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Articles 1 - 5 of 5
Full-Text Articles in Life Sciences
Understanding How Camkii Holoenzyme Dynamics Facilities Activation-Triggered Subunit Exchange, Ana P. Torres-Ocampo
Understanding How Camkii Holoenzyme Dynamics Facilities Activation-Triggered Subunit Exchange, Ana P. Torres-Ocampo
Doctoral Dissertations
Long-term memory and learning are still poorly understood from a molecular and cellular standpoint. Ca2+/calmodulin-dependent protein kinase II (CaMKII) is an oligomeric kinase that is involved in this remarkable process. However, the molecular details of its specific roles in these processes remains elusive. CaMKII activation-triggered subunit exchange presents a novel possible mechanism involved in long-term memory and learning by exchanging active subunits with other CaMKIIs. CaMKII subunit exchange also shows that exchanged CaMKIIs spread their phosphorylation state to newly synthesized CaMKIIs. This provides a long-lasting signal that might possibly be involved in long-term memory by escaping a cell’s …
Modulation Of Protein Dynamics By Ligand Binding And Solvent Composition, Richard J. Lindsay
Modulation Of Protein Dynamics By Ligand Binding And Solvent Composition, Richard J. Lindsay
Doctoral Dissertations
Many proteins undergo conformational switching in order to perform their cellular functions. A multitude of factors may shift the energy landscape and alter protein dynamics with varying effects on the conformations they explore. We apply atomistic molecular dynamics simulations to a variety of biomolecular systems in order to investigate how factors such as pressure, the chemical environment, and ligand binding at distant binding pockets affect the structure and dynamics of these protein systems. Further, we examine how such changes should be characterized. We first investigate how pressure and solvent modulate ligand access to the active site of a bacterial lipase …
Novel Approaches Towards Improved Purity In High Yield Transcription Reactions, Elvan Cavac
Novel Approaches Towards Improved Purity In High Yield Transcription Reactions, Elvan Cavac
Doctoral Dissertations
High yields of RNA (e.g., mRNA, gRNA, lncRNA) are routinely prepared following a two-step approach: high yield in vitro transcription using T7 RNA polymerase, followed by extensive purification using gel or chromatic methods. In high yield transcription reactions, as RNA accumulates in solution, T7 RNA polymerase rebinds and extends the encoded RNA (using the RNA as a template), resulting in a product pool contaminated with longer than desired, (partially) double stranded impurities. Current purification methods often fail to fully eliminate these impurities which, if present in therapeutics, can stimulate the innate immune response with potentially fatal consequences. This study establishes …
Synthetic Heterosynaptic Plasticity Enhances The Versatility Of Memristive Systems Emulating Bio-Synapse Structure And Function, William T. Mcclintic
Synthetic Heterosynaptic Plasticity Enhances The Versatility Of Memristive Systems Emulating Bio-Synapse Structure And Function, William T. Mcclintic
Doctoral Dissertations
Memristive systems occur in nature and are hallmarked via pinched hysteresis, the difference in the forward and reverse pathways for a given phenomenon. For example, neurons of the human brain are composed of synapses which apply the properties of memristance for neuronal communication, learning, and memory consolidation. Modern technology has much to gain from the characteristics of memristive systems, including lower power operation, on-chip memory, and bio-inspired computing. What is more, a relationship between memristive systems and synaptic plasticity exists and can be investigated focusing on homosynaptic and heterosynaptic plasticity. Where homosynaptic plasticity applies to interactions between neurons at a …
Critical Behavior In Evolutionary And Population Dynamics, Stephen Walter Ordway
Critical Behavior In Evolutionary And Population Dynamics, Stephen Walter Ordway
Doctoral Dissertations
“This study is an exploration of phase transition behavior in evolutionary and population dynamics, and techniques for predicting population changes, across the disciplines of physics, biology, and computer science. Under the looming threat of climate change, it is imperative to understand the dynamics of populations under environmental stress and to identify early warning signals of population decline. These issues are explored here in (1) a computational model of evolutionary dynamics, (2) an experimental system of decaying populations under environmental stress, and (3) a machine learning approach to predict population changes based on environmental factors. Through the lens of critical phase …