TandemNet: Distilling Knowledge from Medical Images Using Diagnostic Reports as Optional Semantic References

In this paper, we introduce the semantic knowledge of medical images from their diagnostic reports to provide an inspirational network training and an interpretable prediction mechanism with our proposed novel multimodal neural network, namely TandemNet. Inside TandemNet, a language model is used to represent report text, which cooperates with the image model in a tandem scheme. We propose a novel dual-attention model that facilitates high-level interactions between visual and semantic information and effectively distills useful features for prediction. In the testing stage, TandemNet can make accurate image prediction with an optional report text input. It also interprets its prediction by producing attention on the image and text informative feature pieces, and further generating diagnostic report paragraphs. Based on a pathological bladder cancer images and their diagnostic reports (BCIDR) dataset, sufficient experiments demonstrate that our method effectively learns and integrates knowledge from multimodalities and obtains significantly improved performance than comparing baselines.Comment: MICCAI2017 Ora

Self-consistent simulations of a von K\'arm\'an type dynamo in a spherical domain with metallic walls

We have performed numerical simulations of boundary-driven dynamos using a three-dimensional non-linear magnetohydrodynamical model in a spherical shell geometry. A conducting fluid of magnetic Prandtl number Pm=0.01 is driven into motion by the counter-rotation of the two hemispheric walls. The resulting flow is of von K\'arm\'an type, consisting of a layer of zonal velocity close to the outer wall and a secondary meridional circulation. Above a certain forcing threshold, the mean flow is unstable to non-axisymmetric motions within an equatorial belt. For fixed forcing above this threshold, we have studied the dynamo properties of this flow. The presence of a conducting outer wall is essential to the existence of a dynamo at these parameters. We have therefore studied the effect of changing the material parameters of the wall (magnetic permeability, electrical conductivity, and thickness) on the dynamo. In common with previous studies, we find that dynamos are obtained only when either the conductivity or the permeability is sufficiently large. However, we find that the effect of these two parameters on the dynamo process are different and can even compete to the detriment of the dynamo. Our self-consistent approach allow us to analyze in detail the dynamo feedback loop. The dynamos we obtain are typically dominated by an axisymmetric toroidal magnetic field and an axial dipole component. We show that the ability of the outer shear layer to produce a strong toroidal field depends critically on the presence of a conducting outer wall, which shields the fluid from the vacuum outside. The generation of the axisymmetric poloidal field, on the other hand, occurs in the equatorial belt and does not depend on the wall properties.Comment: accepted for publication in Physical Review

Deep Multi-instance Networks with Sparse Label Assignment for Whole Mammogram Classification

Mammogram classification is directly related to computer-aided diagnosis of breast cancer. Traditional methods rely on regions of interest (ROIs) which require great efforts to annotate. Inspired by the success of using deep convolutional features for natural image analysis and multi-instance learning (MIL) for labeling a set of instances/patches, we propose end-to-end trained deep multi-instance networks for mass classification based on whole mammogram without the aforementioned ROIs. We explore three different schemes to construct deep multi-instance networks for whole mammogram classification. Experimental results on the INbreast dataset demonstrate the robustness of proposed networks compared to previous work using segmentation and detection annotations.Comment: MICCAI 2017 Camera Read

Excitation of inertial modes in a closed grid turbulence experiment under rotation

We report an experimental study of the decay of grid-generated turbulence in a confined geometry submitted to a global rotation. Turbulence is generated by rapidly towing a grid in a parallelepipedic water tank. The velocity fields of a large number of independent decays are measured in a vertical plane parallel to the rotation axis using a corotating Particle Image Velocimetry system. We first show that, when a "simple" grid is used, a significant amount of the kinetic energy (typically 50%) is stored in a reproducible flow composed of resonant inertial modes. The spatial structure of those inertial modes, extracted by band-pass filtering, is found compatible with the numerical results of Maas [Fluid Dyn. Res. 33, 373 (2003)]. The possible coupling between these modes and turbulence suggests that turbulence cannot be considered as freely decaying in this configuration. Finally, we demonstrate that these inertial modes may be significantly reduced (down to 15% of the total energy) by adding a set of inner tanks attached to the grid. This suggests that it is possible to produce an effectively freely decaying rotating turbulence in a confined geometry

Coriolis force in Geophysics: an elementary introduction and examples

We show how Geophysics may illustrate and thus improve classical Mechanics lectures concerning the study of Coriolis force effects. We are then interested in atmospheric as well as oceanic phenomena we are familiar with, and are for that reason of pedagogical and practical interest. Our aim is to model them in a very simple way to bring out the physical phenomena that are involved.Comment: Accepted for publication in European Journal of Physic

Association of Prenatal Urinary Concentrations of Phthalates and Bisphenol A and Pubertal Timing in Boys and Girls.

