Multistage morphological segmentation of bright-field and fluorescent microscopy images

Science.gov (United States)

Korzyńska, A.; Iwanowski, M.

2012-06-01

This paper describes the multistage morphological segmentation method (MSMA) for microscopic cell images. The proposed method enables us to study the cell behaviour by using a sequence of two types of microscopic images: bright field images and/or fluorescent images. The proposed method is based on two types of information: the cell texture coming from the bright field images and intensity of light emission, done by fluorescent markers. The method is dedicated to the image sequences segmentation and it is based on mathematical morphology methods supported by other image processing techniques. The method allows for detecting cells in image independently from a degree of their flattening and from presenting structures which produce the texture. It makes use of some synergic information from the fluorescent light emission image as the support information. The MSMA method has been applied to images acquired during the experiments on neural stem cells as well as to artificial images. In order to validate the method, two types of errors have been considered: the error of cell area detection and the error of cell position using artificial images as the "gold standard".

Characterization of Gladiolus Germplasm Using Morphological, Physiological, and Molecular Markers.

Science.gov (United States)

Singh, Niraj; Pal, Ashish K; Roy, R K; Tewari, S K; Tamta, Sushma; Rana, T S

2018-04-01

Estimation of variability and genetic relationships among breeding materials is one of the important strategies in crop improvement programs. Morphological (plant height, spike length, a number of florets/spike), physiological (chlorophyll content, chlorophyll fluorescence, and rapid light curve parameters) and Directed amplification of minisatellite DNA (DAMD) markers were used to investigate the relationships among 50 Gladiolus cultivars. Cluster analysis based on morphological data, physiological characteristics, molecular markers, and cumulative data discriminated all cultivars into seven, five, seven, and six clusters in the unweighted pair-group method using arithmetic mean (UPGMA) dendrogram, respectively. The results of the principal coordinate analysis (PCoA) also supported UPGMA clustering. Variations among the Gladiolus cultivars at phenotypic level could be due to the changes in physiology, environmental conditions, and genetic variability. DAMD analysis using 10 primers produced 120 polymorphic bands with 80% polymorphism showing polymorphic information content (PIC = 0.28), Marker index (MI = 3.37), Nei's gene diversity (h = 0.267), and Shannon's information index (I = 0.407). Plant height showed a positive significant correlation with Spike length and Number of florets/spike (r = 0.729, p < 0.001 and r = 0.448, p = 0.001 respectively). Whereas, Spike length showed positive significant correlation with Number of florets/spike (r = 0.688, p < 0.001) and Chlorophyll content showed positive significant correlation with Electron transport rate (r = 0.863, p < 0.001). Based on significant morphological variations, high physiological performance, high genetic variability, and genetic distances between cultivars, we have been able to identify diverse cultivars of Gladiolus that could be the potential source as breeding material for further genetic improvement in this ornamental crop.

Automatic lung segmentation using control feedback system: morphology and texture paradigm.

Science.gov (United States)

Noor, Norliza M; Than, Joel C M; Rijal, Omar M; Kassim, Rosminah M; Yunus, Ashari; Zeki, Amir A; Anzidei, Michele; Saba, Luca; Suri, Jasjit S

2015-03-01

Interstitial Lung Disease (ILD) encompasses a wide array of diseases that share some common radiologic characteristics. When diagnosing such diseases, radiologists can be affected by heavy workload and fatigue thus decreasing diagnostic accuracy. Automatic segmentation is the first step in implementing a Computer Aided Diagnosis (CAD) that will help radiologists to improve diagnostic accuracy thereby reducing manual interpretation. Automatic segmentation proposed uses an initial thresholding and morphology based segmentation coupled with feedback that detects large deviations with a corrective segmentation. This feedback is analogous to a control system which allows detection of abnormal or severe lung disease and provides a feedback to an online segmentation improving the overall performance of the system. This feedback system encompasses a texture paradigm. In this study we studied 48 males and 48 female patients consisting of 15 normal and 81 abnormal patients. A senior radiologist chose the five levels needed for ILD diagnosis. The results of segmentation were displayed by showing the comparison of the automated and ground truth boundaries (courtesy of ImgTracer™ 1.0, AtheroPoint™ LLC, Roseville, CA, USA). The left lung's performance of segmentation was 96.52% for Jaccard Index and 98.21% for Dice Similarity, 0.61 mm for Polyline Distance Metric (PDM), -1.15% for Relative Area Error and 4.09% Area Overlap Error. The right lung's performance of segmentation was 97.24% for Jaccard Index, 98.58% for Dice Similarity, 0.61 mm for PDM, -0.03% for Relative Area Error and 3.53% for Area Overlap Error. The segmentation overall has an overall similarity of 98.4%. The segmentation proposed is an accurate and fully automated system.

Study of the morphology exhibited by linear segmented polyurethanes during shape memory cycles

International Nuclear Information System (INIS)

Pereira, I.M.; Orefice, R.L.

2009-01-01

By using small-angle X-ray, this study aims to identify the role of the morphological structures of linear segmented thermoplastic polyurethane during shape memory cycle. A deformed specimen was placed on a heating stage mounted at the beamline; the shape recovery was measured during 20min. Furthermore, to study the influence of the temperature during recover, the specimens were subjected to different thermo-cycle. In each condition, the phase morphology and composition were investigated. Recovery process was separated into three stages. Bulk incompatibility and entropic recovery were the two controlling features for determining the final polyurethane morphology. (author)

Filler segmentation of SEM paper images based on mathematical morphology.

Science.gov (United States)

Ait Kbir, M; Benslimane, Rachid; Princi, Elisabetta; Vicini, Silvia; Pedemonte, Enrico

2007-07-01

Recent developments in microscopy and image processing have made digital measurements on high-resolution images of fibrous materials possible. This helps to gain a better understanding of the structure and other properties of the material at micro level. In this paper SEM image segmentation based on mathematical morphology is proposed. In fact, paper models images (Whatman, Murillo, Watercolor, Newsprint paper) selected in the context of the Euro Mediterranean PaperTech Project have different distributions of fibers and fillers, caused by the presence of SiAl and CaCO3 particles. It is a microscopy challenge to make filler particles in the sheet distinguishable from the other components of the paper surface. This objectif is reached here by using switable strutural elements and mathematical morphology operators.

Neuron Morphology Influences Axon Initial Segment Plasticity123

Science.gov (United States)

2016-01-01

In most vertebrate neurons, action potentials are initiated in the axon initial segment (AIS), a specialized region of the axon containing a high density of voltage-gated sodium and potassium channels. It has recently been proposed that neurons use plasticity of AIS length and/or location to regulate their intrinsic excitability. Here we quantify the impact of neuron morphology on AIS plasticity using computational models of simplified and realistic somatodendritic morphologies. In small neurons (e.g., dentate granule neurons), excitability was highest when the AIS was of intermediate length and located adjacent to the soma. Conversely, neurons having larger dendritic trees (e.g., pyramidal neurons) were most excitable when the AIS was longer and/or located away from the soma. For any given somatodendritic morphology, increasing dendritic membrane capacitance and/or conductance favored a longer and more distally located AIS. Overall, changes to AIS length, with corresponding changes in total sodium conductance, were far more effective in regulating neuron excitability than were changes in AIS location, while dendritic capacitance had a larger impact on AIS performance than did dendritic conductance. The somatodendritic influence on AIS performance reflects modest soma-to-AIS voltage attenuation combined with neuron size-dependent changes in AIS input resistance, effective membrane time constant, and isolation from somatodendritic capacitance. We conclude that the impact of AIS plasticity on neuron excitability will depend largely on somatodendritic morphology, and that, in some neurons, a shorter or more distally located AIS may promote, rather than limit, action potential generation. PMID:27022619

Application of morphological and physiological parameters representative of a sample Brazilian population in the human respiratory tract model

International Nuclear Information System (INIS)

Reis, A.A.; Cardoso, J.C.S.; Lourenco, M.C.

2005-01-01

Full text: The Human Respiratory Tract Model (HRTM) proposed in ICRP Publication 66 account for the morphology and physiology of the respiratory tract. The characteristics of air drawn into the lungs and exhaled are greatly influenced by the morphology of the respiratory tract, which causes numerous changes in pressure, flow rate, direction and humidity as air moves into and out of the lungs. These changing characteristics can influence the rates and the sites of deposition. Concerning the respiratory physiological parameters the breathing characteristics influence the volume, the inhalation rate of air and the portion that enters through the nose and the mouth. These characteristics are important to determine the fractional deposition. The HRTM model uses morphological and physiological parameters from the Caucasian man to establish deposition fractions in the respiratory tract regions. lt is known that the morphology and physiology are influenced by environmental, occupational and economic conditions. The ICRP recommends for a reliable evaluation of the regional deposition the use of parameters from a local population when information is available. The main purpose of this study is to verify the influence in using the morphology and physiology parameters representative of a sample of the Brazilian population on the deposition model of ICRP Publication 66. The morphological and physiological data were obtained from the literature. The software EXCEL for Windows (version 2000) was used in order to implement the deposition model and also to allow the changes in parameters of interest. Initially, the implemented model was checked using the parameters defined in ICRP and the results of the fraction deposition in the respiratory tract compartments were compared. Finally, morphological and physiological parameters from Brazilian adult male were applied and the fractional deposition calculated. The respiratory values at different levels of activity for ages varying from

Physiological, morphological and allocation plasticity of a semi-deciduous shrub

Science.gov (United States)

Zunzunegui, M.; Ain-Lhout, F.; Barradas, M. C. Díaz; Álvarez-Cansino, L.; Esquivias, M. P.; García Novo, F.

2009-05-01

The main objective of this study was to look into the phenotypic plasticity of the semi-deciduous Mediterranean shrub, Halimium halimifolium. We studied morphological, allocation and physiological traits to determine which characters were more plastic and contribute in a greater extent to the acclimation ability of the species. We present a phenotypic plasticity index for morphological, physiological and allocation traits, which we have applied in the most contrasted plant communities where the species grows naturally. Data published by Díaz Barradas, M.C., García Novo, F. [1987. The vertical structure of Mediterranean scrub in Doñana National Park (SW Spain). Folia Geobotanica Phytotaxonomica 22, 415-433; 1988. Modificación y extinción de la luz a través de la copa en cuatro especies de matorral en el Parque Nacional de Doñana. Monografias Instituto Pirenaico de Ecologia 4, 503-516; 1990. Seasonal changes in canopy structure in two mediterranean dune shrubs. Journal of Vegetation Science 1, 31-40.], Díaz Barradas, M.C., Zunzunegui, M., García Novo, F. [1999a. Autoecological traits of Halimium halimifolium in contrasted habitats under Mediterranean type climate. Folia Geobotanica 34, 189-208.] and Zunzunegui et al. [Zunzunegui, M., Díaz Barradas, M.C., García Novo, F. 1997. Autoecological notes of Halimium halimifolium. Lagascalia 19, 725-736. Sevilla, Spain; Zunzunegui, M., Díaz Barradas, M.C., Fernández Baco, L., García Novo, F. 1999. Seasonal changes in photochemical efficiency in leaves of Halimium halimifolium a Mediterranean semideciduous shrub. Photosynthetica 36, 17-31; Zunzunegui, M., Díaz Barradas, M.C., García Novo, F. 2000. Different phenotypic response of Halimium halimifolium in relation to groundwater availability. Plant Ecology 148, 165-174; Zunzunegui, M., Díaz Barradas, M.C., Aguilar, F., Ain-Lhout, F., Clavijo, A., García Novo, F. 2002. Growth response of Halimium halimifolium at four sites with different soil water availability

Application of morphological and physiological parameters representative of a Brazilian population sample in the respiratory tract model

International Nuclear Information System (INIS)

Dos Reis, A. A.; Cardoso, J. C. S.; Lourenco, M. C.

2007-01-01

The human respiratory tract model (HRTM) adopted by ICRP in its Publication 66 accounts for the morphology and physiology of the respiratory tract. The characteristics of air drawn into the lungs and exhaled are greatly influenced by the morphology of the respiratory tract, which causes numerous changes in pressure, flow rate, direction and humidity as air moves into and out of the lungs. These characteristics are important to determine the fractional deposition. It is known that the morphology and physiology are influenced by environmental, occupational and economic conditions. The ICRP recommends, for a reliable evaluation of the regional deposition, the use of parameters from a local population wherever such information is available. The main purpose of this study is to verify the influence of using the morphology and physiology parameters representative of a sample of the Brazilian population on the deposition model of the ICRP Publication 66 model. (authors)

Using wavelet denoising and mathematical morphology in the segmentation technique applied to blood cells images.

Science.gov (United States)

Boix, Macarena; Cantó, Begoña

2013-04-01

Accurate image segmentation is used in medical diagnosis since this technique is a noninvasive pre-processing step for biomedical treatment. In this work we present an efficient segmentation method for medical image analysis. In particular, with this method blood cells can be segmented. For that, we combine the wavelet transform with morphological operations. Moreover, the wavelet thresholding technique is used to eliminate the noise and prepare the image for suitable segmentation. In wavelet denoising we determine the best wavelet that shows a segmentation with the largest area in the cell. We study different wavelet families and we conclude that the wavelet db1 is the best and it can serve for posterior works on blood pathologies. The proposed method generates goods results when it is applied on several images. Finally, the proposed algorithm made in MatLab environment is verified for a selected blood cells.

Segmentation of Brain Lesions in MRI and CT Scan Images: A Hybrid Approach Using k-Means Clustering and Image Morphology

Science.gov (United States)

Agrawal, Ritu; Sharma, Manisha; Singh, Bikesh Kumar

2018-04-01

Manual segmentation and analysis of lesions in medical images is time consuming and subjected to human errors. Automated segmentation has thus gained significant attention in recent years. This article presents a hybrid approach for brain lesion segmentation in different imaging modalities by combining median filter, k means clustering, Sobel edge detection and morphological operations. Median filter is an essential pre-processing step and is used to remove impulsive noise from the acquired brain images followed by k-means segmentation, Sobel edge detection and morphological processing. The performance of proposed automated system is tested on standard datasets using performance measures such as segmentation accuracy and execution time. The proposed method achieves a high accuracy of 94% when compared with manual delineation performed by an expert radiologist. Furthermore, the statistical significance test between lesion segmented using automated approach and that by expert delineation using ANOVA and correlation coefficient achieved high significance values of 0.986 and 1 respectively. The experimental results obtained are discussed in lieu of some recently reported studies.

Morphology, physiology, genetics, enigmas, and status of an extremely rare tree: Mutant tanoak

Science.gov (United States)

Philip M. McDonald; Jianwei Zhang; Randy S. Senock; Jessica W. Wright

2013-01-01

Important physical characteristics, morphological attributes, physiological functions, and genetic properties of mutant tanoak, Notholithocarpus densiflorus f. attenuato-dentatus (Fagaceae), and normal tanoak, Notholithocarpus densiflorus (Hook. & Arn.) Manos, Cannon & S. H. Oh, were studied on the Challenge...

Application of the physiological and morphological parameters of the brazilian population sample to the mathematical model of the human respiratory tract

International Nuclear Information System (INIS)

Reis, Arlene Alves dos

2005-01-01

The Human Respiratory Tract Model proposed by the ICRP Publication 66 accounts for the morphology and physiology of the respiratory tract. The characteristics of air drawn into the lungs and exhaled are greatly influenced by the morphology of the respiratory tract, which causes numerous changes in pressure, flow rate, direction and humidity as air moves into and out of the lungs. Concerning the respiratory physiological parameters the breathing characteristics influence the volume, the inhalation rate of air and the portion that enters through the nose and the mouth. These characteristics are important to determine the fractional deposition. The model uses morphological and physiological parameters from the Caucasian man to establish deposition fractions in the respiratory tract regions. It is known that the morphology and physiology are influenced by environmental, occupational and economic conditions. The ICRP recommends, for a reliable evaluation of the regional deposition, the use of parameters from a local population when information is available. The main purpose of this study is to verify the influence in using the morphology and physiology parameters representative of a sample of the Brazilian population on the deposition model of the ICRP Publication 66. The morphological and physiological data were obtained from the literature. The software EXCEL for Windows (version 2000) was used in order to implement the deposition model and also to allow the changes in parameters of interest. Initially, the implemented model was checked using the parameters defined by the ICRP and the results of the fraction deposition in the respiratory tract compartments were compared. Finally, morphological and physiological parameters from Brazilian adult male were applied and the fractional deposition calculated. The results suggest a significant variation in fractional deposition when Brazilian parameters are applied in the model. (author)

Performance of OCT segmentation procedures to assess morphology and extension in geographic atrophy.

