Possibility Study of Scale Invariant Feature Transform (SIFT) Algorithm Application to Spine Magnetic Resonance Imaging

The purpose of this study is an application of scale invariant feature transform (SIFT) algorithm to stitch the cervical-thoracic-lumbar (C-T-L) spine magnetic resonance (MR) images to provide a view of the entire spine in a single image. All MR images were acquired with fast spin echo (FSE) pulse sequence using two MR scanners (1.5 T and 3.0 T). The stitching procedures for each part of spine MR image were performed and implemented on a graphic user interface (GUI) configuration. Moreover, the stitching process is performed in two categories; manual point-to-point (mPTP) selection that performed by user specified corresponding matching points, and automated point-to-point (aPTP) selection that performed by SIFT algorithm. The stitched images using SIFT algorithm showed fine registered results and quantitatively acquired values also indicated little errors compared with commercially mounted stitching algorithm in MRI systems. Our study presented a preliminary validation of the SIFT algorithm application to MRI spine images, and the results indicated that the proposed approach can be performed well for the improvement of diagnosis. We believe that our approach can be helpful for the clinical application and extension of other medical imaging modalities for image stitching.     

Gravitation and the Hemispheric Specialization of the Brain in Bilateral Symmetry Determination

We studied the influence of weightlessness on bilateral symmetry detection during prolonged space flight. Supposing that weightlessness may affect visual information processing by the right and left hemispheres in different ways, we studied this phenomenon with regard for the part of the visual field where to a stimulus was presented (the sight fixation center or the left/right half of this field). We used two types of stimuli, i.e., closed figures (polygons) and distributed figures formed by dots. There was a distinct difference between the central and noncentral presentation of stimuli under terrestrial conditions. When a stimulus was presented noncentrally (on the left or right), a manifest dominance of the horizontal axis was observed. However, there was no substantial difference while stimulating the left and right parts of the visual field. This contradicts the hypothesis on hemispheric specialization of the brain in symmetry detection. When stimuli were presented eccentrically, weightlessness did not notably influence information processing. When they were presented centrally, the predominance of the vertical axis in closed figures tended to weaken under the impact of weightlessness. However, this predominance strengthened when multicomponent figures were presented in space. The different influences of weightlessness on perceiving symmetry of stimuli of different types shows that it may be detected at various levels with different degrees of using nonvisual sensory information.     

A Characterization of Scale Invariant Responses in Enzymatic Networks

An ubiquitous property of biological sensory systems is adaptation: a step increase in stimulus triggers an initial change in a biochemical or physiological response, followed by a more gradual relaxation toward a basal, pre-stimulus level. Adaptation helps maintain essential variables within acceptable bounds and allows organisms to readjust themselves to an optimum and non-saturating sensitivity range when faced with a prolonged change in their environment. Recently, it was shown theoretically and experimentally that many adapting systems, both at the organism and single-cell level, enjoy a remarkable additional feature: scale invariance, meaning that the initial, transient behavior remains (approximately) the same even when the background signal level is scaled. In this work, we set out to investigate under what conditions a broadly used model of biochemical enzymatic networks will exhibit scale-invariant behavior. An exhaustive computational study led us to discover a new property of surprising simplicity and generality, uniform linearizations with fast output (ULFO), whose validity we show is both necessary and sufficient for scale invariance of three-node enzymatic networks (and sufficient for any number of nodes). Based on this study, we go on to develop a mathematical explanation of how ULFO results in scale invariance. Our work provides a surprisingly consistent, simple, and general framework for understanding this phenomenon, and results in concrete experimental predictions.     

