kelman, and Michael Ibba

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Loss of Editing Activity During the Evolution of Mitochondrial Phenylalanyl-tRNA Synthetase, Hervé Roy, Jiqiang Ling, Juan D. Alfonzo, and Michael Ibba

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Inhibition Modifies the Effects of Slow Calcium-Activated Potassium Channels on Epileptiform Activity in a Neuronal Network Model, Keun-Hang Susan Yang, Piotr J. Franaszczuk, and Gregory K. Bergey

Submissions from 2004

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Atmospheric Variability Of Methyl Chloride During the Last 300 Years From an Antarctic Ice Core and Firn Air, M. Aydin, Eric S. Saltzman, Warren J. De Bruyn, S. A. Montzka, J. H. Butler, and M. Battle

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Photoreactive Bicyclic Amino Acids as Substrates for Mutant Escherichia coli Phenylalanyl-tRNA Synthetases, Thomas Bentin, Ramin Hamzavi, Jahan Salomonsson, Hervé Roy, Michael Ibba, and Peter E. Nielsen

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Remote Sensing of Dust Storms Over the Indo-Gangetic Basin, Hesham el-Askary, Ritesh Gautam, and Menas Kafatos

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Rain Gauge Derived Precipitation Variability over Virginia and its Relation with the EL NINO Southern Oscillation (ENSO), Hesham el-Askary, S. Sarkar, L. Chiu, Tarek El-Ghawazi, and Menas Kafatos

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Mussels Pull Off Not Getting Pulled Off, Douglas S. Fudge

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Molecular Design of the α-keratin Composite: Insights from a Matrix-free Model, Hagfish Slime Threads, Douglas S. Fudge and John M. Gosline

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Muscarinic Agonist-Mediated Heterologous Desensitization in Isolated Ileum Requires Activation of Both Muscarinic M2 and M3 Receptors, Michael T. Griffin, Minoru Matsui, Darakhshanda Shehnaz, Khurram Z. Ansari, Makoto M. Taketo, Toshiya Manabe, and Frederick J. Ehlert

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Turning tRNA Upside Down: When Aminoacylation is Not a Prerequisite to Protein Synthesis, Michael Ibba and Christopher Francklyn

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Aminoacyl-tRNAs: Setting the Limits of the Genetic Code, Michael Ibba and Dieter Söll

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A Freestanding Proofreading Domain is Required for Protein Synthesis Quality Control in Archaea, Dragana Korencic, Ivan Ahel, James Schelert, Mike Sacher, Benfang Ruan, Constantinos Stathopoulos, Paul Blum, Michael Ibba, and Dieter Söll

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Divergence in Non-Cognate Amino Acid Recognition Between Class I and Class II Lysyl-tRNA Synthetases, Jeffrey D. Levengood, Sandro F. Ataide, Hervé Roy, and Michael Ibba

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Demographic Estimates from Y Chromosome Microsatellite Polymorphisms: Analysis of a Worldwide Sample, J. Michael Macpherson, Sohini Ramachandran, Lisa Diamond, and Marcus W. Feldman

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Post-Transfer Editing in vitro and in vivo by the Beta-subunit of Phenylalanyl-tRNA Synthetase, Hervé Roy, Jiqiang Ling, Michael Irnov, and Michael Ibba

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Methyl Bromide In Preindustrial Air: Measurements From an Antarctic Ice Core, Eric S. Saltzman, Murat Aydin, Warren J. De Bruyn, Daniel B. King, and Shari A. Yvon-Lewis

Submissions from 2003

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Trans-editing of Mischarged tRNAs, Ivan Ahel, Dragana Korencic, Michael Ibba, and Dieter Söll

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Near-Real-Time Measurement Of Sea-Salt Aerosol During the Seas Campaign: Comparison Of Emission-Based Sodium Detection With an Aerosol Volatility Technique, P. Campuzano-Jost, Catherine D. Clark, H. Maring, D. S. Covert, S. Howell, V. Kapustin, K. A. Clarke, E. S. Saltzman, and A. J. Hynes

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The Aqueous Phase Yield Of Alkyl Nitrates From Roo+No: Implications For Photochemical Production In Seawater, Elizabeth E. Dahl, Eric S. Saltzman, and Warren J. De Bruyn

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Diurnal Variation in the Basal Emission Rate of Isoprene, Jennifer L. Funk, Clive G. Jones, Christine J. Baker, Heather M. Fuller, Christian P. Giardina, and Manuel T. Lerdau

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Non-orthologous Replacement of Lysyl-tRNA Synthetase Prevents Addition of Lysine Analogs to the Genetic Code, Brian C. Jester, Jeffrey D. Levengood, Hervé Roy, Michael Ibba, and Kevin M. Devine

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Increased Relaxant Action of Forskolin and Isoproterenol against Muscarinic Agonist-Induced Contractions in Smooth Muscle from M2 Receptor Knockout Mice, Minoru Matsui, Michael T. Griffin, Darakhshanda Shehnaz, Makoto M. Taketo, and Frederick J. Ehlert

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Differentiation of Borrelia burgdorferi sensu lato Strains Using Class I Lysyl-tRNA Synthetase Encoding Genes, Nina Mejlhede, Amanda Monthán, Michael Theisen, and Michael Ibba