Science.gov (United States)

Schütze, Christopher; Ahlers, Christian; Sacu, Stefan; Mylonas, Georgios; Sayegh, Ramzi; Golbaz, Isabelle; Matt, Gerlinde; Stock, Géraldine; Schmidt-Erfurth, Ursula

2011-05-01

Investigating segmentation procedures and morphological findings in time domain (TD) and current spectral domain (SD) optical coherence tomography (OCT) devices in patients with geographic atrophy (GA). Fifty eyes of 46 patients with GA secondary to AMD and 15 control eyes were examined in this prospective noninterventional comparative case series. All patients underwent Stratus (model 3000), Cirrus (Carl Zeiss Meditec), Spectralis (Spectralis HRA+OCT; Heidelberg Engineering) and 3D-OCT-1000 (Topcon). Automated segmentation analyses were compared. An overlay of scanning laser ophthalmoscope (SLO) and three-dimensional retinal thickness (RT) maps were used to investigate whether areas of retinal thinning correspond to areas of retinal pigment epithelium (RPE) atrophy. Geographic atrophy areas identified in SLO scans were significantly larger than areas of retinal thinning in RT maps. No convincing topographic correlation could be found between areas of retinal thinning and actual GA size as identified in SLO and fundus photography. Spectralis OCT showed significantly more mild and severe segmentation errors than 3D and Cirrus OCT. This study showed substantial limitations in identifying zones of GA reliably when using automatic segmentation procedures in current SD-OCT devices. This limitation should be addressed to visualize and document RPE loss realistically in a frequent disease like GA. © 2010 The Authors. Journal compilation © 2010 Acta Ophthalmol.

Polyploidy and the relationship between leaf structure and function: implications for correlated evolution of anatomy, morphology, and physiology in Brassica.

Science.gov (United States)

Baker, Robert L; Yarkhunova, Yulia; Vidal, Katherine; Ewers, Brent E; Weinig, Cynthia

2017-01-05

Polyploidy is well studied from a genetic and genomic perspective, but the morphological, anatomical, and physiological consequences of polyploidy remain relatively uncharacterized. Whether these potential changes bear on functional integration or are idiosyncratic remains an open question. Repeated allotetraploid events and multiple genomic combinations as well as overlapping targets of artificial selection make the Brassica triangle an excellent system for exploring variation in the connection between plant structure (anatomy and morphology) and function (physiology). We examine phenotypic integration among structural aspects of leaves including external morphology and internal anatomy with leaf-level physiology among several species of Brassica. We compare diploid and allotetraploid species to ascertain patterns of phenotypic correlations among structural and functional traits and test the hypothesis that allotetraploidy results in trait disintegration allowing for transgressive phenotypes and additional evolutionary and crop improvement potential. Among six Brassica species, we found significant effects of species and ploidy level for morphological, anatomical and physiological traits. We identified three suites of intercorrelated traits in both diploid parents and allotetraploids: Morphological traits (such as leaf area and perimeter) anatomic traits (including ab- and ad- axial epidermis) and aspects of physiology. In general, there were more correlations between structural and functional traits for allotetraploid hybrids than diploid parents. Parents and hybrids did not have any significant structure-function correlations in common. Of particular note, there were no significant correlations between morphological structure and physiological function in the diploid parents. Increased phenotypic integration in the allotetraploid hybrids may be due, in part, to increased trait ranges or simply different structure-function relationships. Genomic and chromosomal

Segmentation of white blood cells and comparison of cell morphology by linear and naïve Bayes classifiers.

Science.gov (United States)

Prinyakupt, Jaroonrut; Pluempitiwiriyawej, Charnchai

2015-06-30

Blood smear microscopic images are routinely investigated by haematologists to diagnose most blood diseases. However, the task is quite tedious and time consuming. An automatic detection and classification of white blood cells within such images can accelerate the process tremendously. In this paper we propose a system to locate white blood cells within microscopic blood smear images, segment them into nucleus and cytoplasm regions, extract suitable features and finally, classify them into five types: basophil, eosinophil, neutrophil, lymphocyte and monocyte. Two sets of blood smear images were used in this study's experiments. Dataset 1, collected from Rangsit University, were normal peripheral blood slides under light microscope with 100× magnification; 555 images with 601 white blood cells were captured by a Nikon DS-Fi2 high-definition color camera and saved in JPG format of size 960 × 1,280 pixels at 15 pixels per 1 μm resolution. In dataset 2, 477 cropped white blood cell images were downloaded from CellaVision.com. They are in JPG format of size 360 × 363 pixels. The resolution is estimated to be 10 pixels per 1 μm. The proposed system comprises a pre-processing step, nucleus segmentation, cell segmentation, feature extraction, feature selection and classification. The main concept of the segmentation algorithm employed uses white blood cell's morphological properties and the calibrated size of a real cell relative to image resolution. The segmentation process combined thresholding, morphological operation and ellipse curve fitting. Consequently, several features were extracted from the segmented nucleus and cytoplasm regions. Prominent features were then chosen by a greedy search algorithm called sequential forward selection. Finally, with a set of selected prominent features, both linear and naïve Bayes classifiers were applied for performance comparison. This system was tested on normal peripheral blood smear slide images from two datasets. Two sets

Improved document image segmentation algorithm using multiresolution morphology

Science.gov (United States)

Bukhari, Syed Saqib; Shafait, Faisal; Breuel, Thomas M.

2011-01-01

Page segmentation into text and non-text elements is an essential preprocessing step before optical character recognition (OCR) operation. In case of poor segmentation, an OCR classification engine produces garbage characters due to the presence of non-text elements. This paper describes modifications to the text/non-text segmentation algorithm presented by Bloomberg,1 which is also available in his open-source Leptonica library.2The modifications result in significant improvements and achieved better segmentation accuracy than the original algorithm for UW-III, UNLV, ICDAR 2009 page segmentation competition test images and circuit diagram datasets.

Segmentation and registration duality from echographic images by use of physiological and morphological knowledge; Segmentation et recalage d`images echographiques par utilisation de connaissances physiologiques et morphologiques

Energy Technology Data Exchange (ETDEWEB)

Ionescu, G

1998-12-04

Echographic imaging could potentially play a major role in the field of Computer Assisted Surgery (CAS). For doctors and surgeons to make full use of tool in planning and executing surgical operations, they also need user-friendly automatic software based on fast, precise and reliable algorithms. The main goal of this thesis is to take advantage of the segmentation/registration duality to extract the relevant information from echo graphical images. This information will allow the precise and automatic registration both of anatomical structures contained in the pre-operative model and of per-operative data contained in echographic images. The result of registration will be further to guide a computer-assisted tool. In the first part we propose different methods for filtering, segmentation and calibration of echographic images. The development of fast, precise and reliable algorithms is emphasized. The second part concerns the segmentation-registration duality and the corrections of elastic deformations of soft tissues. High-level segmentation algorithms for echographic images were developed. They are based on results of low -level segmentation, a priori anatomical knowledge as well as on information provided by the pre-operative model. The third part deals with detailed descriptions of applications and interpretation of results. The cases studied include: screwing inside the vertebral pedicles, ilio-sacral screwing, prostatic radiotherapy and puncture of pericardial effusion. Future developments for this approach are discussed. (author)

Why segmentation matters: Experience-driven segmentation errors impair "morpheme" learning.

Science.gov (United States)

Finn, Amy S; Hudson Kam, Carla L

2015-09-01

We ask whether an adult learner's knowledge of their native language impedes statistical learning in a new language beyond just word segmentation (as previously shown). In particular, we examine the impact of native-language word-form phonotactics on learners' ability to segment words into their component morphemes and learn phonologically triggered variation of morphemes. We find that learning is impaired when words and component morphemes are structured to conflict with a learner's native-language phonotactic system, but not when native-language phonotactics do not conflict with morpheme boundaries in the artificial language. A learner's native-language knowledge can therefore have a cascading impact affecting word segmentation and the morphological variation that relies upon proper segmentation. These results show that getting word segmentation right early in learning is deeply important for learning other aspects of language, even those (morphology) that are known to pose a great difficulty for adult language learners. (c) 2015 APA, all rights reserved).

Automatic lung segmentation in the presence of alveolar collapse

Directory of Open Access Journals (Sweden)

Noshadi Areg

2017-09-01

Full Text Available Lung ventilation and perfusion analyses using chest imaging methods require a correct segmentation of the lung to offer anatomical landmarks for the physiological data. An automatic segmentation approach simplifies and accelerates the analysis. However, the segmentation of the lungs has shown to be difficult if collapsed areas are present that tend to share similar gray values with surrounding non-pulmonary tissue. Our goal was to develop an automatic segmentation algorithm that is able to approximate dorsal lung boundaries even if alveolar collapse is present in the dependent lung areas adjacent to the pleura. Computed tomography data acquired in five supine pigs with injured lungs were used for this purpose. First, healthy lung tissue was segmented using a standard 3D region growing algorithm. Further, the bones in the chest wall surrounding the lungs were segmented to find the contact points of ribs and pleura. Artificial boundaries of the dorsal lung were set by spline interpolation through these contact points. Segmentation masks of the entire lung including the collapsed regions were created by combining the splines with the segmentation masks of the healthy lung tissue through multiple morphological operations. The automatically segmented images were then evaluated by comparing them to manual segmentations and determining the Dice similarity coefficients (DSC as a similarity measure. The developed method was able to accurately segment the lungs including the collapsed regions (DSCs over 0.96.

Bio-photonic detection method for morphological analysis of anthracnose disease and physiological disorders of Diospyros kaki

Science.gov (United States)

Wijesinghe, Ruchire Eranga; Lee, Seung-Yeol; Ravichandran, Naresh Kumar; Shirazi, Muhammad Faizan; Moon, Byungin; Jung, Hee-Young; Jeon, Mansik; Kim, Jeehyun

2017-04-01

The pathological and physiological defects in various types of fruits lead to large amounts of economical waste. It is well recognized that internal fruit defects due to pathological infections and physiological disorders can be effectively visualized at an initial stage of the disease using a well-known bio-photonic detection method called optical coherence tomography (OCT). This work investigates the use of OCT for identifying the morphological variations of anthracnose (bitter rot) disease infected and physiologically disordered Diospyros kaki (Asian Persimmon) fruits. An experiment was conducted using fruit samples that were carefully selected from persimmon orchards. Depth-resolved images with a high axial resolution were acquired using 850-nm-based spectral-domain OCT (SD-OCT) system. The obtained exemplary high-resolution two-dimensional and volumetric three-dimensional images revealed complementary morphological differences between healthy and defected samples. Moreover, the obtained depth-profile analysis results confirmed the disappearance of the healthy cell layers among the healthy-infected boundary regions. Thus, the proposed method has the potential to increase the diagnostic accuracy of the OCT technique used in agricultural plantations.

Growth and morphological analysis of segmented AuAg alloy nanowires created by pulsed electrodeposition in ion-track etched membranes

Directory of Open Access Journals (Sweden)

Ina Schubert

2015-06-01

Full Text Available Background: Multicomponent heterostructure nanowires and nanogaps are of great interest for applications in sensorics. Pulsed electrodeposition in ion-track etched polymer templates is a suitable method to synthesise segmented nanowires with segments consisting of two different types of materials. For a well-controlled synthesis process, detailed analysis of the deposition parameters and the size-distribution of the segmented wires is crucial.Results: The fabrication of electrodeposited AuAg alloy nanowires and segmented Au-rich/Ag-rich/Au-rich nanowires with controlled composition and segment length in ion-track etched polymer templates was developed. Detailed analysis by cyclic voltammetry in ion-track membranes, energy-dispersive X-ray spectroscopy and scanning electron microscopy was performed to determine the dependency between the chosen potential and the segment composition. Additionally, we have dissolved the middle Ag-rich segments in order to create small nanogaps with controlled gap sizes. Annealing of the created structures allows us to influence their morphology.Conclusion: AuAg alloy nanowires, segmented wires and nanogaps with controlled composition and size can be synthesised by electrodeposition in membranes, and are ideal model systems for investigation of surface plasmons.

Why segmentation matters: experience-driven segmentation errors impair “morpheme” learning

Science.gov (United States)

Finn, Amy S.; Hudson Kam, Carla L.

2015-01-01

We ask whether an adult learner’s knowledge of their native language impedes statistical learning in a new language beyond just word segmentation (as previously shown). In particular, we examine the impact of native-language word-form phonotactics on learners’ ability to segment words into their component morphemes and learn phonologically triggered variation of morphemes. We find that learning is impaired when words and component morphemes are structured to conflict with a learner’s native-language phonotactic system, but not when native-language phonotactics do not conflict with morpheme boundaries in the artificial language. A learner’s native-language knowledge can therefore have a cascading impact affecting word segmentation and the morphological variation that relies upon proper segmentation. These results show that getting word segmentation right early in learning is deeply important for learning other aspects of language, even those (morphology) that are known to pose a great difficulty for adult language learners. PMID:25730305

Morphology of the Physiological Apical Foramen in Maxillary and Mandibular First Molars.

Science.gov (United States)

Abarca, J; Zaror, C; Monardes, H; Hermosilla, V; Muñoz, C; Cantin, M

2014-06-01

Information regarding the anatomy of the physiological apical foramen is limited. Knowing its diameter and shapes contributes to clinical work, specifically to the cleaning and shaping of the apical third. The aim of this ex vivo study was to determine the minimum and maximum diameters and shape of the physiological apical foramen in the roots of maxillary and mandibular first molars. A descriptive study was conducted on 89 recently extracted first molars. Roots 3-5 mm from the apex were sectioned and prepared for analysis at 40× magnification. The minimum and maximum diameters of each physiological foramen were measured using the program Motic Images plus 2.0 ML. The shape of the foramina, classified as round, oval or irregular, was determined by the difference between the maximum and minimum diameters. A total of 174 physiological foramina were analyzed. The average of the minimum and maximum diameters was between 0.24-0.33 mm in maxillary first molars and between 0.25-0.33 mm in mandibular first molars. In maxillary molars, the most common shape of the foramen was oval (50%), then irregular (32%), then round (18%). In mandibular molars, the oval shape was also the most frequent (59%), followed by irregular (23%) and round (18%). The findings of this study regarding the morphology of physiological apical foramina in first molars make it easier for the operator to choose the appropriately-sized instruments to perform endodontic therapy successfully.

Morphology of the Physiological Apical Foramen in Maxillary and Mandibular First Molars

Science.gov (United States)

Abarca, J.; Zaror, C.; Monardes, H.; Hermosilla, V.; Muñoz, C.; Cantin, M.

2015-01-01

SUMMARY Information regarding the anatomy of the physiological apical foramen is limited. Knowing its diameter and shapes contributes to clinical work, specifically to the cleaning and shaping of the apical third. The aim of this ex vivo study was to determine the minimum and maximum diameters and shape of the physiological apical foramen in the roots of maxillary and mandibular first molars. A descriptive study was conducted on 89 recently extracted first molars. Roots 3–5 mm from the apex were sectioned and prepared for analysis at 40× magnification. The minimum and maximum diameters of each physiological foramen were measured using the program Motic Images plus 2.0 ML. The shape of the foramina, classified as round, oval or irregular, was determined by the difference between the maximum and minimum diameters. A total of 174 physiological foramina were analyzed. The average of the minimum and maximum diameters was between 0.24–0.33 mm in maxillary first molars and between 0.25–0.33 mm in mandibular first molars. In maxillary molars, the most common shape of the foramen was oval (50%), then irregular (32%), then round (18%). In mandibular molars, the oval shape was also the most frequent (59%), followed by irregular (23%) and round (18%). The findings of this study regarding the morphology of physiological apical foramina in first molars make it easier for the operator to choose the appropriately-sized instruments to perform endodontic therapy successfully. PMID:25937698

Unilateral lumbar spondylolysis on radiography and MRI: emphasis on morphologic differences according to involved segment.

