Noise in gene expression as the source of non-genetic individuality in the chemotactic response of Escherichia coli

AbstractA deterministic computer model of the signal transduction pathway mediating bacterial chemotaxis was used to examine the variation in both unstimulated swimming behaviour and adaptation time to stimuli in clonal populations of cells. Copy numbers of proteins in the pathway were computed from a simplified model of transcription and translation that predicts greater-than-Poissonian statistics. Simulated and experimental individuality data could be brought into good agreement on varying the noise strength of the protein copy number distributions. In the simulations, all the proteins in the pathway are involved to a significant degree in the appearance of phenotypic diversity, although there is a modest decrease in influence with increasing copy number

Department of Radiology-Annual Executive Summary Report-July 1, 1999 to June 30, 2000

90 page Department of Radiology Annual Executive Summary Report, July 1, 1999 to June 30, 2000, Thomas Jefferson University Hospital, Philadelphia, Pennsylvania, United States

Department of Radiology-Annual Executive Summary Report-July 1, 1989 to June 30, 1990

Department of Radiology Chairman, Vice Chairman 1 Divisions and Directors 1 Committees and Chairmen 1 Department Full Time Faculty 2 Faculty with Secondary Appointments 3 Adjunct Faculty 3 Radiology Residents and Fellows 4 Department Organization Charts 5 State of the Department 7 Teaching Programs Introduction 17 A. Teaching Programs for Medical Students 17 B. Residency Program 18 C. Training Programs for Fellows 19 D. Continuing Medical Education (CME) Programs . 20 Radiology Grand Rounds 21 Radiology Research Conferences 23 Publications Publications 25 Abstracts 34 Presentations Scientific Presentations 43 Exhibits and Poster Presentations 66 Honors, Editorial Activities, Service for National or Regional Radiology Organizations 69 Appendix A: Funded Researc

Department of Radiology-Annual Executive Summary Report-July 1, 1998 to June 30, 1999

102 page Department of Radiology Annual Executive Summary Report, July 1, 1998 to June 30, 1999, Thomas Jefferson University Hospital, Philadelphia, Pennsylvania, United States

A survey of spinning test particle orbits in Kerr spacetime

We investigate the dynamics of the Papapetrou equations in Kerr spacetime. These equations provide a model for the motion of a relativistic spinning test particle orbiting a rotating (Kerr) black hole. We perform a thorough parameter space search for signs of chaotic dynamics by calculating the Lyapunov exponents for a large variety of initial conditions. We find that the Papapetrou equations admit many chaotic solutions, with the strongest chaos occurring in the case of eccentric orbits with pericenters close to the limit of stability against plunge into a maximally spinning Kerr black hole. Despite the presence of these chaotic solutions, we show that physically realistic solutions to the Papapetrou equations are not chaotic; in all cases, the chaotic solutions either do not correspond to realistic astrophysical systems, or involve a breakdown of the test-particle approximation leading to the Papapetrou equations (or both). As a result, the gravitational radiation from bodies spiraling into much more massive black holes (as detectable, for example, by LISA, the Laser Interferometer Space Antenna) should not exhibit any signs of chaos.Comment: Submitted to Phys. Rev. D. Follow-up to gr-qc/0210042. Figures are low-resolution in order to satisfy archive size constraints; a high-resolution version is available at http://www.michaelhartl.com/papers

Assessment of pollen rewards by foraging bees

This is the author accepted manuscript. The final version is available from Wiley via the DOI in this record.The removal of pollen by flower-visiting insects is costly to plants, not only in terms of production, but also via lost reproductive potential. Modern angiosperms have evolved various reward strategies to limit these costs, yet many plant species still offer pollen as a sole or major reward for pollinating insects. 2. The benefits plants gain by offering pollen as a reward for pollinating are defined by the behaviour of their pollinators, some of which feed on the pollen at the flower, while others collect pollen to provision offspring. 3. We explore how pollen impacts on the behaviour and foraging decisions of pollen-collecting bees, drawing comparisons with what is known for nectar rewards. This question is of particular interest since foraging bees typically do not ingest pollen during collection, meaning the sensory pathways involved in evaluating this resource are not immediately obvious. 4. Previous research focussed on whether foraging bees can determine the quality of pollen sources offered by different plant species, and attempted to infer the mechanisms underpinning such evaluations, mainly through observations of collection preferences in the field 5. More recent experimental research has started to focus on if pollen itself can mediate the detection of, and learning about, pollen sources and associated floral cues. 6. We review advancements in the understanding of how bees forage for pollen and respond to variation in pollen quality, and discuss future directions for studying how this ancestral floral food reward shapes the behaviour of pollinating insects

Combinatorial Markov chains on linear extensions

We consider generalizations of Schuetzenberger's promotion operator on the set L of linear extensions of a finite poset of size n. This gives rise to a strongly connected graph on L. By assigning weights to the edges of the graph in two different ways, we study two Markov chains, both of which are irreducible. The stationary state of one gives rise to the uniform distribution, whereas the weights of the stationary state of the other has a nice product formula. This generalizes results by Hendricks on the Tsetlin library, which corresponds to the case when the poset is the anti-chain and hence L=S_n is the full symmetric group. We also provide explicit eigenvalues of the transition matrix in general when the poset is a rooted forest. This is shown by proving that the associated monoid is R-trivial and then using Steinberg's extension of Brown's theory for Markov chains on left regular bands to R-trivial monoids.Comment: 35 pages, more examples of promotion, rephrased the main theorems in terms of discrete time Markov chain

Digital Quantum Simulation with Rydberg Atoms

We discuss in detail the implementation of an open-system quantum simulator with Rydberg states of neutral atoms held in an optical lattice. Our scheme allows one to realize both coherent as well as dissipative dynamics of complex spin models involving many-body interactions and constraints. The central building block of the simulation scheme is constituted by a mesoscopic Rydberg gate that permits the entanglement of several atoms in an efficient, robust and quick protocol. In addition, optical pumping on ancillary atoms provides the dissipative ingredient for engineering the coupling between the system and a tailored environment. As an illustration, we discuss how the simulator enables the simulation of coherent evolution of quantum spin models such as the two-dimensional Heisenberg model and Kitaev's toric code, which involves four-body spin interactions. We moreover show that in principle also the simulation of lattice fermions can be achieved. As an example for controlled dissipative dynamics, we discuss ground state cooling of frustration-free spin Hamiltonians.Comment: submitted to special issue "Quantum Information with Neutral Particles" of "Quantum Information Processing

Effective interaction between helical bio-molecules

The effective interaction between two parallel strands of helical bio-molecules, such as deoxyribose nucleic acids (DNA), is calculated using computer simulations of the "primitive" model of electrolytes. In particular we study a simple model for B-DNA incorporating explicitly its charge pattern as a double-helix structure. The effective force and the effective torque exerted onto the molecules depend on the central distance and on the relative orientation. The contributions of nonlinear screening by monovalent counterions to these forces and torques are analyzed and calculated for different salt concentrations. As a result, we find that the sign of the force depends sensitively on the relative orientation. For intermolecular distances smaller than $6\AA$ it can be both attractive and repulsive. Furthermore we report a nonmonotonic behaviour of the effective force for increasing salt concentration. Both features cannot be described within linear screening theories. For large distances, on the other hand, the results agree with linear screening theories provided the charge of the bio-molecules is suitably renormalized.Comment: 18 pages, 18 figures included in text, 100 bibliog