Stratified decision forests for accurate anatomical landmark localization in cardiac images

Accurate localization of anatomical landmarks is an important step in medical imaging, as it provides useful prior information for subsequent image analysis and acquisition methods. It is particularly useful for initialization of automatic image analysis tools (e.g. segmentation and registration) and detection of scan planes for automated image acquisition. Landmark localization has been commonly performed using learning based approaches, such as classifier and/or regressor models. However, trained models may not generalize well in heterogeneous datasets when the images contain large differences due to size, pose and shape variations of organs. To learn more data-adaptive and patient specific models, we propose a novel stratification based training model, and demonstrate its use in a decision forest. The proposed approach does not require any additional training information compared to the standard model training procedure and can be easily integrated into any decision tree framework. The proposed method is evaluated on 1080 3D highresolution and 90 multi-stack 2D cardiac cine MR images. The experiments show that the proposed method achieves state-of-theart landmark localization accuracy and outperforms standard regression and classification based approaches. Additionally, the proposed method is used in a multi-atlas segmentation to create a fully automatic segmentation pipeline, and the results show that it achieves state-of-the-art segmentation accuracy

Large-scale Quality Control of Cardiac Imaging in Population Studies: Application to UK Biobank

In large population studies such as the UK Biobank (UKBB), quality control of the acquired images by visual assessment is unfeasible. In this paper, we apply a recently developed fully-automated quality control pipeline for cardiac MR (CMR) images to the first 19,265 short-axis (SA) cine stacks from the UKBB. We present the results for the three estimated quality metrics (heart coverage, inter-slice motion and image contrast in the cardiac region) as well as their potential associations with factors including acquisition details and subject-related phenotypes. Up to 14.2% of the analysed SA stacks had sub-optimal coverage (i.e. missing basal and/or apical slices), however most of them were limited to the first year of acquisition. Up to 16% of the stacks were affected by noticeable inter-slice motion (i.e. average inter-slice misalignment greater than 3.4 mm). Inter-slice motion was positively correlated with weight and body surface area. Only 2.1% of the stacks had an average end-diastolic cardiac image contrast below 30% of the dynamic range. These findings will be highly valuable for both the scientists involved in UKBB CMR acquisition and for the ones who use the dataset for research purposes

Scattering of Woods-Saxon Potential in Schrodinger Equation

The scattering solutions of the one-dimensional Schrodinger equation for the Woods-Saxon potential are obtained within the position-dependent mass formalism. The wave functions, transmission and reflection coefficients are calculated in terms of Heun's function. These results are also studied for the constant mass case in detail.Comment: 14 page

Effective-Mass Dirac Equation for Woods-Saxon Potential: Scattering, Bound States and Resonances

Approximate scattering and bound state solutions of the one-dimensional effective-mass Dirac equation with the Woods-Saxon potential are obtained in terms of the hypergeometric-type functions. Transmission and reflection coefficients are calculated by using behavior of the wave functions at infinity. The same analysis is done for the constant mass case. It is also pointed out that our results are in agreement with those obtained in literature. Meanwhile, an analytic expression is obtained for the transmission resonance and observed that the expressions for bound states and resonances are equal for the energy values $E=\pm m$.Comment: 20 pages, 6 figure

B Physics on the Lattice: Present and Future

Recent experimental measurements and lattice QCD calculations are now reaching the precision (and accuracy) needed to over-constrain the CKM parameters $\bar\rho$ and $\bar\eta$. In this brief review, I discuss the current status of lattice QCD calculations needed to connect the experimental measurements of $B$ meson properties to quark flavor-changing parameters. Special attention is given to $B\to\pi\ell\nu$, which is becoming a competitive way to determine $|V_{ub}|$, and to $B^0-\bar{B^0}$ mixings, which now include reliable extrapolation to the physical light quark mass. The combination of the recent measurement of the $B_s$ mass difference and current lattice calculations dramatically reduces the uncertainty in $|V_{td}|$. I present an outlook for reducing dominant lattice QCD uncertainties entering CKM fits, and I remark on lattice calculations for other decay channels.Comment: Invited brief review for Mod. Phys. Lett. A. 15 pages. v2: typos corrected, references adde

Learning under Distributed Weak Supervision

The availability of training data for supervision is a frequently encountered bottleneck of medical image analysis methods. While typically established by a clinical expert rater, the increase in acquired imaging data renders traditional pixel-wise segmentations less feasible. In this paper, we examine the use of a crowdsourcing platform for the distribution of super-pixel weak annotation tasks and collect such annotations from a crowd of non-expert raters. The crowd annotations are subsequently used for training a fully convolutional neural network to address the problem of fetal brain segmentation in T2-weighted MR images. Using this approach we report encouraging results compared to highly targeted, fully supervised methods and potentially address a frequent problem impeding image analysis research

Effects of the background radiation on radio pulsar and supernova remnant searches and the birth rates of these objects

In different directions of the Galaxy the Galactic background radio radiation and radiation of complex star formation regions which include large number of OB associations have different influences on radio pulsar (PSR) and supernova remnant (SNR) searches. In this work we analyse the effects of these background radiations on the observations of PSRs at 1400 MHz and SNRs at 1000 MHz. In the interval l=0$^o$$\pm60^o$ the PSRs with flux F$_{1400}$$>$0.2 mJy and the SNRs with surface brightness $\Sigma$$>10^{-21}$ Wm$^{-2}$Hz$^{-1}$sr$^{-1}$ are observable for all values of l and b. All the SNRs with $\Sigma$$>3\times10^{-22}$ Wm$^{-2}$Hz$^{-1}$sr$^{-1}$ can be observed in the interval 60$^o$$<$l$<300^o$. We have examined samples of PSRs and SNRs to estimate the birth rates of these objects in the region up to 3.2 kpc from the Sun and also in the Galaxy. The birth rate of PSRs is about one in 200 years and the birth rate of SNRs is about one in 65 years in our galaxy.Comment: revised versio

Topological susceptibility with the asqtad action

Chiral perturbation theory predicts that in quantum chromodynamics (QCD), light dynamical quarks suppress the gauge-field topological susceptibility of the vacuum. The degree of suppression depends on quark multiplicity and masses. It provides a strong consistency test for fermion formulations in lattice QCD. Such tests are especially important for staggered fermion formulations that lack a full chiral symmetry and use the "fourth-root" procedure to achieve the desired number of sea quarks. Over the past few years we have measured the topological susceptibility on a large database of 18 gauge field ensembles, generated in the presence of 2+1 flavors of dynamical asqtad quarks with up and down quark masses ranging from 0.05 to 1 in units of the strange quark mass and lattice spacings ranging from 0.045 fm to 0.12 fm. Our study also includes three quenched ensembles with lattice spacings ranging from 0.06 to 0.12 fm. We construct the topological susceptibility from the integrated point-to-point correlator of the discretized topological charge density F-Fdual. To reduce its variance, we model the asymptotic tail of the correlator. The continuum extrapolation of our results for the topological susceptibility agrees nicely at small quark mass with the predictions of lowest-order SU(3) chiral perturbation theory, thus lending support to the validity of the fourth-root procedure.Comment: 28 pp, 6 figs. Version 2 corrects some discussion, some numbers, and some figures and adds some reference