Science.gov (United States)

Park, Ji Seon; Moon, Sung Kyoung; Jin, Wook; Ryu, Kyung Nam

2010-01-01

The objective of our study was to retrospectively compare the radiography and MRI findings of unilateral spondylolysis in the upper lumbar segment and in the lower lumbar segment and to consider how these radiologic findings can be applied in the diagnosis of unilateral spondylolysis. Thirty patients with unilateral lumbar spondylolysis were categorized into one of two groups according to the lumbar levels involved with pars interarticularis defects: group A (L1, L2, and L3) or group B (L4 and L5). On radiographs, we evaluated contour bulging of the affected pars interarticularis, reactive sclerosis in the contralateral pedicle, anterolisthesis of the involved vertebra, and deviation of the spinous process. On MRI, we assessed pseudoarticulation of the pars interarticularis defect, uneven distribution of posterior epidural fat, the interspinous distance between adjacent segments, facet and disk degeneration in adjacent segments, and other anomalous changes. Among the 63 patients with unilateral spondylolysis, the upper lumbar segment was involved in 29 and the lower lumbar segment, in 34. Group A often displayed contour bulging of the affected pars interarticularis, reactive sclerosis of the contralateral pedicle, and contralateral deviation of the spinous process, all of which were easily detectable on radiography. Group B frequently showed anterolisthesis, pseudoarticulation of the pars interarticularis defect, adjacent facet-disk degeneration, and other anomalous changes that were well observed on MRI. Unilateral lumbar spondylolysis displayed radiologic differences in morphology of the isthmic defect itself and in ancillary findings of the adjacent structures based on the segment involved. Recognition of different ancillary features of unilateral spondylolysis with the use of a feasible diagnostic tool can be helpful for the diagnosis of cases in which a direct sign of isthmic defect is equivocal.

Effects of treatment with vermicompost on the some morphological and physiological characteristics of scots pine (Pinus sylvestris L.

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Atilla Atik

2014-01-01

Full Text Available In the present study, effects of vermicompost treatment tried to be determined on some morphological and physiological seedling quality characteristics of one – year Scots pines. Experiments were set according to random plots experimental design including 14 trials with 3 repetitions. With this aim, seeds obtained from seven different sites (origins of mixed Scots pine stands which naturally grow in the Western Black Sea Region of Turkey were used in the experiments. At the end of the vegetation period, important physiologic and morphologic parameters of seedlings in the plots, SH, RCD, TDW, RDW and total N rate were detected. After that, RI, V and QI rates, each of which is also important rational indicator in seedlings for height, root collar diameter and weight balance, were calculated with the help of morphological data. Effects of VC treatment were found to be statistically significant on all the development parameters measured in seedlings in seven origin groups. It was determined in all morphologic parameters that the best development rate was observed in Goktepe originating seedlings in both VC treatment and control groups while Geyikgolu originating seedlings showed the least development performance. It was observed from the correlation analysis that there is a positive relation between morphologic and physiologic quality criteria. It was also determined according to the results of multivariable regression analysis that elevation of the sites where seedlings were picked up was more effective on the development of seedling development than the aspect of the sites. Results of the study were found to be convenient with the related literature and showed that VC treatment contributed positively to the development of Scots pine seedlings taken from seven different origins.

Morphological differences between habitats are associated with physiological and behavioural trade-offs in stickleback (Gasterosteus aculeatus).

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Seebacher, Frank; Webster, Mike M; James, Rob S; Tallis, Jason; Ward, Ashley J W

2016-06-01

Local specialization can be advantageous for individuals and may increase the resilience of the species to environmental change. However, there may be trade-offs between morphological responses and physiological performance and behaviour. Our aim was to test whether habitat-specific morphology of stickleback (Gasterosteus aculeatus) interacts with physiological performance and behaviour at different salinities. We rejected the hypothesis that deeper body shape of fish from habitats with high predation pressure led to decreases in locomotor performance. However, there was a trade-off between deeper body shape and muscle quality. Muscle of deeper-bodied fish produced less force than that of shallow-bodied saltmarsh fish. Nonetheless, saltmarsh fish had lower swimming performance, presumably because of lower muscle mass overall coupled with smaller caudal peduncles and larger heads. Saltmarsh fish performed better in saline water (20 ppt) relative to freshwater and relative to fish from freshwater habitats. However, exposure to salinity affected shoaling behaviour of fish from all habitats and shoals moved faster and closer together compared with freshwater. We show that habitat modification can alter phenotypes of native species, but local morphological specialization is associated with trade-offs that may reduce its benefits.

A Morphological Hessian Based Approach for Retinal Blood Vessels Segmentation and Denoising Using Region Based Otsu Thresholding.

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Khan BahadarKhan

Full Text Available Diabetic Retinopathy (DR harm retinal blood vessels in the eye causing visual deficiency. The appearance and structure of blood vessels in retinal images play an essential part in the diagnoses of an eye sicknesses. We proposed a less computational unsupervised automated technique with promising results for detection of retinal vasculature by using morphological hessian based approach and region based Otsu thresholding. Contrast Limited Adaptive Histogram Equalization (CLAHE and morphological filters have been used for enhancement and to remove low frequency noise or geometrical objects, respectively. The hessian matrix and eigenvalues approach used has been in a modified form at two different scales to extract wide and thin vessel enhanced images separately. Otsu thresholding has been further applied in a novel way to classify vessel and non-vessel pixels from both enhanced images. Finally, postprocessing steps has been used to eliminate the unwanted region/segment, non-vessel pixels, disease abnormalities and noise, to obtain a final segmented image. The proposed technique has been analyzed on the openly accessible DRIVE (Digital Retinal Images for Vessel Extraction and STARE (STructured Analysis of the REtina databases along with the ground truth data that has been precisely marked by the experts.

The effect of morphological characteristics on the physical and physiological performance of Turkish soccer referees and assistant referees

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Bozdoğan Tuba Kızılet

2017-01-01

Full Text Available Physical fitness and physiological status play an important role in the referees’ performance. Therefore, the aim of this study was to analyze the body structure and morphological characteristics of Turkish Ssccer refereesand assistant referees and to determine the effect of these variables on physical performance. A sample of 158 male referees and 55 asisstant referees (mean age 31.8 ± 4.2 and 37.4 ± 3.3 yearswas evaluated. Physical assesment were conducted using the Yo-Yo Intermittent Recovery Test Level 1 (YYIRTL1 and Repeated Sprint Ability (RSA for referees and Active Recovery Intermittent Endurance Test (ARIET and the RSA for assistant referees. We analyzed heart rate assesments. The measures used to assess morphological characteristics were age, weight, body mass index (BMI, body fat (BF, body mass, and fat free mass.The ANOVA test (Tukey testwas used to determine the result. Correlations between the referees’ fitness test performance and their morphological characteristics were examined using Pearson’s correlation (p<0.05. To result of this study, point to the existence of a strong correlation between morphological and physical and physiological characteristics. According to the literature, we found that greater BF and a higher BMI may negatively affect areferee’s running performance.

Morphological, physiological, and genetic variation between metallicolous and nonmetallicolous populations of Dianthus carthusianorum.

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Wójcik, Małgorzata; Dresler, Sławomir; Jawor, Emilia; Kowalczyk, Krzysztof; Tukiendorf, Anna

2013-01-01

Waste deposits produced by metal mining and smelting activities provide extremely difficult habitats for plant colonization and growth. Therefore, plants spontaneously colonizing such areas represent a very interesting system for studying evolution of plant adaptation and population differentiation between contaminated and noncontaminated environments. In this study, two populations of Dianthus carthusianorum, one originating from Zn-Pb waste deposit (a metallicolous population, M) and the other from unpolluted soil (a nonmetallicolous population, NM), were analyzed in respect of their morphological and physiological traits as well as genetic markers. It was found that the plants inhabiting the waste heap differed significantly from the NM plants in terms of leaf size and shape, and these differences were persistent between the first generation of the plants of both populations cultivated under uniform, controlled laboratory conditions. In contrast with the evident morphological differences, no significant differentiation between the populations regarding the physiological traits measured (accumulation of proline, anthocyanins, chlorophyll, carotenoids) was found. These traits can be regarded as neither population specific nor stress markers. The genetic variability was analyzed using 17 random amplified polymorphic DNA (RAPD) and four inter simple sequence repeat (ISSR) markers; this proved that the differentiation between the M and NM populations exists also at the genetic level. Analysis of molecular variance (AMOVA) showed that 24% of the total genetic diversity resided among populations, while 76% - within the populations. However, no significant differences in intrapopulation genetic diversity (Hj) between the M and NM populations of D. carthusianorum was found, which contradicts the theory that acquisition of adaptation mechanisms to adverse, isolated growth habitats is related to reduction in genetic diversity. Distinct genetic differences between the two

Carotid artery B-mode ultrasound image segmentation based on morphology, geometry and gradient direction

Science.gov (United States)

Sunarya, I. Made Gede; Yuniarno, Eko Mulyanto; Purnomo, Mauridhi Hery; Sardjono, Tri Arief; Sunu, Ismoyo; Purnama, I. Ketut Eddy

2017-06-01

Carotid Artery (CA) is one of the vital organs in the human body. CA features that can be used are position, size and volume. Position feature can used to determine the preliminary initialization of the tracking. Examination of the CA features can use Ultrasound. Ultrasound imaging can be operated dependently by an skilled operator, hence there could be some differences in the images result obtained by two or more different operators. This can affect the process of determining of CA. To reduce the level of subjectivity among operators, it can determine the position of the CA automatically. In this study, the proposed method is to segment CA in B-Mode Ultrasound Image based on morphology, geometry and gradient direction. This study consists of three steps, the data collection, preprocessing and artery segmentation. The data used in this study were taken directly by the researchers and taken from the Brno university's signal processing lab database. Each data set contains 100 carotid artery B-Mode ultrasound image. Artery is modeled using ellipse with center c, major axis a and minor axis b. The proposed method has a high value on each data set, 97% (data set 1), 73 % (data set 2), 87% (data set 3). This segmentation results will then be used in the process of tracking the CA.

Morphology and physiology of the epiphyseal growth plate.

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Robert Klepacz

2009-05-01

Full Text Available The epiphyseal growth plate develops from the cartilaginous-orientated mesenchymal cells that express SOX family genes. This multilayer structure is formed by the proliferation and hypertrophy of cells that synthesize the extracellular matrix composed of collagen (mainly type II, IX, X, XI and proteoglycans (aggrecan, decorin, annexin II, V and VI. The resting zone is responsible for protein synthesis and maintaining a germinal structure. In the proliferative zone, cells rapidly duplicate. The subsequent morphological changes take place in the transformation zone, divided into the upper and lower hypertrophic layers. In the degenerative zone, the mineralization process becomes intensive due to increased release of alkaline phosphate, calcium and matrix vesicles by terminally differentiated chondrocytes and some other factors e.g., metaphyseal ingrowth vessels. At this level, as well as in the primary and secondary spongiosa zones, chondrocytes undergo apoptosis and are physiologically eliminated. Unlike adult cartilage, in fetal and early formed growth plates, unusual forms such as authophagal bodies, paralysis and dark chondrocytes were also observed. Their ultrastructure differs greatly from apoptotic and normal cartilage cells. Chondrocyte proliferation and differentiation are regulated by various endocrine, paracrine, and autocrine agents such as growth, thyroid and sex hormones, beta-catenin, bone morphogenetic proteins, insulin-like growth factor, iodothyronine deiodinase, leptin, nitric oxide, transforming growth factor beta and vitamin D metabolites. However, the most significant factor is parathyroid hormone-related protein (PTHrP which is synthesized in the perichondrium by terminally differentiated chondrocytes. Secondary to activation of PTH/PTHrP receptors, PTHrP stimulates cell proliferation by G protein activation and delays their transformation into prehypertrophic and hypertrophic chondrocytes. When proliferation is completed

Rice Physiology

Science.gov (United States)

P.A. Counce; Davidi R. Gealy; Shi-Jean Susana Sung

2002-01-01

Physiology occurs tn physical space through chemical reactions constrained by anatomy and morphology, yet guided by genetics. Physiology has been called the logic of life. Genes encode structural and fimcdonal proteins. These proteins are subsequently processed to produce enzymes that direct and govern the biomechanical processes involved in the physiology of the...

Synchrotron imaging of the grasshopper tracheal system : morphological and physiological components of tracheal hypermetry.

Energy Technology Data Exchange (ETDEWEB)

Greenlee, K. J.; Henry, J. R.; Kirkton, S. D.; Westneat, M. W.; Fezzaa, K.; Lee, W.; Harrison, J. F.; North Dakota State Univ.; Arizona State Univ.; Union Coll.; Field Museum of Natural History

2009-11-01

As grasshoppers increase in size during ontogeny, they have mass specifically greater whole body tracheal and tidal volumes and ventilation than predicted by an isometric relationship with body mass and body volume. However, the morphological and physiological bases to this respiratory hypermetry are unknown. In this study, we use synchrotron imaging to demonstrate that tracheal hypermetry in developing grasshoppers (Schistocerca americana) is due to increases in air sacs and tracheae and occurs in all three body segments, providing evidence against the hypothesis that hypermetry is due to gaining flight ability. We also assessed the scaling of air sac structure and function by assessing volume changes of focal abdominal air sacs. Ventilatory frequencies increased in larger animals during hypoxia (5% O{sub 2}) but did not scale in normoxia. For grasshoppers in normoxia, inflated and deflated air sac volumes and ventilation scaled hypermetrically. During hypoxia (5% O{sub 2}), many grasshoppers compressed air sacs nearly completely regardless of body size, and air sac volumes scaled isometrically. Together, these results demonstrate that whole body tracheal hypermetry and enhanced ventilation in larger/older grasshoppers are primarily due to proportionally larger air sacs and higher ventilation frequencies in larger animals during hypoxia. Prior studies showed reduced whole body tracheal volumes and tidal volume in late-stage grasshoppers, suggesting that tissue growth compresses air sacs. In contrast, we found that inflated volumes, percent volume changes, and ventilation were identical in abdominal air sacs of late-stage fifth instar and early-stage animals, suggesting that decreasing volume of the tracheal system later in the instar occurs in other body regions that have harder exoskeleton.

Synchrotron imaging of the grasshopper tracheal system: morphological and physiological components of tracheal hypermetry

International Nuclear Information System (INIS)

Greenlee, K.J.; Henry, J.R.; Kirkton, S.D.; Westneat, M.W.; Fezzaa, K.; Lee, W.; Harrison, J.F.

2009-01-01

As grasshoppers increase in size during ontogeny, they have mass specifically greater whole body tracheal and tidal volumes and ventilation than predicted by an isometric relationship with body mass and body volume. However, the morphological and physiological bases to this respiratory hypermetry are unknown. In this study, we use synchrotron imaging to demonstrate that tracheal hypermetry in developing grasshoppers (Schistocerca americana) is due to increases in air sacs and tracheae and occurs in all three body segments, providing evidence against the hypothesis that hypermetry is due to gaining flight ability. We also assessed the scaling of air sac structure and function by assessing volume changes of focal abdominal air sacs. Ventilatory frequencies increased in larger animals during hypoxia (5% O 2 ) but did not scale in normoxia. For grasshoppers in normoxia, inflated and deflated air sac volumes and ventilation scaled hypermetrically. During hypoxia (5% O 2 ), many grasshoppers compressed air sacs nearly completely regardless of body size, and air sac volumes scaled isometrically. Together, these results demonstrate that whole body tracheal hypermetry and enhanced ventilation in larger/older grasshoppers are primarily due to proportionally larger air sacs and higher ventilation frequencies in larger animals during hypoxia. Prior studies showed reduced whole body tracheal volumes and tidal volume in late-stage grasshoppers, suggesting that tissue growth compresses air sacs. In contrast, we found that inflated volumes, percent volume changes, and ventilation were identical in abdominal air sacs of late-stage fifth instar and early-stage animals, suggesting that decreasing volume of the tracheal system later in the instar occurs in other body regions that have harder exoskeleton.

Correlating yeast cell stress physiology to changes in the cell surface morphology: atomic force microscopic studies.

