Accuracy of Patient-Specific Organ Dose Estimates Obtained Using an Automated Image Segmentation Algorithm

The overall goal of this work is to develop a rapid, accurate, and automated software tool to estimate patient-specific organ doses from computed tomography (CT) scans using simulations to generate dose maps combined with automated segmentation algorithms. This work quantified the accuracy of organ dose estimates obtained by an automated segmentation algorithm. We hypothesized that the autosegmentation algorithm is sufficiently accurate to provide organ dose estimates, since small errors delineating organ boundaries will have minimal effect when computing mean organ dose. A leave-one-out validation study of the automated algorithm was performed with 20 head-neck CT scans expertly segmented into nine regions. Mean organ doses of the automatically and expertly segmented regions were computed from Monte Carlo-generated dose maps and compared. The automated segmentation algorithm estimated the mean organ dose to be within 10% of the expert segmentation for regions other than the spinal canal, with the median error for each organ region below 2%. In the spinal canal region, the median error was -7%, with a maximum absolute error of 28% for the single-atlas approach and 11% for the multiatlas approach. The results demonstrate that the automated segmentation algorithm can provide accurate organ dose estimates despite some segmentation errors

Dangerous dietary supplements: Garcinia cambogia-associated hepatic failure requiring transplantation.

Commercial dietary supplements are marketed as a panacea for the morbidly obese seeking sustainable weight-loss. Unfortunately, many claims cited by supplements are unsupported and inadequately regulated. Most concerning, however, are the associated harmful side effects, often unrecognized by consumers. Garcinia cambogia extract and Garcinia cambogia containing products are some of the most popular dietary supplements currently marketed for weight loss. Here, we report the first known case of fulminant hepatic failure associated with this dietary supplement. One active ingredient in this supplement is hydroxycitric acid, an active ingredient also found in weight-loss supplements banned by the Food and Drug Administration in 2009 for hepatotoxicity. Heightened awareness of the dangers of dietary supplements such as Garcinia cambogia is imperative to prevent hepatoxicity and potential fulminant hepatic failure in additional patients

Eliashberg theory of excitonic insulating transition in graphene

A sufficiently strong Coulomb interaction may open an excitonic fermion gap and thus drive a semimetal-insulator transition in graphene. In this paper, we study the Eliashberg theory of excitonic transition by coupling the fermion gap equation self-consistently to the equation of vacuum polarization function. Including the fermion gap into polarization function increases the effective strength of Coulomb interaction because it reduces the screening effects due to the collective particle-hole excitations. Although this procedure does not change the critical point, it leads to a significant enhancement of the dynamical fermion gap in the excitonic insulating phase. The validity of the Eliashberg theory is justified by showing that the vertex corrections are suppressed at large $N$ limit.Comment: 8 pages, 6 figure

Towards practical classical processing for the surface code

The surface code is unarguably the leading quantum error correction code for 2-D nearest neighbor architectures, featuring a high threshold error rate of approximately 1%, low overhead implementations of the entire Clifford group, and flexible, arbitrarily long-range logical gates. These highly desirable features come at the cost of significant classical processing complexity. We show how to perform the processing associated with an nxn lattice of qubits, each being manipulated in a realistic, fault-tolerant manner, in O(n^2) average time per round of error correction. We also describe how to parallelize the algorithm to achieve O(1) average processing per round, using only constant computing resources per unit area and local communication. Both of these complexities are optimal.Comment: 5 pages, 6 figures, published version with some additional tex

Three-dimensional topological lattice models with surface anyons

We study a class of three dimensional exactly solvable models of topological matter first put forward by Walker and Wang [arXiv:1104.2632v2]. While these are not models of interacting fermions, they may well capture the topological behavior of some strongly correlated systems. In this work we give a full pedagogical treatment of a special simple case of these models, which we call the 3D semion model: We calculate its ground state degeneracies for a variety of boundary conditions, and classify its low-lying excitations. While point defects in the bulk are confined in pairs connected by energetic strings, the surface excitations are more interesting: the model has deconfined point defects pinned to the boundary of the lattice, and these exhibit semionic braiding statistics. The surface physics is reminiscent of a $\nu=1/2$ bosonic fractional quantum Hall effect in its topological limit, and these considerations help motivate an effective field theoretic description for the lattice models as variants of $bF$ theories. Our special example of the 3D semion model captures much of the behavior of more general `confined Walker-Wang models'. We contrast the 3D semion model with the closely related 3D version of the toric code (a lattice gauge theory) which has deconfined point excitations in the bulk and we discuss how more general models may have some confined and some deconfined excitations. Having seen that there exist lattice models whose surfaces have the same topological order as a bosonic fractional quantum Hall effect on a confining bulk, we construct a lattice model whose surface has similar topological order to a fermionic quantum hall effect. We find that in these models a fermion is always deconfined in the three dimensional bulk

Inference of gene regulatory networks from genome-wide knockout fitness data

Motivation: Genome-wide fitness is an emerging type of high-throughput biological data generated for individual organisms by creating libraries of knockouts, subjecting them to broad ranges of environmental conditions, and measuring the resulting clone-specific fitnesses. Since fitness is an organism-scale measure of gene regulatory network behaviour, it may offer certain advantages when insights into such phenotypical and functional features are of primary interest over individual gene expression. Previous works have shown that genome-wide fitness data can be used to uncover novel gene regulatory interactions, when compared with results of more conventional gene expression analysis. Yet, to date, few algorithms have been proposed for systematically using genome-wide mutant fitness data for gene regulatory network inference. Results: In this article, we describe a model and propose an inference algorithm for using fitness data from knockout libraries to identify underlying gene regulatory networks. Unlike most prior methods, the presented approach captures not only structural, but also dynamical and non-linear nature of biomolecular systems involved. A state–space model with non-linear basis is used for dynamically describing gene regulatory networks. Network structure is then elucidated by estimating unknown model parameters. Unscented Kalman filter is used to cope with the non-linearities introduced in the model, which also enables the algorithm to run in on-line mode for practical use. Here, we demonstrate that the algorithm provides satisfying results for both synthetic data as well as empirical measurements of GAL network in yeast Saccharomyces cerevisiae and TyrR–LiuR network in bacteria Shewanella oneidensis

Perspective-Taking and Self-Other Overlap: Fostering Social Bonds and Facilitating Social Coordination

The present article offers a conceptual model for how the cognitive processes associated with perspective-taking facilitate social coordination and foster social bonds. We suggest that the benefits of perspective-taking accrue through an increased self-other overlap in cognitive representations and discuss the implications of this perspective-taking induced self-other overlap for stereotyping and prejudice. Whereas perspective-taking decreases stereotyping of others (through application of the self to the other), it increases stereotypicality of one’s own behavior (through inclusion of the other in the self). To promote social bonds, perspective-takers utilize information, including stereotypes, to coordinate their behavior with others. The discussion focuses on the implications, both positive and negative, of this self-other overlap for social relationships and discusses how conceptualizing perspective-taking, as geared toward supporting specific social bonds, provides a framework for understanding why the effects of perspective-taking are typically target-specific and do not activate a general helping mind-set. Through its attempts to secure social bonds, perspective-taking can be an engine of social harmony, but can also reveal a dark side, one full of ironic consequences