Evaluation of the Shape Symmetry of Bilateral Normal Corneas in a Chinese Population

Purpose

To investigate the bilateral symmetry of the global corneal topography in normal corneas with a wide range of curvature, astigmatism and thickness values

Design

Cross-Sectional Study

Methods

Topography images were recorded for the anterior and posterior surfaces of 342 participants using a Pentacam. Elevation data were fitted to a general quadratic model that considered both translational and rotational displacements. Comparisons between fellow corneas of estimates of corneal shape parameters (elevation, radius in two main directions, R_x and R_y, and corresponding shape factors, Q_x and Q_y) and corneal position parameters (translational displacements: x₀, y₀ and z₀, and rotational displacements: α, β and γ) were statistically analyzed.

Results

The general quadratic model provided average RMS of fit errors with the topography data of 1.7±0.6 µm and 5.7±1.3 µm in anterior and posterior corneal surfaces. The comparisons showed highly significant bilateral correlations with the differences between fellow corneas in R_x, R_y, Q_x and Q_y of anterior and posterior surfaces remaining insignificantly different from zero. Bilateral differences in elevation measurements at randomly-selected points in both corneal central and peripheral areas indicated strong mirror symmetry between fellow corneas. The mean geometric center (x₀, y₀, z₀) of both right and left corneas was located on the temporal side and inferior-temporal side of the apex in anterior and posterior topography map, respectively. Rotational displacement angle α along X axis had similar distributions in bilateral corneas, while rotation angle β along Y axis showed both eyes tilting towards the nasal side. Further, rotation angle γ along Z axis, which is related to corneal astigmatism, showed clear mirror symmetry.

Conclusions

Analysis of corneal topography demonstrated strong and statistically-significant mirror symmetry between bilateral corneas. This characteristic could help in detection of pathological abnormalities, disease diagnosis, measurement validation and surgery planning.     

脑干梗死的解剖学基础及临床特点

脑血管病严重威胁人类的健康,影响人类的生活质量,它与恶性肿瘤、心脏病是导致全球人口死亡的三大疾病.近年来随着我国经济的快速发展,人们生活方式,生活水平,饮食结构及习惯的改变,致使脑血管疾病的患病人群逐年增加.其中脑干因其特殊的解剖结构,使其成为维持生命活动和意识状态的重要枢纽,因此脑干梗死一直是临床上治疗的重点、难点,如何对脑干梗死进行简单有效的诊断、治疗,并对高危因素进行积极干预,使其发病率、死亡率、复发率、致残率降至最低,成为研究热点.近年随着影像学的进展,脑干病变的检出率逐年增高.但经典的脑干梗死症状并不多见,不典型症状的增多,导致临床误诊、漏诊增加.因此,了解脑干的解剖基础及发病机制,可以更好的为临床诊断工作提供帮助.     

Auxin Polar Transport Is Essential for the Establishment of Bilateral Symmetry during Early Plant Embryogenesis

We used an in vitro culture system to investigate the effects of three auxin polar transport inhibitors (9-hydroxyfluorene-9-carboxylic acid, trans-cinnamic acid, and 2,3,5-triiodobenzoic acid) on the development of early globular to heart-shaped stage embryos of Indian mustard (Brassica juncea) plants. Although the effective concentrations vary with the different inhibitors, all of them induced the formation of fused cotyledons in globular ([less than or equal to]60 [mu]m) but not heart-shaped embryos. Inhibitor-treated Brassica embryos phenocopy embryos of the Arabidopsis pin-formed mutant pin1-1, which has reduced auxin polar transport activity in inflorescence axes, as well as embryos of the Arabidopsis emb30 (gnom) mutant. These results indicate that the polar transport of auxin in early globular embryos is essential for the establishment of bilateral symmetry during plant embryogenesis. Based on these observations, we propose two possible models for the action of auxin during cotyledon formation.     