Science.gov (United States)

Canetta, Elisabetta; Walker, Graeme M; Adya, Ashok K

2006-07-06

Atomic Force Microscopy (AFM) has emerged as a powerful biophysical tool in biotechnology and medicine to investigate the morphological, physical, and mechanical properties of yeasts and other biological systems. However, properties such as, yeasts' response to environmental stresses, metabolic activities of pathogenic yeasts, cell-cell/cell-substrate adhesion, and cell-flocculation have rarely been investigated so far by using biophysical tools. Our recent results obtained by AFM on one strain each of Saccharomyces cerevisiae and Schizosaccharomyces pombe show a clear correlation between the physiology of environmentally stressed yeasts and the changes in their surface morphology. The future directions of the AFM related techniques in relation to yeasts are also discussed.

Assessment of the relationship between morphological emphysema phenotype and corresponding pulmonary perfusion pattern on a segmental level

International Nuclear Information System (INIS)

Bryant, Mark; Kauczor, Hans-Ulrich; Ley, Sebastian; Eberhardt, Ralf; Herth, Felix; Menezes, Ravi; Sedlaczek, Oliver; Ley-Zaporozhan, Julia

2015-01-01

Distinct morphological emphysema phenotypes were assessed by CT to show characteristic perfusion defect patterns. Forty-one patients with severe emphysema (GOLD III/IV) underwent three-dimensional high resolution computed tomography (3D-HRCT) and contrast-enhanced magnetic resonance (MR) perfusion. 3D-HRCT data was visually analyzed for emphysema phenotyping and quantification by consensus of three experts in chest-radiology. The predominant phenotype per segment was categorized as normal, centrilobular, panlobular or paraseptal. Segmental lung perfusion was visually analyzed using six patterns of pulmonary perfusion (1-normal; 2-mild homogeneous reduction in perfusion; 3-heterogeneous perfusion without focal defects; 4-heterogeneous perfusion with focal defects; 5-heterogeneous absence of perfusion; 6-homogeneous absence of perfusion), with the extent of the defect given as a percentage. 730 segments were evaluated. CT categorized 566 (78 %) as centrilobular, 159 (22 %) as panlobular and 5 (<1 %) as paraseptal with no normals. Scores with regards to MR perfusion patterns were: 1-0; 2-0; 3-28 (4 %); 4-425 (58 %); 5-169 (23 %); 6-108 (15 %). The predominant perfusion pattern matched as follows: 70 % centrilobular emphysema - heterogeneous perfusion with focal defects (score 4); 42 % panlobular - homogeneous absence of perfusion (score 5); and 43 % panlobular - heterogeneous absence of perfusion (score 6). MR pulmonary perfusion patterns correlate with the CT phenotype at a segmental level in patients with severe emphysema. (orig.)

Assessment of the relationship between morphological emphysema phenotype and corresponding pulmonary perfusion pattern on a segmental level

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Bryant, Mark; Kauczor, Hans-Ulrich [University of Heidelberg, Department of Diagnostic and Interventional Radiology, Heidelberg (Germany); Member of German Lung Research Center DZL, Translational Lung Research Center TLRC-H, Heidelberg (Germany); Ley, Sebastian [Chirurgische Klinik Dr. Rinecker, Department of Diagnostic and Interventional Radiology, Munich (Germany); Ludwig Maximilians University, Department of Clinical Radiology, Munich (Germany); Eberhardt, Ralf; Herth, Felix [Thoraxklinik University of Heidelberg, Department of Pneumology and Critical Care Medicine, Heidelberg (Germany); Member of German Lung Research Center DZL, Translational Lung Research Center TLRC-H, Heidelberg (Germany); Menezes, Ravi [University of Toronto, Medical Imaging, Toronto (Canada); Sedlaczek, Oliver [University of Heidelberg, Department of Diagnostic and Interventional Radiology, Heidelberg (Germany); German Cancer Research Center, Department of Radiology, Heidelberg (Germany); Member of German Lung Research Center DZL, Translational Lung Research Center TLRC-H, Heidelberg (Germany); Ley-Zaporozhan, Julia [University of Heidelberg, Department of Diagnostic and Interventional Radiology, Heidelberg (Germany); Ludwig Maximilians University, Department of Clinical Radiology, Munich (Germany)

2015-01-15

Distinct morphological emphysema phenotypes were assessed by CT to show characteristic perfusion defect patterns. Forty-one patients with severe emphysema (GOLD III/IV) underwent three-dimensional high resolution computed tomography (3D-HRCT) and contrast-enhanced magnetic resonance (MR) perfusion. 3D-HRCT data was visually analyzed for emphysema phenotyping and quantification by consensus of three experts in chest-radiology. The predominant phenotype per segment was categorized as normal, centrilobular, panlobular or paraseptal. Segmental lung perfusion was visually analyzed using six patterns of pulmonary perfusion (1-normal; 2-mild homogeneous reduction in perfusion; 3-heterogeneous perfusion without focal defects; 4-heterogeneous perfusion with focal defects; 5-heterogeneous absence of perfusion; 6-homogeneous absence of perfusion), with the extent of the defect given as a percentage. 730 segments were evaluated. CT categorized 566 (78 %) as centrilobular, 159 (22 %) as panlobular and 5 (<1 %) as paraseptal with no normals. Scores with regards to MR perfusion patterns were: 1-0; 2-0; 3-28 (4 %); 4-425 (58 %); 5-169 (23 %); 6-108 (15 %). The predominant perfusion pattern matched as follows: 70 % centrilobular emphysema - heterogeneous perfusion with focal defects (score 4); 42 % panlobular - homogeneous absence of perfusion (score 5); and 43 % panlobular - heterogeneous absence of perfusion (score 6). MR pulmonary perfusion patterns correlate with the CT phenotype at a segmental level in patients with severe emphysema. (orig.)

Leaf Physiological and Morphological Responses to Shade in Grass-Stage Seedlings and Young Trees of Longleaf Pine

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Lisa J. Samuelson

2012-08-01

Full Text Available Longleaf pine has been classified as very shade intolerant but leaf physiological plasticity to light is not well understood, especially given longleaf pine’s persistent seedling grass stage. We examined leaf morphological and physiological responses to light in one-year-old grass-stage seedlings and young trees ranging in height from 4.6 m to 6.3 m to test the hypothesis that young longleaf pine would demonstrate leaf phenotypic plasticity to light environment. Seedlings were grown in a greenhouse under ambient levels of photosynthetically active radiation (PAR or a 50% reduction in ambient PAR and whole branches of trees were shaded to provide a 50% reduction in ambient PAR. In seedlings, shading reduced leaf mass per unit area (LMA, the light compensation point, and leaf dark respiration (R_D, and increased the ratio of light-saturated photosynthesis to R_D and chlorophyll b and total chlorophyll expressed per unit leaf dry weight. In trees, shading reduced LMA, increased chlorophyll a, chlorophyll b and total chlorophyll on a leaf dry weight basis, and increased allocation of total foliar nitrogen to chlorophyll nitrogen. Changes in leaf morphological and physiological traits indicate a degree of shade tolerance that may have implications for even and uneven-aged management of longleaf pine.

The Reproductive Morphology and Physiological Age Grading of the Female Salvinia Weevil, Calder and Sands

OpenAIRE

Lee Eisenberg; Seth Johnson; Michael J Grodowitz

2018-01-01

The morphology of the female Cyrtobagous salviniae Calder and Sands reproductive system is similar to other weevil species being meroistic and telotrophic. The reproductive system is composed of 2 ovaries each containing 2 ovarioles where the follicles mature. A physiological age grading system was developed where the continuum of ovarium development was divided into 2 nulliparous and 3 parous classes. This was based on the differentiation of the ovarioles, presence, and appearance of follicu...

Automatic segmentation of the left ventricle in a cardiac MR short axis image using blind morphological operation

Science.gov (United States)

Irshad, Mehreen; Muhammad, Nazeer; Sharif, Muhammad; Yasmeen, Mussarat

2018-04-01

Conventionally, cardiac MR image analysis is done manually. Automatic examination for analyzing images can replace the monotonous tasks of massive amounts of data to analyze the global and regional functions of the cardiac left ventricle (LV). This task is performed using MR images to calculate the analytic cardiac parameter like end-systolic volume, end-diastolic volume, ejection fraction, and myocardial mass, respectively. These analytic parameters depend upon genuine delineation of epicardial, endocardial, papillary muscle, and trabeculations contours. In this paper, we propose an automatic segmentation method using the sum of absolute differences technique to localize the left ventricle. Blind morphological operations are proposed to segment and detect the LV contours of the epicardium and endocardium, automatically. We test the benchmark Sunny Brook dataset for evaluation of the proposed work. Contours of epicardium and endocardium are compared quantitatively to determine contour's accuracy and observe high matching values. Similarity or overlapping of an automatic examination to the given ground truth analysis by an expert are observed with high accuracy as with an index value of 91.30% . The proposed method for automatic segmentation gives better performance relative to existing techniques in terms of accuracy.

Morphological and physiological features of Arthroderma benhamiae anamorphs isolated in northern Germany.

Science.gov (United States)

Brasch, Jochen; Wodarg, Svea

2015-02-01

The anamorph of Arthroderma benhamiae is an upcoming zoophilic dermatophyte that only in recent years has gained importance as a cause of tinea in humans. Its identification by conventional methods can cause problems. In this study we have subjected seven genetically confirmed strains of A. benhamiae anamorphs from northern Germany recently identified in our laboratory to a comprehensive assessment. Their macroscopic and microscopic morphology was checked on various agars and enzyme release stimulated by substrates with keratin, hair perforation and other physiological characteristics were tested. All strains were related to the previously described yellow phenotype of the A. benhamiae anamorph and showed a high resemblance among themselves. Coherent features were their uniform thallus morphology on Sabouraud glucose agar with yellow pigmentation, the formation of circuit-like hyphal structures and hyphal connections that had not been described previously, a lack of conidia, thiamine dependence, the spectrum of released enzymes and a good growth on human stratum corneum. With exception of the latter two these criteria are suggested for the identification of this anamorph phenotype that should be evaluated by future observations. Different phenotypes of the A. benhamiae anamorph may prevail in other geographic regions. © 2014 Blackwell Verlag GmbH.

Assessing Morphological and Physiological Properties of Forest Species Using High Throughput Plant Phenotyping and Imaging Techniques

Science.gov (United States)

Mazis, A.; Hiller, J.; Morgan, P.; Awada, T.; Stoerger, V.

2017-12-01

High throughput plant phenotyping is increasingly being used to assess morphological and biophysical traits of economically important crops in agriculture. In this study, the potential application of this technique in natural resources management, through the characterization of woody plants regeneration, establishment, growth, and responses to water and nutrient manipulations was assessed. Two woody species were selected for this study, Quercus prinoides and Quercus bicolor. Seeds were collected from trees growing at the edge of their natural distribution in Nebraska and Missouri, USA. Seeds were germinated in the greenhouse and transferred to the Nebraska Innovation Campus Lemnatec3D High Throughput facility at the University of Nebraska-Lincoln. Seedlings subjected to water and N manipulations, were imaged twice or three times a week using four cameras (Visible, Fluorescence, Infrared and Hyperspectral), throughout the growing season. Traditional leaf to plant levels ecophysiological measurements were concurrently acquired to assess the relationship between these two techniques. These include gas exchange (LI 6400 and LI 6800, LICOR Inc., Lincoln NE), chlorophyll content, optical characteristics (Ocean Optics USB200), water and osmotic potentials, leaf area and weight and carbon isotope ratio. In the presentation, we highlight results on the potential use of high throughput plant phenotyping techniques to assess the morphology and physiology of woody species including responses to water availability and nutrient manipulation, and its broader application under field conditions and natural resources management. Also, we explore the different capabilities imaging provides us for modeling the plant physiological and morphological growth and how it can complement the current techniques

Medical Image Segmentation using the HSI color space and Fuzzy Mathematical Morphology

Science.gov (United States)

Gasparri, J. P.; Bouchet, A.; Abras, G.; Ballarin, V.; Pastore, J. I.

2011-12-01

Diabetic retinopathy is the most common cause of blindness among the active population in developed countries. An early ophthalmologic examination followed by proper treatment can prevent blindness. The purpose of this work is develop an automated method for segmentation the vasculature in retinal images in order to assist the expert in the evolution of a specific treatment or in the diagnosis of a potential pathology. Since the HSI space has the ability to separate the intensity of the intrinsic color information, its use is recommended for the digital processing images when they are affected by lighting changes, characteristic of the images under study. By the application of color filters, is achieved artificially change the tone of blood vessels, to better distinguish them from the bottom. This technique, combined with the application of fuzzy mathematical morphology tools as the Top-Hat transformation, creates images of the retina, where vascular branches are markedly enhanced over the original. These images provide the visualization of blood vessels by the specialist.

Medical Image Segmentation using the HSI color space and Fuzzy Mathematical Morphology

International Nuclear Information System (INIS)

Gasparri, J P; Bouchet, A; Abras, G; Ballarin, V; Pastore, J I

2011-01-01

Diabetic retinopathy is the most common cause of blindness among the active population in developed countries. An early ophthalmologic examination followed by proper treatment can prevent blindness. The purpose of this work is develop an automated method for segmentation the vasculature in retinal images in order to assist the expert in the evolution of a specific treatment or in the diagnosis of a potential pathology. Since the HSI space has the ability to separate the intensity of the intrinsic color information, its use is recommended for the digital processing images when they are affected by lighting changes, characteristic of the images under study. By the application of color filters, is achieved artificially change the tone of blood vessels, to better distinguish them from the bottom. This technique, combined with the application of fuzzy mathematical morphology tools as the Top-Hat transformation, creates images of the retina, where vascular branches are markedly enhanced over the original. These images provide the visualization of blood vessels by the specialist.

Morphology targets: What do seedling morphological attributes tell us?

Science.gov (United States)

Jeremiah R. Pinto

2011-01-01

Morphology is classically defined as the form and structure of individual organisms, as distinct from their anatomy or physiology. We use morphological targets in the nursery because they are easy to measure, and because we can often quantitatively link seedling morphological traits with survival and growth performance in the field. In the 20 years since the Target...

Morphology, Physiology, and Anatomy of Penny Fern (Drymoglossum phyloselloidesand Its Effect on Cocoa

Directory of Open Access Journals (Sweden)

Fitria Yuliasmara

2013-08-01

Full Text Available This study aims to determine the anatomy, physiology and morphology of penny fern (Drimoglosum phylloseloides and its effect on cocoa. Morphological observation of penny fern used microscope to observe the roots, stems, leaves and spores. Physiology of penny fern was observed based on number of stomata and stomatal conductance using stomata printing method, while the amount of chlorophyll based on spectrophotometric method and rate of transpiration used cobalt chloride paper. Penny fern anatomy on cross-sectional and longitudinal in roots, stems and leaves. Penny fern growth was observed based the length of tendrils once a week during rainy and dry season. While the effect of penny fern invasion was observed based on variable leaf area with gravimetric method, the cross-section of attacked cacao branch using microtom and microscope and chlorophyll content by chlorophyll meter. Results showed that penny fern is a epiphytic weed which was crassulaceae acid metabolism plants that have the ability to absorb carbon dioxide at night and carry out photosynthesis during the day with closed stomata. Penny ferns reproduce using spores. The growth rate of penny fern 2.18 cm/week during the dry season and while in rainy season 3.89 cm/week. Penny fern leaf contains 0.0212 mg/g chlorophyll. Penny fern stomata density was 18.33/mm 2 with a width of opening stomata at night 26.3 µm which caused a veryslow rate of transpiration of 0.69 mm 2 /seconds. The existence penny fern on cocoa decreased leaf area and chlorophyll content decreased crop productivity which was indicated by decreasing in number of flowers, number of small, medium fruit, and large pods. However it had no effect on the number of leaves on one side flush cocoa. Key words: Drimoglosum phylloseloides, weeds, decrease productivity, Theobroma cacao

Morphological, physiological and biochemical responses of camellia oleifera to low-temperature stress

International Nuclear Information System (INIS)

Hu, J.; Shu, Q.; Fu, S.; Wu, W.

