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From Q-Bio Seminar Series
- 11:25, 12 April 2011 Feedback and Control in Biological Circuit Design (hist) [989 bytes] Brian.munsky (Talk | contribs) (New page: Biological systems make use of feedback in an extraordinary number of ways, on scales ranging from molecules to cells to organisms to ecosystems. In this talk I will discuss the use of co...)
- 10:29, 2 March 2011 Acoustic and Inertial Flow Cytometry: Pathways to point-of-care and high-speed parallel cellular diagnostics (hist) [2,223 bytes] Brian.munsky (Talk | contribs) (New page: Flow cytometry is widely used to detect the levels of specific blood cell types to diagnose and monitor many critical diseases ranging from leukemia to AIDS. Furthermore, there is a growin...)
- 11:27, 20 January 2011 Dynamical Networks in Translation: From Molecules to Cells (hist) [2,017 bytes] Brian.munsky (Talk | contribs) (New page: Signaling pathways in RNA:protein complexes involved in translation are identified by community network analysis derived from molecular dynamics simulations. These complexes include the am...)
- 17:18, 19 January 2011 Cooperation and cheating in microbes (hist) [1,016 bytes] Brian.munsky (Talk | contribs) (New page: Understanding the cooperative and competitive dynamics within and between species is a central challenge in evolutionary biology. Microbial model systems represent a unique opportunity to...)
- 12:05, 3 January 2011 Robustness in Nature: Challenges and Opportunities for the Systems Biology Community (hist) [1,285 bytes] Brian.munsky (Talk | contribs) (New page: Robustness, the ability to maintain performance in the face of perturbations and uncertainty, is a key property of living systems. While ‘homeostasis’ has long been recognized as an im...)
- 13:16, 20 December 2010 The Martini force field: Different flavors for molecular simulations (hist) [920 bytes] Gnana (Talk | contribs) (New page: The MARTINI forcefield is a coarse grained forcefield suited for molecular dynamics simulations of biomolecular proceses beyond the microsecond time scale. The forcefield has been parametr...)
- 16:50, 10 November 2010 Protein tagging and labeling systems for protein chemistry and cellular biology. (hist) [636 bytes] Brian.munsky (Talk | contribs) (New page: We have developed a number of small peptide tools for tagging and detecting proteins that (1) work without perturbing native protein folding (2) label and detect proteins in living cells o...)
- 16:09, 25 October 2010 Study of protein-RNA interactions by using fluorescence resonance energy transfer (FRET) and single-molecule FRET (smFRET) (hist) [1,544 bytes] Brian.munsky (Talk | contribs) (New page: In the cell, two classes of macromolecules, RNA and protein, interact to form ribonucleoprotein complexes (RNPs) that have vital structural, catalytic and regulatory roles. Despite their f...)
- 10:53, 25 October 2010 Nanomedicine and chemical imaging approaches for traumatic spinal cord injury (hist) [1,684 bytes] Brian.munsky (Talk | contribs) (New page: Traumatic spinal cord injury (SCI) results in immediate disruption of cell membranes in affected neural and endothelial tissues, followed by extensive secondary neurodegenerative processes...)
- 14:55, 21 October 2010 Variability in HIV Vaccine Design (hist) [1,888 bytes] Gnana (Talk | contribs) (New page: Considering HIV diversity from the perspective of designing vaccines. HIV is an incredibly diverse virus, and for a vaccine to be effective it must elicit immune responses that can re...)
- 14:04, 12 October 2010 Computer-Aided Drug Repurposing (hist) [1,362 bytes] Brian.munsky (Talk | contribs) (New page: The emergent sector of academic drug discovery encompasses basic sciences, translational medicine and drug repurposing (or repositioning). Finding new uses for old drugs is a viable strate...)
- 15:42, 26 July 2010 A single molecule view of cell fate: FISHing for worm guts (hist) [1,084 bytes] Brian.munsky (Talk | contribs) (New page: Development, the process by which a single cell multiplies and differentiates into a multicellular organism, can be thought of as an intricate program encoded within our DNA that is execut...)
- 06:44, 12 July 2010 Robust multicellular computing using genetically-encoded NOR gates and chemical “wires” (hist) [1,162 bytes] Brian.munsky (Talk | contribs) (New page: Computation underlies the organization of cells into higher-order structures; for example, during development or the spatial association of bacteria in a biofilm. Often, each cell performs...)
- 11:43, 26 May 2010 Diffusion in living cells: simple or anomalous? (hist) [1,004 bytes] Zilmana (Talk | contribs) (New page: '''Diffusion in living cells: simple or anomalous?''' ''Cecile Fradin'', McMaster University The live cell is by definition a dynamic environment, with different types of motions happeni...)