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Activation of the Pyrrolysine Suppressor tRNA Requires Formation of a Ternary Complex with Class I and Class II Lysyl-tRNA Synthetases, Carla Polycarpo, Alexandre Ambrogelly, Benfang Ruan, Debra Tumbula-Hansen, Sandro F. Ataide, Ryuichiro Ishitani, Shigeyuki Yokoyama, Osamu Nureki, Michael Ibba, and Dieter Söll

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Aminoacyl-tRNA Synthesis in Archaea: Different but Not Unique, Mette Praetorius-Ibba and Michael Ibba

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Changing Slow Calcium-Activated Potassium Current Kinetics Influence Bursting Activity in a Model of Pyramidal Neurons, Keun-Hang Susan Yang, Piotr J. Franaszczuk, and Gregory K. Bergey

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The Influence of Slow Calcium-Activated Potassium Channels on Epileptiform Activity in a Neuronal Model of Pyramidal Cells, Keun-Hang Susan Yang, Piotr J. Franaszczuk, and Gregory K. Bergey

Submissions from 2002

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Functional Annotation of Class I Lysyl-tRNA Synthetase Phylogeny Indicates a Limited Role for Gene Transfer, Alexandre Ambrogelly, Dragana Korencic, and Michael Ibba

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Genetic Code: Introducing Pyrrolysine, Michael Ibba and Dieter Söll

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The Effect of Changes in the Inhibitory Interneuron Connectivity on the Pattern of Bursting Behavior in a Pyramidal Cell Model, Keun-Hang Susan Yang, Piotr J. Franaszczuk, and Gregory K. Bergey

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The Influences of GABAA and GABAB Inhibition in Bursting Activity in a Model of Pyramidal Cells, Keun-Hang Susan Yang, Piotr J. Franaszczuk, and Gregory K. Bergey

Submissions from 2001

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Acetylcholine-Induced Desensitization of Muscarinic Contractile Response in Guinea Pig Ileum Is Inhibited by Pertussis Toxin Treatment, Frederick J. Ehlert, Khurram Z. Ansari, Darakhshanda Shehnaz, Gregory W. Sawyer, and Michael T. Griffin

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A Test of Biochemical Symmorphosis in a Heterothermic Tissue: Bluefin Tuna White Muscle, Douglas S. Fudge, James S. Ballintyne, and E. Don Stevens

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The Renaissance of Aminoacyl-tRNA Synthesis, Michael Ibba and Dieter Söll

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Protein Synthesis: Twenty Three Amino Acids and Counting, Michael Ibba, Constantinos Stathopoulos, and Dieter Söll

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Post-Transcriptional Modification in Archaeal tRNAs: Identities and Phylogenetic Relations of Nucleotides from Mesophilic and Hyperthermophilic Methanococcales, James A. McCloskey, David E. Graham, Shaolian Zhou, Pamela F. Crain, Michael Ibba, Jordan Konisky, Dieter Söll, and Gary J. Olsen

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Synaptic Connections on the Patterns of Bursting in A Neuronal Circuit Model, Keun-Hang Susan Yang, Piotr J. Franaszczuk, and Gregory K. Bergey

Submissions from 2000

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Context-Dependent Anticodon Recognition by Class I Lysyl-tRNA Synthetases, Dieter Söll, Hubert D. Becker, Pierre Plateau, Sylvain Blanquet, and Michael Ibba

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Aminoacyl-tRNA Synthetases, the Genetic Code, and the Evolutionary Process, Carl R. Woese, Gary J. Olsen, Michael Ibba, and Dieter Söll

Submissions from 1999

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A Simple Method for Estimation of Agonist Activity at Receptor Subtypes: Comparison of Native and Cloned M3 Muscarinic Receptors in Guinea Pig Ileum and Transfected Cells, Frederick J. Ehlert, Michael T. Griffin, Gregory W. Sawyer, and Regina Bailon

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Denmark Lacks Coherent Policy on Basic Research, Michael Ibba and Thomas Bentin

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Archaeal Aminoacyl-tRNA Synthesis: Unique Determinants of a Universal Genetic Code?, Michael Ibba, A. W. Curnow, J. Bono, P. A. Rosa, C. R. Woese, and D. Söll

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Substrate Recognition by Class I Lysyl-tRNA Synthetases: A Molecular Basis for Gene Displacement, Michael Ibba, Heather C. Losey, Yutaka Kawarabayasi, Hisasi Kikuchi, Shipra Bunjun, and Dieter Söll

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Transfer RNA Identity Contributes to Transition State Stabilization During Aminoacyl-tRNA Synthesis, Michael Ibba, Sanja Sever, Mette Praetorius-Ibba, and Dieter Söll

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tRNA Recognition and Evolution of Determinants in Seryl-tRNA Synthesis, Boris Lenhard, Omar Orellana, Michael Ibba, and Ivana Weygand-Durasevic

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Archaeal Aminoacyl-tRNA Synthesis: Diversity Replaces Dogma, Debra Tumbula, Ute C. Vothknecht, Hyun-soo Kim, Michael Ibba, Bokkee Min, Tong Li, Joanne Pelaschier, Constantinos Stathopoulos, Hubert D. Becker, and Dieter Söll

Submissions from 1998

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No Evidence for Homeoviscous Adaptation in a Heterothermic Tissue: Tuna Heat Exchangers, Douglas S. Fudge, E. Don Stevens, and James S. Ballantyne