2016-01-01

Camellia oleifera Abel originates from China and is high healthy effect food oil species. It is also a high additional plant in southern China and can help to keep some people of mountain area out of poverty. In recent years, climate change has been abnormal frequently. Abnormal low temperature in winter and late spring coldness may cause the hard hit to C. oleifera farmers. Freezing injury can be caused by sudden decreases in temperature in winter. However, C. oleifera varieties differ in their hardiness to low temperatures. The paper investigated cold-resistance mechanisms by determining and analyzing the morphological, physiological and biochemical characteristics of C. oleifera from eastern, western and southern Anhui, respectively. Sensitivity to low temperature was assessed via the number of leaves in spring shoots, leaf thickness, the activities of protective enzymes such as CAT, POD and SOD, and the inclusion contents of WSS, FPro, MDA, benzene-alcohol extracts and lignin. The results showed that C. oleifera varieties had different physiological and biochemical, and morphological responses to low winter temperatures. In different regions, the number of leaves, leaf thickness, WSS content, FPro content and MDA content varied from 5.2-7.8, 398.79 micro m-465.27 micro m, 23.41 mg/g-24.74 mg/g, 41.86 micro g/g-44.18 micro g/g and 10.08 micro mol/g-14.51 micro mol/g, respectively. The varieties from eastern Anhui, the leaf thickness were thicker. Meanwhile, the protective enzyme activities and inclusion contents were relatively higher. The protective enzyme activities and chemical components contents such as benzene-alcohol extract and lignin represented significantly difference (p<0.05) among three regions. In the future, for the abnormal low temperature in winter, a serious of cultivation measures such as improving the contents of WSS, FPro, benzene-alcohol extract and lignin, were taken to enhance the cold resistance of C. oleifera. The result broadens the

Plant Survival and Mortality during Drought Can be Mediated by Co-occurring Species' Physiological and Morphological Traits: Results from a Model

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Tai, X.; Mackay, D. S.

2015-12-01

Interactions among co-occurring species are mediated by plant physiology, morphology and environment. Without proper mechanisms to account for these factors, it remains difficult to predict plant mortality/survival under changing climate. A plant ecophysiological model, TREES, was extended to incorporate co-occurring species' belowground interaction for water. We used it to examine the interaction between two commonly co-occurring species during drought experiment, pine (Pinus edulis) and juniper (Juniperus monosperma), with contrasting physiological traits (vulnerability to cavitation and leaf water potential regulation). TREES was parameterized and validated using field-measured plant physiological traits. The root architecture (depth, profile, and root area to leaf area ratio) of juniper was adjusted to see how root morphology could affect the survival/mortality of its neighboring pine under both ambient and drought conditions. Drought suppressed plant water and carbon uptake, as well increased the average percentage loss of conductivity (PLC). Pine had 59% reduction in water uptake, 48% reduction in carbon uptake, and 38% increase in PLC, while juniper had 56% reduction in water uptake, 50% reduction in carbon and 29% increase in PLC, suggesting different vulnerability to drought as mediated by plant physiological traits. Variations in juniper root architecture further mediated drought stress on pine, from negative to positive. Different juniper root architecture caused variations in response of pine over drought (water uptake reduction ranged 0% ~63%, carbon uptake reduction ranged 0% ~ 70%, and PLC increase ranged 2% ~ 91%). Deeper or more uniformly distributed roots of juniper could effectively mitigate stress experienced by pine. In addition, the total water and carbon uptake tended to increase as the ratio of root area to leaf area increased while PLC showed non-monotonic response, suggesting the potential trade-off between maximizing resource uptake and

3D marker-controlled watershed for kidney segmentation in clinical CT exams.

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Wieclawek, Wojciech

2018-02-27

Image segmentation is an essential and non trivial task in computer vision and medical image analysis. Computed tomography (CT) is one of the most accessible medical examination techniques to visualize the interior of a patient's body. Among different computer-aided diagnostic systems, the applications dedicated to kidney segmentation represent a relatively small group. In addition, literature solutions are verified on relatively small databases. The goal of this research is to develop a novel algorithm for fully automated kidney segmentation. This approach is designed for large database analysis including both physiological and pathological cases. This study presents a 3D marker-controlled watershed transform developed and employed for fully automated CT kidney segmentation. The original and the most complex step in the current proposition is an automatic generation of 3D marker images. The final kidney segmentation step is an analysis of the labelled image obtained from marker-controlled watershed transform. It consists of morphological operations and shape analysis. The implementation is conducted in a MATLAB environment, Version 2017a, using i.a. Image Processing Toolbox. 170 clinical CT abdominal studies have been subjected to the analysis. The dataset includes normal as well as various pathological cases (agenesis, renal cysts, tumors, renal cell carcinoma, kidney cirrhosis, partial or radical nephrectomy, hematoma and nephrolithiasis). Manual and semi-automated delineations have been used as a gold standard. Wieclawek Among 67 delineated medical cases, 62 cases are 'Very good', whereas only 5 are 'Good' according to Cohen's Kappa interpretation. The segmentation results show that mean values of Sensitivity, Specificity, Dice, Jaccard, Cohen's Kappa and Accuracy are 90.29, 99.96, 91.68, 85.04, 91.62 and 99.89% respectively. All 170 medical cases (with and without outlines) have been classified by three independent medical experts as 'Very good' in 143

Morphology and segmentation of the western Galápagos Spreading Center, 90.5°-98°W: Plume-ridge interaction at an intermediate spreading ridge

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Sinton, John; Detrick, Robert; Canales, J. Pablo; Ito, Garrett; Behn, Mark

2003-12-01

Complete multibeam bathymetric coverage of the western Galápagos Spreading Center (GSC) between 90.5°W and 98°W reveals the fine-scale morphology, segmentation and influence of the Galápagos hot spot on this intermediate spreading ridge. The western GSC comprises three morphologically defined provinces: A Western Province, located farthest from the Galápagos hot spot west of 95°30'W, is characterized by an axial deep, rift valley morphology with individual, overlapping, E-W striking segments separated by non-transform offsets; A Middle Province, between the propagating rift tips at 93°15'W and 95°30'W, with transitional axial morphology strikes ˜276°; An Eastern Province, closest to the Galápagos hot spot between the ˜90°50'W Galápagos Transform and 93°15'W, with an axial high morphology generally less than 1800 m deep, strikes ˜280°. At a finer scale, the axial region consists of 32 individual segments defined on the basis of smaller, mainly lower overall magma supply and larger offset distance at the latter. The structure of the Eastern Province is complicated by the intersection of a series of volcanic lineaments that appear to radiate away from a point located on the northern edge of the Galápagos platform, close to the southern limit of the Galápagos Fracture Zone. Where these lineaments intersect the GSC, the ridge axis is displaced to the south through a series of overlapping spreading centers (OSCs); abandoned OSC limbs lie even farther south. We propose that southward displacement of the axis is promoted during intermittent times of increased plume activity, when lithospheric zones of weakness become volcanically active. Following cessation of the increased plume activity, the axis straightens by decapitating southernmost OSC limbs during short-lived propagation events. This process contributes to the number of right stepping offsets in the Eastern Province.

Diversity evaluation based on morphological, physiological and isozyme variation in genetic resources of garlic (Allium sativum L.) collected worldwide.

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Hirata, Sho; Abdelrahman, Mostafa; Yamauchi, Naoki; Shigyo, Masayoshi

2016-11-26

The aim of this study was to obtain primary information about the global diversity of garlic (Allium sativum L.) by evaluating morphological, physiological and isozyme variation. A total of 107 garlic accessions collected worldwide were grown in Yamaguchi, Japan. Five morphological traits (bulb weight, bulb diameter, number of cloves per bulb, number of bulbils and scape length) and one physiological trait (bolting period) of the collected garlic showed wide variation. Meanwhile, a total of 140 garlic accessions, including the 107 mentioned above, were characterized by leucine aminopeptidase (LAP) and phosphoglucoisomerase (PGI) isozyme analyses; they clearly showed polymorphisms in putative isozyme loci (Lap-1, Lap-2 and Pgi-1). Allelic frequencies were estimated in each group of accessions categorized by their geographical origin, and the observed (H o ) and expected (H e ) heterozygosities were calculated. The allelic frequencies differed between groups. A principal component analysis based on morpho-physiological data indicated a grouping of the garlic accessions into Central Asian and Northern Mediterranean groups as well as others. We discuss the roles of artificial and natural selection that may have caused differentiation in these traits, on the assumption that ancestral domesticated garlic populations have adapted in various regions using standing variation or mutations that accumulated during expansion, and have evolved along with human-preferred traits over a long history of cultivation.

A correlative approach to segmenting phases and ferrite morphologies in transformation-induced plasticity steel using electron back-scattering diffraction and energy dispersive X-ray spectroscopy

Energy Technology Data Exchange (ETDEWEB)

Gazder, Azdiar A., E-mail: azdiar@uow.edu.au [Electron Microscopy Centre, University of Wollongong, New South Wales 2500 (Australia); Al-Harbi, Fayez; Spanke, Hendrik Th. [School of Mechanical, Materials and Mechatronic Engineering, University of Wollongong, New South Wales 2522 (Australia); Mitchell, David R.G. [Electron Microscopy Centre, University of Wollongong, New South Wales 2500 (Australia); Pereloma, Elena V. [Electron Microscopy Centre, University of Wollongong, New South Wales 2500 (Australia); School of Mechanical, Materials and Mechatronic Engineering, University of Wollongong, New South Wales 2522 (Australia)

2014-12-15

Using a combination of electron back-scattering diffraction and energy dispersive X-ray spectroscopy data, a segmentation procedure was developed to comprehensively distinguish austenite, martensite, polygonal ferrite, ferrite in granular bainite and bainitic ferrite laths in a thermo-mechanically processed low-Si, high-Al transformation-induced plasticity steel. The efficacy of the ferrite morphologies segmentation procedure was verified by transmission electron microscopy. The variation in carbon content between the ferrite in granular bainite and bainitic ferrite laths was explained on the basis of carbon partitioning during their growth. - Highlights: • Multi-condition segmentation of austenite, martensite, polygonal ferrite and ferrite in bainite. • Ferrites in granular bainite and bainitic ferrite segmented by variation in relative carbon counts. • Carbon partitioning during growth explains variation in carbon content of ferrites in bainites. • Developed EBSD image processing tools can be applied to the microstructures of a variety of alloys. • EBSD-based segmentation procedure verified by correlative TEM results.

Co-ordination of physiological and morphological responses of stomata to elevated [CO2] in vascular plants.

Science.gov (United States)

Haworth, Matthew; Elliott-Kingston, Caroline; McElwain, Jennifer C

2013-01-01

Plant stomata display a wide range of short-term behavioural and long-term morphological responses to atmospheric carbon dioxide concentration ([CO(2)]). The diversity of responses suggests that plants may have different strategies for controlling gas exchange, yet it is not known whether these strategies are co-ordinated in some way. Here, we test the hypothesis that there is co-ordination of physiological (via aperture change) and morphological (via stomatal density change) control of gas exchange by plants. We examined the response of stomatal conductance (G(s)) to instantaneous changes in external [CO(2)] (C(a)) in an evolutionary cross-section of vascular plants grown in atmospheres of elevated [CO(2)] (1,500 ppm) and sub-ambient [O(2)] (13.0 %) compared to control conditions (380 ppm CO(2), 20.9 % O(2)). We found that active control of stomatal aperture to [CO(2)] above current ambient levels was not restricted to angiosperms, occurring in the gymnosperms Lepidozamia peroffskyana and Nageia nagi. The angiosperm species analysed appeared to possess a greater respiratory demand for stomatal movement than gymnosperm species displaying active stomatal control. Those species with little or no control of stomatal aperture (termed passive) to C(a) were more likely to exhibit a reduction in stomatal density than species with active stomatal control when grown in atmospheres of elevated [CO(2)]. The relationship between the degree of stomatal aperture control to C(a) above ambient and the extent of any reduction in stomatal density may suggest the co-ordination of physiological and morphological responses of stomata to [CO(2)] in the optimisation of water use efficiency. This trade-off between stomatal control strategies may have developed due to selective pressures exerted by the costs associated with passive and active stomatal control.

Construction of chromosome segment substitution lines enables QTL mapping for flowering and morphological traits in Brassica rapa

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Xiaonan eLi

2015-06-01

Full Text Available Chromosome segment substitution lines (CSSLs represent a powerful method for precise quantitative trait loci (QTL detection of complex agronomical traits in plants. In this study, we used a marker-assisted backcrossing strategy to develop a population consisting of 63 CSSLs, derived from backcrossing of the F1 generated from a cross between two Brassica rapa subspecies: ‘Chiifu’ (ssp. pekinensis, the Brassica A genome-represented line used as the donor, and ‘49caixin’ (ssp. parachinensis, a non-heading cultivar used as the recipient. The 63 CSSLs covered 87.95% of the B. rapa genome. Among them, 39 lines carried a single segment; 15 lines, two segments; and nine lines, three or more segments of the donor parent chromosomes. To verify the potential advantage of these CSSL lines, we used them to locate QTL for six morphology-related traits. A total of 58 QTL were located on eight chromosomes for all six traits: 17 for flowering time, 14 each for bolting time and plant height, 6 for plant diameter, 2 for leaf width, and 5 for flowering stalk diameter. Co-localized QTL were mainly distributed on eight genomic regions in A01, A02, A05, A06, A08, A09, and A10, present in the corresponding CSSLs. Moreover, new chromosomal fragments that harbored QTL were identified using the findings of previous studies. The CSSL population constructed in our study paves the way for fine mapping and cloning of candidate genes involved in late bolting, flowering, and plant architecture-related traits in B. rapa. Furthermore, it has great potential for future marker-aided gene/QTL pyramiding of other interesting traits in B. rapa breeding.

Phytohormonal regulation of biomass allocation and morphological and physiological traits of leaves in response to environmental changes in Polygonum cuspidatum

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Daisuke Sugiura

2016-08-01

Full Text Available Plants plastically change their morphological and physiological traits in response to environmental changes, which are accompanied by changes in endogenous levels of phytohormones. Although roles of phytohormones in various aspects of plant growth and development were elucidated, their importance in the regulation of biomass allocation was not fully investigated. This study aimed to determine causal relationships among changes in biomass allocation, morphological and physiological traits, and endogenous levels of phytohormones such as gibberellins (GAs and cytokinins (CKs in response to environmental changes in Polygonum cuspidatum. Seedlings of P. cuspidatum were grown under two light intensities, each at three nitrogen availabilities. The seedlings grown in high light intensity and high nitrogen availability (HH were subjected to three additional treatments: defoliating half of the leaves (Def, transferral to low nitrogen availability (LowN or low light intensity (LowL. Biomass allocation at the whole-plant level, morphological and physiological traits of each leaf, and endogenous levels of phytohormones in each leaf and shoot apex were measured. Age-dependent changes in leaf traits were also investigated. After the treatments, endogenous levels of GAs in the shoot apex and leaves significantly increased in Def, decreased in LowN, and did not change in LowL compared with HH seedlings. Among all of the seedlings, the levels of GAs in the shoot apex and leaves were strongly correlated with biomass allocation ratio between leaves and roots. The levels of GAs in the youngest leaves were highest, while the levels of CKs were almost consistent in each leaf. The levels of CKs were positively correlated with leaf nitrogen content in each leaf, whereas the levels of GAs were negatively correlated with the total non-structural carbohydrate content in each leaf. These results support our hypothesis that GAs and CKs are key regulatory factors that control

Changes in anterior segment morphology in response to illumination and after laser iridotomy in Asian eyes: an anterior segment OCT study

Science.gov (United States)

See, Jovina L S; Chew, Paul T K; Smith, Scott D; Nolan, Winifred P; Chan, Yiong‐Huak; Huang, David; Zheng, Ce; Foster, Paul J; Aung, Tin; Friedman, David S

2007-01-01

Aim Using the anterior segment optical coherence tomography (AS‐OCT) to quantify changes in anterior segment morphology going from light to dark and following laser iridotomy (LI). Methods Prospective observational study. 17 consecutive subjects without peripheral anterior synechiae undergoing LI were evaluated using gonioscopy and AS‐OCT. Angle configuration including angle opening distance (AOD) at 500 microns anterior to the scleral spur, AOD500, trabecular‐iris space area up to 750 microns from the scleral spur, TISA750 and the increase in angle opening going from dark to light conditions was determined. Results Both mean AOD500 and TISA750 increased nearly threefold going from dark to light. Both also significantly increased following LI (p<0.001) as did gonioscopic grading of the angle in all quadrants (p<0.001, McNemar's test). Angles were more than twice as wide on average in the dark after LI than before LI (p<0.05). Both the mean absolute change and the mean proportionate change in AOD500 and TISA750 when going from light to dark were greater after LI than before (p<0.05). Conclusion Increased illumination as well as LI resulted in significant widening of the anterior chamber angle. AS‐OCT (which does not require a water bath and can be performed with the patient at the slit lamp) identified similar magnitude changes as those previously reported using ultrasound biomicroscopy (UBM). Furthermore, the angle appears to open more both in absolute terms and and proportionate terms in response to illumination after LI. PMID:17504852

Effects of eutrophic seawater and temperature on the physiology and morphology of Hypnea musciformis J. V. Lamouroux (Gigartinales, Rhodophyta).