- 09:44, 20 May 2010 Dynamic disorder in single enzyme kinetics: effects of conformational fluctuations (hist) [1,907 bytes] Wish (Talk | contribs) (New page: Enzymes are dynamic entities: their conformations as well as catalytic activity fluctuate over time. A number of recent single-molecule experiments have shown that the catalytic activity ...)
- 11:41, 15 May 2010 Noisy out of necessity: the relationship among gene circuit architecture, dynamics and biological function (hist) [639 bytes] Wish (Talk | contribs) (New page: Cellular processes are typically controlled by gene regulatory circuits that are comprised of interactions among genes and proteins. However, the functional importance of a particular pat...)
- 16:14, 10 May 2010 From Robots to Molecules: Intelligent Motion Planning and Analysis with Probabilistic Roadmaps (hist) [2,864 bytes] Wish (Talk | contribs) (New page: From Robots to Molecules: Intelligent Motion Planning and Analysis with Probabilistic Roadmaps Abstract: At first glance, robots and proteins have little in common. Robots are commonly ...)
- 21:10, 6 May 2010 Multiparameter Computational Modeling of Tumor Invasion (hist) [1,005 bytes] Wish (Talk | contribs) (New page: Multiparameter Computational Modeling of Tumor Invasion Abstract: Clinical outcome prognostication in oncology is a guiding principle in therapeutic choice. A wealth of qualitative emp...)
- 11:09, 26 April 2010 Characterization of the Complexity of Signaling Complexes in Human T Cells (hist) [992 bytes] Gnana (Talk | contribs) (New page: Characterization of the Complexity of Signaling Complexes in Human T Cells The activation of the T cells via the T cell antigen receptor (TCR) is required for the adaptive immune respo...)
- 10:49, 16 March 2010 Cooperation and reversibility in microbial evolution (hist) [1,684 bytes] Brian.munsky (Talk | contribs) (New page: Quantitative experiments with microbes are providing new opportunities to test classic theories in evolutionary dynamics. In this talk I will present projects which probe two such theorie...)
- 17:42, 15 March 2010 Discrete Stochastic Simulation of Spatially Inhomogeneous Biochemical Systems (hist) [1,332 bytes] Brian.munsky (Talk | contribs) (New page: In microscopic systems formed by living cells, the small numbers of some reactant molecules can result in dynamical behavior that is discrete and stochastic rather than continuous and dete...)
- 13:43, 3 March 2010 Sensory estimation of ligand concentrations by a single receptor and a receptor array (hist) [953 bytes] Wish (Talk | contribs) (New page: In many circumstances, cells monitor small temporal or spatial changes in environmental signals that trigger specific cell responses. Such sensory behavior is commonly found, for examples,...)
- 14:14, 2 March 2010 Feedback Control with Bio-molecular Circuits (hist) [1,721 bytes] Wish (Talk | contribs) (New page: Date: 03/02/2010 2:15 pm - 3:15 pm CNLS Conference Room (TA-3, Bldg 1690) Feedback Control with Biomoleular Circuits Eric Klavins University of Washington Biomolecular computing device...)
- 17:16, 26 February 2010 Nanoscience workshop (hist) [202 bytes] Wish (Talk | contribs) (New page: The University of New Mexico Nanoscience and Microsystems program will present simple hands on activities illustrating nanoscale science and its potential impact on the future.)
- 16:09, 26 February 2010 Agent-based modeling workshop (hist) [812 bytes] Wish (Talk | contribs) (New page: Rule-based Modeling with BioNetGen Rule-based modeling involves the representation of molecules as structured objects and molecular interactions as rules for transforming the attributes o...)
- 13:57, 24 February 2010 The Art and Science of Systems Biology (hist) [10,256 bytes] Wish (Talk | contribs) (New page: The Art and Science of Systems Biology ==Schedule==)
- 13:14, 23 February 2010 How the sea urchin embryo gets its cleavage furrows (in the right place) (hist) [3,095 bytes] Wish (Talk | contribs) (New page: When animal cells divide, they assemble a transient, single-use, ring-shaped muscle called the 'contractile ring' so that, when it contracts, it cleaves the parent cell into two daughter c...)
- 13:12, 23 February 2010 Neuronal couplings between retinal ganglion cells inferred by efficient inverse statistical physics methods (hist) [955 bytes] Wish (Talk | contribs) (New page: Complexity of neural systems often makes impracticable explicit measurements of all interactions between their constituents. Inverse statistical physics approaches, which infer effective c...)