BackgroundAnimal studies suggest that phthalates and bisphenol A (BPA), endocrine-disrupting chemicals found in many consumer products, may impact the timing of puberty.ObjectivesWe aimed to determine the association of prenatal exposure to high-molecular-weight phthalates and BPA with pubertal timing in boys and girls participating in the Center for the Health Assessment of Mothers and Children of Salinas (CHAMACOS) longitudinal cohort study.MethodsWe quantified urinary concentrations of eight phthalate metabolites and BPA at two time points during pregnancy among participating mothers ([Formula: see text]) and conducted clinical Tanner staging of puberty on their children every 9 months between 9 and 13 y of age. We conducted accelerated failure time models and examined the role of child overweight/obese status in this association.ResultsThe sum of urinary metabolites of di(2-ethylhexyl) phthalate [Formula: see text], monobenzyl phthalate (MBzP), and BPA were associated with later onset of at least one of the three outcomes assessed in girls (thelarche, pubarche, or menarche) and with earlier onset of at least one of the two outcomes assessed in boys (gondarche and pubarche). We found that monocarboxynonyl phthalate, monocarboxyoctyl phthalate, mono(3-carboxypropyl) phthalate, and BPA were associated with later pubarche and menarche mostly among normal-weight girls but not overweight/obese girls. MBzP was associated with later thelarche in all girls, and [Formula: see text] was associated with later thelarche and menarche in all girls. BPA and all phthalate biomarkers were associated with earlier gonadarche and pubarche in all boys as well as in overweight/obese boys when stratified by weight. Among normal-weight boys, associations with BPA were also inverse, whereas associations with phthalate metabolites were close to the null or positive.ConclusionsSeveral high-molecular-weight phthalates and BPA were associated with later puberty in girls and earlier puberty in boys included in the CHAMACOS cohort study. Childhood overweight/obesity may modify these associations. https://doi.org/10.1289/EHP3424

Super Stability of Laminar Vortex Flow in Superfluid 3He-B

Vortex flow remains laminar up to large Reynolds numbers (Re~1000) in a cylinder filled with 3He-B. This is inferred from NMR measurements and numerical vortex filament calculations where we study the spin up and spin down responses of the superfluid component, after a sudden change in rotation velocity. In normal fluids and in superfluid 4He these responses are turbulent. In 3He-B the vortex core radius is much larger which reduces both surface pinning and vortex reconnections, the phenomena, which enhance vortex bending and the creation of turbulent tangles. Thus the origin for the greater stability of vortex flow in 3He-B is a quantum phenomenon. Only large flow perturbations are found to make the responses turbulent, such as the walls of a cubic container or the presence of invasive measuring probes inside the container.Comment: 4 pages, 6 figure

Self Running Droplet: Emergence of Regular Motion from Nonequilibrium Noise

Spontaneous motion of an oil droplet driven by chemical nonequilibricity is reported. It is shown that the droplet undergoes regular rhythmic motion under appropriately designed boundary conditions, whereas it exhibits random motion in an isotropic environment. This study is a novel manifestation on the direct energy transformation of chemical energy into regular spatial-motion under isothermal conditions. A simple mathematical equation including noise reproduces the essential feature of the transition from irregularity into periodic regular motion. Our results will inspire the theoretical study on the mechanism of molecular motors in living matter, working under significant influence of thermal fluctuation.Comment: 4 pages, 4 figure

The decay of turbulence in rotating flows

We present a parametric space study of the decay of turbulence in rotating flows combining direct numerical simulations, large eddy simulations, and phenomenological theory. Several cases are considered: (1) the effect of varying the characteristic scale of the initial conditions when compared with the size of the box, to mimic "bounded" and "unbounded" flows; (2) the effect of helicity (correlation between the velocity and vorticity); (3) the effect of Rossby and Reynolds numbers; and (4) the effect of anisotropy in the initial conditions. Initial conditions include the Taylor-Green vortex, the Arn'old-Beltrami-Childress flow, and random flows with large-scale energy spectrum proportional to $k^4$. The decay laws obtained in the simulations for the energy, helicity, and enstrophy in each case can be explained with phenomenological arguments that separate the decay of two-dimensional from three-dimensional modes, and that take into account the role of helicity and rotation in slowing down the energy decay. The time evolution of the energy spectrum and development of anisotropies in the simulations are also discussed. Finally, the effect of rotation and helicity in the skewness and kurtosis of the flow is considered.Comment: Sections reordered to address comments by referee