Science.gov (United States)

de Faveri, Caroline; Schmidt, Éder C; Simioni, Carmem; Martins, Cintia D L; Bonomi-Barufi, José; Horta, Paulo A; Bouzon, Zenilda L

2015-07-01

As both food and source of a kappa-carrageenan, Hypnea musciformis represents a species of great economic interest. It also synthesizes substances with antiviral, anti-helminthic and anti-inflammatory potential and shows promise for use as a bioindicator of cadmium. In this study, we investigated the combined effects of seawater from three urbanized areas (area 1: natural runoff, NRA; area 2: urbanized runoff and sewage with treatment, RTA; area 3: urbanized runoff and untreated sewage, RUS) and three different temperatures (15, 25 and 30 °C) on the growth rate, photosynthetic efficiency, photosynthetic pigments and cell morphology of H. musciformis. After 4 days (96 h) of culture, the biomass of H. musciformis showed differences that fluctuated among the areas and temperature treatments. Specifically, the specimens cultivated in 35 °C had low values of ETRmax, α(ETR), β(ETR), and Fv/Fm photosynthetic parameters, as well as changes in cell morphology, with reduction in photosynthetic pigments and drastic reduction in growth rates. When combined with the extreme temperatures, high concentrations of ammonium ion in seawater effluent caused an inhibition of photosynthetic activity, as well as significant variation in chlorophyll a and carotenoid contents. As observed by light microscopy, the synergism between different temperatures and pollutants found in eutrophic waters caused changes in cellular morphology with increased cell wall thickening and decreased floridean starch grains. H. musciformis also showed important changes in physiological response to each factor independently, as well as changes resulting from the synergistic interaction of these factors combined. Therefore, we can conclude that extreme temperature combined with the effect of eutrophic waters, especially RUS, caused distinct morphological and physiological changes in the red alga H. musciformis.

[Anatomy, physiology and clinical relevance of the connecting tubule].

Science.gov (United States)

Miranda, N; Simeoni, M A; Ciriana, E; Panico, C; Cappello, E; Capasso, G B

2009-01-01

The cortical distal nephron is the site of fine regulation of salt and water excretion by peptide and mineralocorticoid hormones and the site for specific actions of diuretics. Some data suggest that sodium reabsorption and potassium secretion in the distal convoluted tubule and the connecting tubule (CNT) are sufficient to maintain the sodium and potassium balance, with little or no contribution of the collecting duct. The homeostatic role of the sodium and potassium transport systems in the collecting duct can be questioned, especially in conditions where dietary sodium intake is high and potassium intake is low compared with the physiological needs of the organism. The functional expression of epithelial sodium channels (ENaC) in the CNT is sufficient for furosemide-stimulated urinary acidification and identifies the CNT as a major segment in electrogenic urinary acidification. In the outer renal cortex, the CNT returns to the glomerular hilus and contacts the renal afferent arterioles (Af-Art). This morphology is compatible with a cross-talk between the CNT and Af-Art. This novel regulatory mechanism of the renal microcirculation may participate in the vasodilatation observed during high salt intake, perhaps by antagonizing tubuloglomerular feedback. In conclusion, the cortical distal nephron appears to be a complex site for several physiological mechanisms; it is mainly involved in salt and fluid homeostasis and in acid-base balance maintenance. Furthermore, the CNT segment appears to promote a CNT-Af-Art feedback loop.

Developmental light level affects growth, morphology, and leaf physiology of young carambola trees

International Nuclear Information System (INIS)

Marler, T.E.; Schaffer, B.; Crane, J.H.

1994-01-01

Growth and leaf physiology responses of container-grown 'Arkin' carambola (Averrhoa carambola L.) trees to long-term exposure of approximately 25%, approximately 50%, or 100% sunlight were studied in four experiments in Guam and Florida. Shading increased rachis length and leaflet area, and decreased leaflet thickness. Shaded trees also had a more horizontal branch orientation. Shading reduced dark respiration (Rd) and light compensation and saturation points but increased chlorophyll concentration and N-use efficiency. Light-saturated net CO2 assimilation (A) was not affected by developmental light level. Trees in full sun had smaller total leaf area, canopy diameter, and shoot:root ratio and exhibited leaflet movement to avoid direct solar radiation. Also, trees grown in 100% sunlight had a more vertical branch orientation and greater stomatal density than shaded trees. The ratio of variable to maximum fluorescence (Fv/Fm) declined during midday in 100% sunlight trees. This pattern was accompanied by a midday suppression of A in 100% sunlight-grown trees in Guam. 'Arkin' carambola trees exposed to approximately 25%, approximately 50%, or 100% sunlight for up to 39 weeks exhibited physiological and morphological adaptations that resulted in similar growth. These results indicate that carambola efficiently adapts to different developmental light intensities

Effects of ionizing radiation on the light sensing elements of the retina. [Structural and physiological effects of carbon, helium, and neon ions on rods and cones of salamanders and mice

Energy Technology Data Exchange (ETDEWEB)

Malachowski, M.J.

1978-07-01

This investigation was undertaken to quantitate possible morphological and physiological effects of particles of high linear energy transfer on the retina, in comparison with x-ray effects. The particles used were accelerated atomic nuclei of helium, carbon, and neon at kinetic energies of several hundred MeV/nucleon. For morphological studies, scanning and transmission electron microscopy and light microscopy were used. Physiological studies consisted of autoradiographic data of the rate of incorporation of labeled protein in the structures (opsin) of the outer segment of visual cells. Structural changes were found in the nuclei, as well as the inner and outer segments of visual cells, rods and cones. At a low dose of 10 rad, x rays and helium had no statistically significant morphological effects, but carbon and neon beams did cause significant degeneration of individual cells, pointing to the existence of a linear dose--effect relationship. At high doses of several hundred rads, a Pathologic Index determined the relative biological effectiveness of neon against alpha particles to have a value of greater than 6. The severity of effects per particle increased with atomic number. Labeling studies demonstrated a decreased rate of incorporation of labeled proteins in the structural organization of the outer segments of visual rods. The rate of self-renewal of visual rod discs was punctuated by irradiation and the structures themselves were depleted of amino acids. A model of rod discs (metabolic and catabolic) was postulated for correlated early and late effects to high and low doses.

Morphological characteristics of chronic total occlusion. Predictors of different strategies for long-segment femoral arterial occlusions

Energy Technology Data Exchange (ETDEWEB)

Wei, Li-Ming; Zhu, Yue-Qi; Zhang, Pei-Lei; Lu, Hai-Tao; Zhao, Jun-Gong [Shanghai Jiaotong University Affiliated Sixth People' s Hospital, Department of Diagnostic and Interventional Radiology, Shanghai (China); Liu, Fang [Shanghai Jiaotong University Affiliated Sixth People' s Hospital, Department of Endocrinology, Shanghai (China)

2018-03-15

To investigate morphological characteristics used to predict recanalisation strategies in long-segment (>10 cm) femoral chronic total occlusion (LSF-CTO) angioplasty. We retrospectively evaluated a range of morphological CTA and DSA features in patients who underwent recanalisation of LSF-CTO. The stage of CTO was classified into early (3-12 months) and late (>12 months) according to estimated duration. Characteristics including stump morphology, lesion length and calcification, proximal side branches, collaterals circulation, runoff vessels and concomitant arterial occlusion were used as predictors, and multivariate logistic regression analysis was performed to identify variables associated with late-stage CTO and retrograde technique. A total of 119 patients with 137 CTOs in 137 limbs were enrolled. Overall, successful recanalisation was achieved in 122 CTOs (89.1%). Flush occlusion [odds ratio (OR) 2.958; 95% confidence interval (CI) 1.172-7.465; p = 0.022], large collateral (OR 2.778; 95% CI 1.201-6.427; p = 0.017) and TransAtlantic Inter-Society Consensus II class D (TASC D) lesion (OR 1.743; 95% CI 1.019-2.981; p = 0.042) were predictors for late-stage CTO. Flush occlusion (OR 75.278; 95% CI 10.664-531.384; p < 0.001) and large collateral (OR 23.213; 95% CI 3.236-166.523; p = 0.002) were associated with high likelihood for retrograde approach. Flush occlusion and large collateral were associated with a CTO at late-stage which may require retrograde recanalisation. (orig.)

A fully automated cell segmentation and morphometric parameter system for quantifying corneal endothelial cell morphology.

Science.gov (United States)

Al-Fahdawi, Shumoos; Qahwaji, Rami; Al-Waisy, Alaa S; Ipson, Stanley; Ferdousi, Maryam; Malik, Rayaz A; Brahma, Arun

2018-07-01

Corneal endothelial cell abnormalities may be associated with a number of corneal and systemic diseases. Damage to the endothelial cells can significantly affect corneal transparency by altering hydration of the corneal stroma, which can lead to irreversible endothelial cell pathology requiring corneal transplantation. To date, quantitative analysis of endothelial cell abnormalities has been manually performed by ophthalmologists using time consuming and highly subjective semi-automatic tools, which require an operator interaction. We developed and applied a fully-automated and real-time system, termed the Corneal Endothelium Analysis System (CEAS) for the segmentation and computation of endothelial cells in images of the human cornea obtained by in vivo corneal confocal microscopy. First, a Fast Fourier Transform (FFT) Band-pass filter is applied to reduce noise and enhance the image quality to make the cells more visible. Secondly, endothelial cell boundaries are detected using watershed transformations and Voronoi tessellations to accurately quantify the morphological parameters of the human corneal endothelial cells. The performance of the automated segmentation system was tested against manually traced ground-truth images based on a database consisting of 40 corneal confocal endothelial cell images in terms of segmentation accuracy and obtained clinical features. In addition, the robustness and efficiency of the proposed CEAS system were compared with manually obtained cell densities using a separate database of 40 images from controls (n = 11), obese subjects (n = 16) and patients with diabetes (n = 13). The Pearson correlation coefficient between automated and manual endothelial cell densities is 0.9 (p system, and the possibility of utilizing it in a real world clinical setting to enable rapid diagnosis and for patient follow-up, with an execution time of only 6 seconds per image. Copyright © 2018 Elsevier B.V. All rights reserved.

Smoke produced from plants waste material elicits growth of wheat (Triticum aestivum L. by improving morphological, physiological and biochemical activity

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Muhammad Iqbal

2018-03-01

Full Text Available The experimental work presented in this study was carried out with the hypothesis that plant derived smoke enhanced the morphological, physiological and biochemical attributes of a cereal crop, wheat (Triticum aestivum L.. Furthermore, this study supported the hypothesis that plant derived smoke acts as vegetative growth promoter, inexpensive, rapid and most appropriate eco-friendly bio-fertilizer for sustainable agriculture. Plant derived smoke was generated by burning of plant material (leaf, straws etc in a specially designed furnace, and seeds were treated with this smoke for different time duration. Four level of plant derived smoke (1 h, 2 h, 3 h and 4 h along with control were tested on four wheat cultivars in CRD repeated pot experiment. The smoke-related treatments modified number of morphological, physiological and biochemical features of wheat. Compared with the control, aerosol smoke treatment of the seeds significantly improved root length (2.6%, shoot length (7.7%, RFW (0.04%, SFW (0.7%, SDW (0.1% and leaf area (63.9%. All the smoke-related treatments significantly promoted RWC (17.3%, water potential (1.5%, osmotic potential (1.4% and MSI (14.6% whereas a pronounced increase in chlorophyll a (24.9%, chlorophyll b (21.7% and total chlorophyll contents (15.5% were recorded in response to aerosol-smoke treatments. Plant derived smoke exposure applied for short time i.e. 1 h & 2 h induced significant results as compared to prolonged PDS exposure (3 h and 4 h. The best results were observed in Pak-13 and Glaxy-13 wheat cultivars. These findings indicated that the plant-derived smoke treatment has a great potential to improve morphological, physiological and biochemical features of wheat crop.

Ethylene and the Regulation of Physiological and Morphological Responses to Nutrient Deficiencies

Science.gov (United States)

García, María José; Romera, Francisco Javier; Lucena, Carlos; Alcántara, Esteban; Pérez-Vicente, Rafael

2015-01-01

To cope with nutrient deficiencies, plants develop both morphological and physiological responses. The regulation of these responses is not totally understood, but some hormones and signaling substances have been implicated. It was suggested several years ago that ethylene participates in the regulation of responses to iron and phosphorous deficiency. More recently, its role has been extended to other deficiencies, such as potassium, sulfur, and others. The role of ethylene in so many deficiencies suggests that, to confer specificity to the different responses, it should act through different transduction pathways and/or in conjunction with other signals. In this update, the data supporting a role for ethylene in the regulation of responses to different nutrient deficiencies will be reviewed. In addition, the results suggesting the action of ethylene through different transduction pathways and its interaction with other hormones and signaling substances will be discussed. PMID:26175512

Effects of shading on morphology, physiology and grain yield of winter wheat

DEFF Research Database (Denmark)

Li, Huawei; Jiang, Dong; Wollenweber, Bernd

2010-01-01

In a field experiment, winter wheat (Triticum aestivum L.) cultivars Yangmai 158 (YM 158, shading tolerant) and Yangmai 11 (YM 11, shading-sensitive) were subjected to shading between jointing and maturity. Three shading treatments were applied, i.e. 92% (S1), 85% (S2) and 77% (S3) of full...... the shading treatments applied, leaf area index, length of the peduncle internode, area of the upper leaves and content of pigments increased, which favoured efficient light capture. Shading modified light quality in the canopy as indicated by increases of diffuse- and blue light fractions and a reduction...... the flag leaf, as in most cases Pn of the third and the penultimate leaves were found to increase under shading treatments. Shading increased the redistribution of dry matter from vegetative organs into grains. The responses of the morphological and physiological traits to shading are discussed in relation...

Impact of image segmentation on high-content screening data quality for SK-BR-3 cells

Directory of Open Access Journals (Sweden)

Li Yizheng

2007-09-01

Full Text Available Abstract Background High content screening (HCS is a powerful method for the exploration of cellular signalling and morphology that is rapidly being adopted in cancer research. HCS uses automated microscopy to collect images of cultured cells. The images are subjected to segmentation algorithms to identify cellular structures and quantitate their morphology, for hundreds to millions of individual cells. However, image analysis may be imperfect, especially for "HCS-unfriendly" cell lines whose morphology is not well handled by current image segmentation algorithms. We asked if segmentation errors were common for a clinically relevant cell line, if such errors had measurable effects on the data, and if HCS data could be improved by automated identification of well-segmented cells. Results Cases of poor cell body segmentation occurred frequently for the SK-BR-3 cell line. We trained classifiers to identify SK-BR-3 cells that were well segmented. On an independent test set created by human review of cell images, our optimal support-vector machine classifier identified well-segmented cells with 81% accuracy. The dose responses of morphological features were measurably different in well- and poorly-segmented populations. Elimination of the poorly-segmented cell population increased the purity of DNA content distributions, while appropriately retaining biological heterogeneity, and simultaneously increasing our ability to resolve specific morphological changes in perturbed cells. Conclusion Image segmentation has a measurable impact on HCS data. The application of a multivariate shape-based filter to identify well-segmented cells improved HCS data quality for an HCS-unfriendly cell line, and could be a valuable post-processing step for some HCS datasets.