Systematic Detection of Internal Symmetry in Proteins Using CE-Symm

Symmetry is an important feature of protein tertiary and quaternary structures that has been associated with protein folding, function, evolution, and stability. Its emergence and ensuing prevalence has been attributed to gene duplications, fusion events, and subsequent evolutionary drift in sequence. This process maintains structural similarity and is further supported by this study. To further investigate the question of how internal symmetry evolved, how symmetry and function are related, and the overall frequency of internal symmetry, we developed an algorithm, CE-Symm, to detect pseudo-symmetry within the tertiary structure of protein chains. Using a large manually curated benchmark of 1007 protein domains, we show that CE-Symm performs significantly better than previous approaches. We use CE-Symm to build a census of symmetry among domain superfamilies in SCOP and note that 18% of all superfamilies are pseudo-symmetric. Our results indicate that more domains are pseudo-symmetric than previously estimated. We establish a number of recurring types of symmetry–function relationships and describe several characteristic cases in detail. With the use of the Enzyme Commission classification, symmetry was found to be enriched in some enzyme classes but depleted in others. CE-Symm thus provides a methodology for a more complete and detailed study of the role of symmetry in tertiary protein structure [availability: CE-Symm can be run from the Web at http://source.rcsb.org/jfatcatserver/symmetry.jsp. Source code and software binaries are also available under the GNU Lesser General Public License (version 2.1) at https://github.com/rcsb/symmetry. An interactive census of domains identified as symmetric by CE-Symm is available from http://source.rcsb.org/jfatcatserver/scopResults.jsp].     

Model-Independent Phenotyping of C. elegans Locomotion Using Scale-Invariant Feature Transform

To uncover the genetic basis of behavioral traits in the model organism C. elegans, a common strategy is to study locomotion defects in mutants. Despite efforts to introduce (semi-)automated phenotyping strategies, current methods overwhelmingly depend on worm-specific features that must be hand-crafted and as such are not generalizable for phenotyping motility in other animal models. Hence, there is an ongoing need for robust algorithms that can automatically analyze and classify motility phenotypes quantitatively. To this end, we have developed a fully-automated approach to characterize C. elegans’ phenotypes that does not require the definition of nematode-specific features. Rather, we make use of the popular computer vision Scale-Invariant Feature Transform (SIFT) from which we construct histograms of commonly-observed SIFT features to represent nematode motility. We first evaluated our method on a synthetic dataset simulating a range of nematode crawling gaits. Next, we evaluated our algorithm on two distinct datasets of crawling C. elegans with mutants affecting neuromuscular structure and function. Not only is our algorithm able to detect differences between strains, results capture similarities in locomotory phenotypes that lead to clustering that is consistent with expectations based on genetic relationships. Our proposed approach generalizes directly and should be applicable to other animal models. Such applicability holds promise for computational ethology as more groups collect high-resolution image data of animal behavior.     

心电信号特征量的小波提取算法

目的:为了更准确地利用心电图(ECG)进行临床生理疾病诊断,提高心电信号的自动分析准确度.介绍了一种利用小波变换的时频局部化特性以及多分辨率特性对心电信号进行处理的算法.方法:使用定位准确.计算简便的二阶微分Mart小波使用多孔算法来对ECG中QRS波群进行标定.结果:将算法应用到MIT/BIH国际标准心电数据库进行仿真.结论:通过仿真证明,该算法能够很精确地定位QRS波群,为心电信号的后续研究打好基础.     

Energy Detection Based on Undecimated Discrete Wavelet Transform and Its Application in Magnetic Anomaly Detection

Magnetic anomaly detection (MAD) is a passive approach for detection of a ferromagnetic target, and its performance is often limited by external noises. In consideration of one major noise source is the fractal noise (or called 1/f noise) with a power spectral density of 1/f^a (0<a<2), which is non-stationary, self-similarity and long-range correlation. Meanwhile the orthonormal wavelet decomposition can play the role of a Karhunen-Loève-type expansion to the 1/f-type signal by its decorrelation abilities, an effective energy detection method based on undecimated discrete wavelet transform (UDWT) is proposed in this paper. Firstly, the foundations of magnetic anomaly detection and UDWT are introduced in brief, while a possible detection system based on giant magneto-impedance (GMI) magnetic sensor is also given out. Then our proposed energy detection based on UDWT is described in detail, and the probabilities of false alarm and detection for given the detection threshold in theory are presented. It is noticeable that no a priori assumptions regarding the ferromagnetic target or the magnetic noise probability are necessary for our method, and different from the discrete wavelet transform (DWT), the UDWT is shift invariant. Finally, some simulations are performed and the results show that the detection performance of our proposed detector is better than that of the conventional energy detector even utilized in the Gaussian white noise, especially when the spectral parameter α is less than 1.0. In addition, a real-world experiment was done to demonstrate the advantages of the proposed method.     