Morphological, physiological and dietary covariation in migratory and resident adult brown trout (Salmo trutta).

Science.gov (United States)

Peiman, Kathryn S; Birnie-Gauvin, Kim; Larsen, Martin H; Colborne, Scott F; Gilmour, Kathleen M; Aarestrup, Kim; Willmore, William G; Cooke, Steven J

2017-08-01

The causes and consequences of trait relationships within and among the categories of physiology, morphology, and life-history remain poorly studied. Few studies cross the boundaries of these categories, and recent reviews have pointed out not only the dearth of evidence for among-category correlations but that trait relationships may change depending on the ecological conditions a population faces. We examined changes in mean values and correlations between traits in a partially migrant population of brown trout when migrant sea-run and resident stream forms were breeding sympatrically. Within each sex and life-history strategy group, we used carbon and nitrogen stable isotopes to assess trophic level and habitat use; assessed morphology which reflects swimming and foraging ability; measured circulating cortisol as it is released in response to stressors and is involved in the transition from salt to freshwater; and determined oxidative status by measuring oxidative stress and antioxidants. We found that sea-run trout were larger and had higher values of stable isotopes, cortisol and oxidative stress compared to residents. Most groups showed some correlations between morphology and diet, indicating individual resource specialization was occurring, and we found consistent correlations between morphology and cortisol. Additionally, relationships differed between the sexes (cortisol and oxidative status were related in females but not males) and between life-history strategies (habitat use was related to oxidative status in male sea-run trout but not in either sex of residents). The differing patterns of covariation between the two life-history strategies and between the sexes suggest that the relationships among phenotypic traits are subjected to different selection pressures, illustrating the importance of integrating multiple phenotypic measures across different trait categories and contrasting life-history strategies. Copyright © 2017 Elsevier GmbH. All rights

Morphological and Physiological Characterization of Listeria monocytogenes Subjected to High Hydrostatic Pressure

Science.gov (United States)

Ritz, M.; Tholozan, J. L.; Federighi, M.; Pilet, M. F.

2001-01-01

High hydrostatic pressure is a new food preservation technology known for its capacity to inactivate spoilage and pathogenic microorganisms. That inactivation is usually assessed by the number of colonies growing on solid media after treatment. Under normal conditions the method does not permit recovery of damaged cells and may underestimate the number of cells that will remain viable and grow after a few days in high-pressure-processed foodstuffs. This study investigated the damage inflicted on Listeria monocytogenes cells treated by high pressure for 10 min at 400 MPa in pH 5.6 citrate buffer. Under these conditions, no cell growth occurred after 48 h on plate count agar. Scanning electron microscopy, light scattering by flow cytometry, and cell volume measurements were compared to evaluate the morphological changes in cells after pressurization. All these methods revealed that cellular morphology was not really affected. Esterase activity, as assessed either by enzymatic activity assays or by carboxy fluorescein diacetate fluorescence monitored by flow cytometry, was dramatically lowered, but not totally obliterated, under the effects of treatment. The measurement of propidium iodide uptake followed by flow cytometry demonstrated that membrane integrity was preserved in a small part of the population, although the membrane potential measured by analytical methods or evaluated by oxonol uptake was reduced from −86 to −5 mV. These results showed that such combined methods as fluorescent dyes monitored by flow cytometry and physiological activity measurements provide valuable indications of cellular viability. PMID:11319107

CO2 and temperature effects on morphological and physiological traits affecting risk of drought-induced mortality.

Science.gov (United States)

Duan, Honglang; Chaszar, Brian; Lewis, James D; Smith, Renee A; Huxman, Travis E; Tissue, David T

2018-04-26

Despite a wealth of eco-physiological assessments of plant response to extreme drought, few studies have addressed the interactive effects of global change factors on traits driving mortality. To understand the interaction between hydraulic and carbon metabolic traits influencing tree mortality, which may be independently influenced by atmospheric [CO2] and temperature, we grew Eucalyptus sideroxylon A. Cunn. ex Woolls from seed in a full-factorial [CO2] (280, 400 and 640 μmol mol-1, Cp, Ca and Ce, respectively) and temperature (ambient and ambient +4 °C, Ta and Te, respectively) experiment. Prior to drought, growth across treatment combinations resulted in significant variation in physiological and morphological traits, including photosynthesis (Asat), respiration (Rd), stomatal conductance, carbohydrate storage, biomass and leaf area (LA). Ce increased Asat, LA and leaf carbohydrate concentration compared with Ca, while Cp generated the opposite response; Te reduced Rd. However, upon imposition of drought, Te hastened mortality (9 days sooner compared with Ta), while Ce significantly exacerbated drought stress when combined with Te. Across treatments, earlier time-to-mortality was mainly associated with lower (more negative) leaf water potential (Ψl) during the initial drought phase, along with higher water loss across the first 3 weeks of water limitation. Among many variables, Ψl was more important than carbon status in predicting time-to-mortality across treatments, yet leaf starch was associated with residual variation within treatments. These results highlight the need to carefully consider the integration, interaction and hierarchy of traits contributing to mortality, along with their responses to environmental drivers. Both morphological traits, which influence soil resource extraction, and physiological traits, which affect water-for-carbon exchange to the atmosphere, must be considered to adequately predict plant response to drought. Researchers have

A correlative approach to segmenting phases and ferrite morphologies in transformation-induced plasticity steel using electron back-scattering diffraction and energy dispersive X-ray spectroscopy.

Science.gov (United States)

Gazder, Azdiar A; Al-Harbi, Fayez; Spanke, Hendrik Th; Mitchell, David R G; Pereloma, Elena V

2014-12-01

Using a combination of electron back-scattering diffraction and energy dispersive X-ray spectroscopy data, a segmentation procedure was developed to comprehensively distinguish austenite, martensite, polygonal ferrite, ferrite in granular bainite and bainitic ferrite laths in a thermo-mechanically processed low-Si, high-Al transformation-induced plasticity steel. The efficacy of the ferrite morphologies segmentation procedure was verified by transmission electron microscopy. The variation in carbon content between the ferrite in granular bainite and bainitic ferrite laths was explained on the basis of carbon partitioning during their growth. Copyright © 2014 Elsevier B.V. All rights reserved.

MRI Brain Tumor Segmentation Methods- A Review

OpenAIRE

Gursangeet, Kaur; Jyoti, Rani

2016-01-01

Medical image processing and its segmentation is an active and interesting area for researchers. It has reached at the tremendous place in diagnosing tumors after the discovery of CT and MRI. MRI is an useful tool to detect the brain tumor and segmentation is performed to carry out the useful portion from an image. The purpose of this paper is to provide an overview of different image segmentation methods like watershed algorithm, morphological operations, neutrosophic sets, thresholding, K-...

Physiological and Morphological Characterization of Organotypic Cocultures of the Chick Forebrain Area MNH and its Main Input Area DMA/DMP

OpenAIRE

Endepols, Heike; Jungnickel, Julia; Braun, Katharina

2001-01-01

Cocultures of the learning-relevant forebrain region mediorostrai neostriatum and hyperstriatum ventrale (MNH) and its main glutamatergic input area nucleus dorsomedialis anterior thalami/posterior thalami were morphologically and physiologically characterized. Synaptic contacts of thalamic fibers were lightand electron-microscopically detected on MNH neurons by applying the fluorescence tracer DiI-C18(3) into the thalamus part of the coculture. Most thalamic syn...

Morphological and physiological divergences within Quercus ilex support the existence of different ecotypes depending on climatic dryness.

Science.gov (United States)

Peguero-Pina, José Javier; Sancho-Knapik, Domingo; Barrón, Eduardo; Camarero, Julio Jesús; Vilagrosa, Alberto; Gil-Pelegrín, Eustaquio

2014-08-01

Several studies show apparently contradictory findings about the functional convergence within the Mediterranean woody flora. In this context, this study evaluates the variability of functional traits within holm oak (Quercus ilex) to elucidate whether provenances corresponding to different morphotypes represent different ecotypes locally adapted to the prevaling stress levels. Several morphological and physiological traits were measured at leaf and shoot levels in 9-year-old seedlings of seven Q. ilex provenances including all recognized morphotypes. Plants were grown in a common garden for 9 years under the same environmental conditions to avoid possible biases due to site-specific characteristics. Leaf morphometry clearly separates holm oak provenances into 'ilex' (more elongated leaves with low vein density) and 'rotundifolia' (short and rounded leaves with high vein density) morphotypes. Moreover, these morphotypes represent two consistent and very contrasting functional types in response to dry climates, mainly in terms of leaf area, major vein density, leaf specific conductivity, resistance to drought-induced cavitation and turgor loss point. The 'ilex' and 'rotundifolia' morphotypes correspond to different ecotypes as inferred from their contrasting functional traits. To the best of our knowledge, this is the first time that the combined use of morphological and physiological traits has provided support for the concept of these two holm oak morphotypes being regarded as two different species. © The Author 2014. Published by Oxford University Press on behalf of the Annals of Botany Company. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Quaternary Tectonic Tilting Governed by Rupture Segments Controls Surface Morphology and Drainage Evolution along the South-Central Coast of Chile

Science.gov (United States)

Echtler, H. P.; Bookhagen, B.; Melnick, D.; Strecker, M.

2004-12-01

The Chilean coast represents one of the most active convergent margins in the Pacific rim, where major earthquakes (M>8) have repeatedly ruptured the surface, involving vertical offsets of several meters. Deformation along this coast takes place in large-scale, semi-independent seismotectonic segments with partially overlapping transient boundaries. They are possibly related to reactivated inherited crustal anisotropies; internal seismogenic deformation may be accommodated by structures that have developed during accretionary wedge evolution. Seismotectonic segmentation and the identification of large-scale rupture zones, however, are based on limited seismologic und geodetic observations over short timespans. In order to better define the long-term behavior and deformation rates of these segments and to survey the tectonic impact on the landscape on various temporal and spatial scales, we investigated the south-central coast of Chile (37-38S). There, two highly active, competing seismotectonic compartments influence the coastal and fluvial morphology. A rigorous analysis of the geomorphic features is a key for an assessment of the tectonic evolution during the Quaternary and beyond. We studied the N-S oriented Santa María Island (SMI), 20 km off the coast and only ~70km off the trench, in the transition between the two major Valdivia (46-37S) and Concepción (38-35S) rupture segments. The SMI has been tectonically deformed throughout the Quaternary and comprises two tilt domains with two topographic highs in the north and south that are being tilted eastward. The low-lying and flat eastern part of the island is characterized by a set of emergent Holocene strandlines related to coseismic uplift. We measured detailed surface morphology of these strandlines and E-W traversing ephemeral stream channels with a laser-total station and used these data to calibrate and validate high-resolution, digital imagery. In addition, crucial geomorphic markers were dated by the

Impact of drought on morphological, physiological and nutrient use efficiency of elite cacao genotypes from Bahia-Brazil, Tarapoto-Peru and Puerto Rico-USA

Science.gov (United States)

Worldwide, drought is considered one of the most limiting abiotic stress factors for cacao growth, development and production. A series of greenhouse and growth chamber experiments were undertaken to assess drought effects on early cacao morphological and physiological traits and nutrient use effici...

Physiological Demands, Morphological Characteristics, Physical Abilities and Injuries of Female Soccer Players

Directory of Open Access Journals (Sweden)

Milanović Zoran

2017-12-01

Full Text Available The popularity of female soccer is increasing as well as the number of females playing soccer. Similarly, over the last twenty or so years, research in soccer has increased significantly, but a large disparity exists in the volume of studies involving male and female players. As a consequence of this, female players remain less well understood compared to males. The purpose of the present narrative review was to describe morphological characteristics, physiological demands, physical abilities and injuries in female soccer players. Physiological demands are similar between men’s and women’s soccer, but competitive women’s matches were characterized by nearly 33% less distance covered, although at higher intensity levels (maximum speeds greater than 15 km/h than typically found in the men’s game. Sub-elite female players also tended to run less at higher intensity levels at the end of both halves in comparison with elite female players. High intensity running is an important factor of success in soccer since many critical moments of the game occur under this condition. The ability to rapidly change direction also determined elite, sub-elite and amateur levels. The implementation of functional training, which focused on soccer-specific drills and plyometric exercises, to improve explosive power, may improve conditioning in female soccer players as well as decrease the risk of injuries which was 3-8 times higher in females compared to males. This review presents an in-depth overview of the most influential factors for determining success in female soccer.

Morphological, physiological and biochemical studies on Pyricularia ...

African Journals Online (AJOL)

SARAH

2014-02-28

Feb 28, 2014 ... compounds seem to reflect inherent biochemical and physiological differences among P. grisea isolates .... solutions for imaging and microscopy, soft image system .... characteristics among 12 P. grisea isolates from rice were.

Scale effects and morphological diversification in hindlimb segment mass proportions in neognath birds.

Science.gov (United States)

Kilbourne, Brandon M

2014-01-01

In spite of considerable work on the linear proportions of limbs in amniotes, it remains unknown whether differences in scale effects between proximal and distal limb segments has the potential to influence locomotor costs in amniote lineages and how changes in the mass proportions of limbs have factored into amniote diversification. To broaden our understanding of how the mass proportions of limbs vary within amniote lineages, I collected data on hindlimb segment masses - thigh, shank, pes, tarsometatarsal segment, and digits - from 38 species of neognath birds, one of the most speciose amniote clades. I scaled each of these traits against measures of body size (body mass) and hindlimb size (hindlimb length) to test for departures from isometry. Additionally, I applied two parameters of trait evolution (Pagel's λ and δ) to understand patterns of diversification in hindlimb segment mass in neognaths. All segment masses are positively allometric with body mass. Segment masses are isometric with hindlimb length. When examining scale effects in the neognath subclade Land Birds, segment masses were again positively allometric with body mass; however, shank, pedal, and tarsometatarsal segment masses were also positively allometric with hindlimb length. Methods of branch length scaling to detect phylogenetic signal (i.e., Pagel's λ) and increasing or decreasing rates of trait change over time (i.e., Pagel's δ) suffer from wide confidence intervals, likely due to small sample size and deep divergence times. The scaling of segment masses appears to be more strongly related to the scaling of limb bone mass as opposed to length, and the scaling of hindlimb mass distribution is more a function of scale effects in limb posture than proximo-distal differences in the scaling of limb segment mass. Though negative allometry of segment masses appears to be precluded by the need for mechanically sound limbs, the positive allometry of segment masses relative to body mass may

Physiological outperformance at the morphologically-transformed edge of the cyanobacteriosponge Terpios hoshinota (Suberitidae: Hadromerida when confronting opponent corals.

Directory of Open Access Journals (Sweden)

Jih-Terng Wang

Full Text Available Terpios hoshinota, an encrusting cyanosponge, is known as a strong substrate competitor of reef-building corals that kills encountered coral by overgrowth. Terpios outbreaks cause significant declines in living coral cover in Indo-Pacific coral reefs, with the damage usually lasting for decades. Recent studies show that there are morphological transformations at a sponge's growth front when confronting corals. Whether these morphological transformations at coral contacts are involved with physiological outperformance (e.g., higher metabolic activity or nutritional status over other portions of Terpios remains equivocal. In this study, we compared the indicators of photosynthetic capability and nitrogen status of a sponge-cyanobacteria association at proximal, middle, and distal portions of opponent corals. Terpios tissues in contact with corals displayed significant increases in photosynthetic oxygen production (ca. 61%, the δ13C value (ca. 4%, free proteinogenic amino acid content (ca. 85%, and Gln/Glu ratio (ca. 115% compared to middle and distal parts of the sponge. In contrast, the maximum quantum yield (Fv/Fm, which is the indicator usually used to represent the integrity of photosystem II, of cyanobacteria photosynthesis was low (0.256~0.319 and showed an inverse trend of higher values in the distal portion of the sponge that might be due to high and variable levels of cyanobacterial phycocyanin. The inconsistent results between photosynthetic oxygen production and Fv/Fm values indicated that maximum quantum yields might not be a suitable indicator to represent the photosynthetic function of the Terpios-cyanobacteria association. Our data conclusively suggest that Terpios hoshinota competes with opponent corals not only by the morphological transformation of the sponge-cyanobacteria association but also by physiological outperformance in accumulating resources for the battle.