Optical Properties of Metallic Nanotubes with Broken Symmetry: Detection of Eccentricity

The optical properties of dielectric core-metallic concentric shell nanoparticles show a highly sensitive dependence on geometrical parameters of the system. It is due to the strong interaction between plasmon modes excited on the surfaces of the metallic shell. Perturbations in the symmetries of the system modify these interactions and enable new ones, giving rise to dramatic variations in the far field spectrum. In this paper, we examine the electromagnetic response (far and near fields) of hollow metallic nanotubes (nts) with empty or dielectric core as a function of the offset parameter between the core and the shell. The evolution of extinction spectra shows a strong redshift for the dipolar resonance when the offset parameter is increasing, whereas new multipole interactions can be observed at high energy. As dimers, the extinction cross section for nts with nonhomogeneous shell thickness depends on incidence angle with respect to offset axis. We show that for a given offset, the lowest energy peak in extinction curves experiences both, a blueshift and increase of intensity when the angle of incidence is varied with respect to the axis of eccentricity. Maxima of both intensity and blueshift are achieved for an incidence perpendicular to the axis of eccentricity. We show that the optical properties provide sufficient information to unambiguously characterize the system. To compute the electromagnetic field at any point in space, we implemented a rigorous integral formalism (2D geometry) for the two fundamental modes of polarization (s and p modes).     

The Early Phylogeny of Chordates and Echinoderms and the Origin of Chordate Left–Right Asymmetry and Bilateral Symmetry

Abstract Left–right asymmetry in Dexiothetica (= echinoderms + chordates) results mainly from dexiothetism—an episode in their ancestry when an animal resembling the Recent pterobranch Cephalodiscus lay right-side-downwards on the sea floor. Castericystis sprinklei belongs to the dexiothete stem group. The history of the echinoderm stem group is reconstructed. Chordate bilateral symmetry evolved by six successive steps. Tail–head overlap occurred independently in craniates and acraniates. The neural crest would have existed in the latest common ancestor of extant chordates, or even earlier. Gross asymmetries occur in extant chordates in organs derived from the calcichordate head, but not in those derived from the calcichordate tail. The anterior boundary of hox gene expression in vertebrates corresponds to the anterior end of the calcichordate tail. Left–right organ pairing (an important step in the origin of chordate bilateral symmetry) may have involved the interaction of a symmetrizing morphogen, produced from the anterior end of the tail, with a lateral morphogen (Wilhelmi's morphogen), produced in ontogeny at first from the left and later from the right. This mechanism may still act in the metamorphosis of amphioxus and in mirror-imaging in vertebrate twins. Wilhelmi's morphogen may be related to one or more members of the dorsal cascade of Drosophila.     

Scale, Experimental Design and the Detection of Ineterspecific Competition within Plant Communities

Abstract We report preliminary results of a series of experiments designed to explore the importance of interspecific competition within arable weed communities at different scales. Competition hierarchies were apparent from a pot experiment with different levels of nutrients and water. Two field experiments looked at Bromus sterilis, Galium aparine and Papaver rhoeas in winter wheat in the field, in a range of combinations and management treatments, and a fourth field experiment included a wider variety of species. There was little effect of fertilizer on population behaviour in the the field. Bromus increased around ten fold per year on minimum-tilled plots, regardless of other treatments. Galium increased on organically-fertilized and minimum-tilled plots, but only in the absence of Bromus. Papaver densities remained low, but again were depressed in the presence of high densities of Bromus . Taken together, the experiments demonstrate the existence of competition between weed species. However, as the design of the experiment increased to include greater levels of environmental variation, so competition became more difficult to detect, and less useful for interpreting the results than knowledge of the biology of the individual species. At the scale of interest to the farmer, the level of competition is not a good predictor for weed population dynamics.     

The Thermodynamic Basis for Viral RNA Detection by the RIG-I Innate Immune Sensor

RIG-I is a cytoplasmic surveillance protein that contributes to the earliest stages of the vertebrate innate immune response. The protein specifically recognizes 5′-triphosphorylated RNA structures that are released into the cell by viruses, such as influenza and hepatitis C. To understand the energetic basis for viral RNA recognition by RIG-I, we studied the binding of RIG-I domain variants to a family of dsRNA ligands. Thermodynamic analysis revealed that the isolated RIG-I domains each make important contributions to affinity and that they interact using different strategies. Covalent linkage between the domains enhances RNA ligand specificity while reducing overall binding affinity, thereby providing a mechanism for discriminating virus from host RNA.     

Companies on the Scale

A determination of the sustainability performance of a company ought to fulfill certain requirements. It has to take into account the direct impacts from on-site processes as well as indirect impacts embodied in the supply chains of a company. This life cycle thinking is the common theme of popular footprint analyses, such as carbon, ecological, or water footprinting. All these indicators can be incorporated into one common and consistent accounting and reporting scheme based on economic input−output analysis, extended with data from all three dimensions of sustainability. We introduce such a triple-bottom-line accounting framework and software tool and apply it in a case study of a small company in the United Kingdom. Results include absolute impacts and relative intensities of indicators and are put into perspective by a benchmark comparison with the economic sector to which the company belongs. Production layer decomposition and structural path analysis provide further valuable detail, identifying the amount and location of triple-bottom-line impacts in individual upstream supply chains. The concept of shared responsibility has been applied to avoid double-counting and noncomparability of results. Although in this work we employ a single-region model for the sake of illustration, we discuss how to extend our ideas to international supply chains. We discuss the limitations of the approach and the implications for corporate sustainability.     

Biomathematics on the Basis of Thermodynamics

Mathematical terms as e.g. total differential and partial derivative play a specific role in classic thermodynamics. In this connection we ask for the existence of a thermodynamical biomathematics in consequence of the large biological importance of the thermodynamics of irreversible processes in open systems. In spite of our present limited knowledge we answer this question positive by means of theoretical considerations and practical examples.     

The Proximate Basis of the Oak Dispersal Syndrome: Detection of Seed Dormancy by Rodents

Previously we have shown how a range of physical and chemicalcharacteristics of acorns influences the behavioral decisionsof food-hoarding rodents which in turn affects the dispersal,establishment and spatial arrangement of oaks. One such behaviorinvolves the selective caching of acorns of red oaks (subgenus:Erythrobalanus) over those of white oaks (Quercus) because ofreduced perishability that results from delayed germinationof acorns in the red oak group. In this study, we sought toidentify the specific proximate cues (visual and olfactory)that eastern gray squirrels (Sciurus carolinensis) use whenmaking these decisions. In two series of field experiments,we presented individual, free-ranging animals with pairs ofexperimentally altered acorns (that differed with respect toa single chemical or visual characteristic) and recorded theirfeeding and caching responses. Squirrels cached artificial acornswith pericarps (shells) of red oak acorns and ate those withshells of white oak regardless of the internal chemical compositionof either type of acorn. Only when the shells of artificialacorns were first soaked in acetone (to remove potential chemicalodors) did animals eat artificial acorns made with the shellsof red oak acorns. Squirrels also ate one-year old red oak acornsthat had broken dormancy, even when they exhibited no signsof germination. We argue that a chemical cue in the shell ofacorns is important in the detection of seed dormancy and thedecision to cache acorns, and that such a cue might ultimatelycontribute to the differential dispersal of red and white oaksby rodents.