CO2 permeation properties of poly(ethylene oxide)-based segmented block copolymers

NARCIS (Netherlands)

Husken, D.; Visser, Tymen; Wessling, Matthias; Gaymans, R.J.

2010-01-01

This paper discusses the gas permeation properties of poly(ethylene oxide) (PEO)-based segmented block copolymers containing monodisperse amide segments. These monodisperse segments give rise to a well phase-separated morphology, comprising a continuous PEO phase with dispersed crystallised amide

Physiologic, morphologic and behavioural responses of Zabrotes subfasciatus (Boheman) (Coleoptera: Bruchidae) related to the consume of different varieties of Phaseolus vulgaris

International Nuclear Information System (INIS)

Marteleto, Patricia B.; Lomonaco, Cecilia; Kerr, Warwick E.

2009-01-01

This study was developed aiming to verify physiological, morphological and behavioral responses of two different Zabrotes subfasciatus (Boheman) populations to different beans varieties (Phaseolus vulgaris) (Fabaceae). Female longevity, fertility and oviposition preference site, as well as size and levels of fluctuating asymmetry for males and females were described. Zabrotes subfasciatus displayed physiological plasticity in response to the diet, which was considered an important adaptive ability to maintain the insect generalist habit for food consumption and oviposition sites. The populations studied had different responses to the same treatments, indicating genetic, physiological and behavioral variation on their plastic potential. The Hopkins' principle, which determines the influence of previous female experience in the choice of oviposition sites, was not confirmed. The occurrence of fluctuating asymmetry in males and females was variable, probably as a consequence of genomic factors determining this trait. (author)

Physiological and morphological responses of pine and willow saplings to post-fire salvage logging

Science.gov (United States)

Millions, E. L.; Letts, M. G.; Harvey, T.; Rood, S. B.

2015-12-01

With global warming, forest fires may be increasing in frequency, and post-fire salvage logging may become more common. The ecophysiological impacts of this practice on tree saplings remain poorly understood. In this study, we examined the physiological and morphological impacts of increased light intensity, due to post-fire salvage logging, on the conifer Pinus contorta (pine) and deciduous broadleaf Salix lucida (willow) tree and shrub species in the Crowsnest Pass region of southern Alberta. Photosynthetic gas-exchange and plant morphological measurements were taken throughout the summer of 2013 on approximately ten year-old saplings of both species. Neither species exhibited photoinhibition, but different strategies were observed to acclimate to increased light availability. Willow saplings were able to slightly elevate their light-saturated rate of net photosynthesis (Amax) when exposed to higher photosynthetic photon flux density (PPFD), thus increasing their growth rate. Willow also exhibited increased leaf inclination angles and leaf mass per unit area (LMA), to decrease light interception in the salvage-logged plot. By contrast, pine, which exhibited lower Amax and transpiration (E), but higher water-use efficiency (WUE = Amax/E) than willow, increased the rate at which electrons were moved through and away from the photosynthetic apparatus in order to avoid photoinhibition. Acclimation indices were higher in willow saplings, consistent with the hypothesis that species with short-lived foliage exhibit greater acclimation. LMA was higher in pine saplings growing in the logged plot, but whole-plant and branch-level morphological acclimation was limited and more consistent with a response to decreased competition in the logged plot, which had much lower stand density.

Application of the physiological and morphological parameters of the brazilian population sample to the mathematical model of the human respiratory tract; Aplicacao dos parametros fisiologicos e morfologicos de uma amostra da populacao brasileira no modelo matematico do trato respiratorio humano

Energy Technology Data Exchange (ETDEWEB)

Reis, Arlene Alves dos

2005-07-01

The Human Respiratory Tract Model proposed by the ICRP Publication 66 accounts for the morphology and physiology of the respiratory tract. The characteristics of air drawn into the lungs and exhaled are greatly influenced by the morphology of the respiratory tract, which causes numerous changes in pressure, flow rate, direction and humidity as air moves into and out of the lungs. Concerning the respiratory physiological parameters the breathing characteristics influence the volume, the inhalation rate of air and the portion that enters through the nose and the mouth. These characteristics are important to determine the fractional deposition. The model uses morphological and physiological parameters from the Caucasian man to establish deposition fractions in the respiratory tract regions. It is known that the morphology and physiology are influenced by environmental, occupational and economic conditions. The ICRP recommends, for a reliable evaluation of the regional deposition, the use of parameters from a local population when information is available. The main purpose of this study is to verify the influence in using the morphology and physiology parameters representative of a sample of the Brazilian population on the deposition model of the ICRP Publication 66. The morphological and physiological data were obtained from the literature. The software EXCEL for Windows (version 2000) was used in order to implement the deposition model and also to allow the changes in parameters of interest. Initially, the implemented model was checked using the parameters defined by the ICRP and the results of the fraction deposition in the respiratory tract compartments were compared. Finally, morphological and physiological parameters from Brazilian adult male were applied and the fractional deposition calculated. The results suggest a significant variation in fractional deposition when Brazilian parameters are applied in the model. (author)

Variational Level Set Method for Two-Stage Image Segmentation Based on Morphological Gradients

Directory of Open Access Journals (Sweden)

Zemin Ren

2014-01-01

Full Text Available We use variational level set method and transition region extraction techniques to achieve image segmentation task. The proposed scheme is done by two steps. We first develop a novel algorithm to extract transition region based on the morphological gradient. After this, we integrate the transition region into a variational level set framework and develop a novel geometric active contour model, which include an external energy based on transition region and fractional order edge indicator function. The external energy is used to drive the zero level set toward the desired image features, such as object boundaries. Due to this external energy, the proposed model allows for more flexible initialization. The fractional order edge indicator function is incorporated into the length regularization term to diminish the influence of noise. Moreover, internal energy is added into the proposed model to penalize the deviation of the level set function from a signed distance function. The results evolution of the level set function is the gradient flow that minimizes the overall energy functional. The proposed model has been applied to both synthetic and real images with promising results.

Color Segmentation of Homogeneous Areas on Colposcopical Images

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Kosteley Yana

2016-01-01

Full Text Available The article provides an analysis of image processing and color segmentation applied to the problem of selection of homogeneous regions in the parameters of the color model. Methods of image processing such as Gaussian filter, median filter, histogram equalization and mathematical morphology are considered. The segmentation algorithm with the parameters of color components is presented, followed by isolation of the resulting connected component of a binary segmentation mask. Analysis of methods performed on images colposcopic research.

Optimization of Segmentation Quality of Integrated Circuit Images

Directory of Open Access Journals (Sweden)

Gintautas Mušketas

2012-04-01

Full Text Available The paper presents investigation into the application of genetic algorithms for the segmentation of the active regions of integrated circuit images. This article is dedicated to a theoretical examination of the applied methods (morphological dilation, erosion, hit-and-miss, threshold and describes genetic algorithms, image segmentation as optimization problem. The genetic optimization of the predefined filter sequence parameters is carried out. Improvement to segmentation accuracy using a non optimized filter sequence makes 6%.Artcile in Lithuanian

Proliferative and morphologic changes in rat colon following bypass surgery.

Science.gov (United States)

Barkla, D H; Tutton, P J

1985-06-01

In this study the proliferative and morphologic changes that occur in the colon of normal and dimethylhydrazine-treated rats following surgical bypass of the middle third of the colon are reported. Proliferative changes were measured by estimating accumulated mitotic indexes following vinblastine treatment and morphologic changes were observed with the use of light microscopy and scanning electron microscopy. Data were collected on Days 0, 7, 14, 30, and 72 after surgery. The results show that surgical bypass produces contrasting effects in the segments proximal to and distal to the suture line. In the proximal segment there was morphologic evidence of hyperplasia, although proliferative activity was unchanged except for an increase at 7 days in normal rats. In the distal segment there was a long-lived increase in the mitotic index, although morphologic changes were not seen. The results for DMH-treated rats were similar to those in normal rats. Groups of isolated dysplastic epithelial cells were often seen in the submucosa adjacent to sutures up to 72 days after surgery. Increased lymphoid infiltration was seen in segments proximal to but not distal to the suture line. It is hypothesized that the different responses of the proximal and distal segments may be related to the different embryologic origins of those segments. It is also hypothesized that the seeding of the submucosa with epithelial cells during suturing may be a factor in tumor recurrence.

Development of a Manipulative for Nephron Physiology Education

Science.gov (United States)

Giffen, Zane C.; Carvalho, Helena

2015-01-01

Some physiological concepts, such as physiology of filtration and absorption in the different nephron segments, are so detailed that they can be a challenge to be memorized. This article describes an exercise that solidifies learning as students manipulate, using paper models, "transporters" and "electrolytes" in the…

Segmentation and Visualisation of Human Brain Structures

Energy Technology Data Exchange (ETDEWEB)

Hult, Roger

2003-10-01

In this thesis the focus is mainly on the development of segmentation techniques for human brain structures and of the visualisation of such structures. The images of the brain are both anatomical images (magnet resonance imaging (MRI) and autoradiography) and functional images that show blood flow (functional magnetic imaging (fMRI), positron emission tomography (PET), and single photon emission tomography (SPECT)). When working with anatomical images, the structures segmented are visible as different parts of the brain, e.g. the brain cortex, the hippocampus, or the amygdala. In functional images, the activity or the blood flow that be seen. Grey-level morphology methods are used in the segmentations to make tissue types in the images more homogenous and minimise difficulties with connections to outside tissue. A method for automatic histogram thresholding is also used. Furthermore, there are binary operations such as logic operation between masks and binary morphology operations. The visualisation of the segmented structures uses either surface rendering or volume rendering. For the visualisation of thin structures, surface rendering is the better choice since otherwise some voxels might be missed. It is possible to display activation from a functional image on the surface of a segmented cortex. A new method for autoradiographic images has been developed, which integrates registration, background compensation, and automatic thresholding to get faster and more reliable results than the standard techniques give.

Segmentation and Visualisation of Human Brain Structures

International Nuclear Information System (INIS)

Hult, Roger

2003-01-01

In this thesis the focus is mainly on the development of segmentation techniques for human brain structures and of the visualisation of such structures. The images of the brain are both anatomical images (magnet resonance imaging (MRI) and autoradiography) and functional images that show blood flow (functional magnetic imaging (fMRI), positron emission tomography (PET), and single photon emission tomography (SPECT)). When working with anatomical images, the structures segmented are visible as different parts of the brain, e.g. the brain cortex, the hippocampus, or the amygdala. In functional images, the activity or the blood flow that be seen. Grey-level morphology methods are used in the segmentations to make tissue types in the images more homogenous and minimise difficulties with connections to outside tissue. A method for automatic histogram thresholding is also used. Furthermore, there are binary operations such as logic operation between masks and binary morphology operations. The visualisation of the segmented structures uses either surface rendering or volume rendering. For the visualisation of thin structures, surface rendering is the better choice since otherwise some voxels might be missed. It is possible to display activation from a functional image on the surface of a segmented cortex. A new method for autoradiographic images has been developed, which integrates registration, background compensation, and automatic thresholding to get faster and more reliable results than the standard techniques give

Morphological, Physiological and Skating Performance Profiles of Male Age-Group Elite Ice Hockey Players

Directory of Open Access Journals (Sweden)

Allisse Maxime

2017-08-01

Full Text Available The purpose of this study was to describe the evolution of morphological, physiological and skating performance profiles of elite age-group ice hockey players based on repeated measures spread over one season. In addition, the results of fitness tests and training programs performed in off-ice conditions and their relationship with skating performance were analyzed. Eighteen high level age-group ice hockey players (13.1 ± 0.6 years were assessed off and on-ice at the beginning and at the end of the hockey season. A third evaluation was also conducted at the beginning of the following hockey season. The players were taller, heavier, and showed bone breadths and muscle girths above the reference population of the same age. Muscular variables improved significantly during and between the two hockey seasons (p < 0.05. However, maximal aerobic power improved only during the off-season. All skating performance tests exhibited significant enhancements during the hockey season, but not during the off-season where some degradation was observed. Finally, weak observed variances (generally <20% of the explained variance between physiological variables measured off-ice and on-ice skating performance tests indicated important gaps, both in the choice of the off-ice assessment tools as well as in training methods conventionally used. The reflection on the best way to assess and train hockey players certainly deserves to be continued.

Comparison of parameter-adapted segmentation methods for fluorescence micrographs.

Science.gov (United States)

Held, Christian; Palmisano, Ralf; Häberle, Lothar; Hensel, Michael; Wittenberg, Thomas

2011-11-01

Interpreting images from fluorescence microscopy is often a time-consuming task with poor reproducibility. Various image processing routines that can help investigators evaluate the images are therefore useful. The critical aspect for a reliable automatic image analysis system is a robust segmentation algorithm that can perform accurate segmentation for different cell types. In this study, several image segmentation methods were therefore compared and evaluated in order to identify the most appropriate segmentation schemes that are usable with little new parameterization and robustly with different types of fluorescence-stained cells for various biological and biomedical tasks. The study investigated, compared, and enhanced four different methods for segmentation of cultured epithelial cells. The maximum-intensity linking (MIL) method, an improved MIL, a watershed method, and an improved watershed method based on morphological reconstruction were used. Three manually annotated datasets consisting of 261, 817, and 1,333 HeLa or L929 cells were used to compare the different algorithms. The comparisons and evaluations showed that the segmentation performance of methods based on the watershed transform was significantly superior to the performance of the MIL method. The results also indicate that using morphological opening by reconstruction can improve the segmentation of cells stained with a marker that exhibits the dotted surface of cells. Copyright © 2011 International Society for Advancement of Cytometry.

Low-level x-irradiation of the brain during development: morphological, physiological, and behavioral consequences. Progress report, September 1, 1974--August 31, 1975

International Nuclear Information System (INIS)

Altman, J.

1975-01-01

Progress is reported on studies on the effects of exposure to low-dose x radiation on the developing brain of rats. Brief summaries of results of morphological, physiological, and behavioral studies on rats exposed using various x-irradiation schedules are included. A list of papers published and submitted for publication during the period is included. (U.S.)

The effect of water stress on some morphological, physiological, and biochemical characteristics and bud success on apple and quince rootstocks.

Science.gov (United States)

Bolat, Ibrahim; Dikilitas, Murat; Ercisli, Sezai; Ikinci, Ali; Tonkaz, Tahsin

2014-01-01

The effects of different water stress (control, medium, and severe) on some morphological, physiological, and biochemical characteristics and bud success of M9 apple and MA quince rootstocks were determined. The results showed that water stress significantly affected most morphological, physiological, and biochemical characteristics as well as budding success on the both rootstocks. The increasing water stress decreased the relative shoot length, diameter, and plant total fresh and dry weights. Leaf relative water content and chlorophyll index decreased while electrolyte leakage increased with the increase of water stress in both rootstocks. An increase in water stress also resulted in reduction in budding success in Vista Bella/M9 (79.33% and 46.67%) and Santa Maria/MA (70.33% and 15.33%) combinations. However, the water stress in Santa Maria/MA was more prominent. The increase in water stress resulted in higher peroxidase activities as well as phenol contents in both rootstocks. Although catalase activity, anthocyanin, and proline contents increased with the impact of stress, this was not statistically significant. The results suggest that the impact of stress increased with the increase of water stress; therefore, growers should be careful when using M9 and MA rootstocks in both nursery and orchards where water scarcity is present.

The Effect of Water Stress on Some Morphological, Physiological, and Biochemical Characteristics and Bud Success on Apple and Quince Rootstocks

Directory of Open Access Journals (Sweden)

Ibrahim Bolat

2014-01-01

Full Text Available The effects of different water stress (control, medium, and severe on some morphological, physiological, and biochemical characteristics and bud success of M9 apple and MA quince rootstocks were determined. The results showed that water stress significantly affected most morphological, physiological, and biochemical characteristics as well as budding success on the both rootstocks. The increasing water stress decreased the relative shoot length, diameter, and plant total fresh and dry weights. Leaf relative water content and chlorophyll index decreased while electrolyte leakage increased with the increase of water stress in both rootstocks. An increase in water stress also resulted in reduction in budding success in Vista Bella/M9 (79.33% and 46.67% and Santa Maria/MA (70.33% and 15.33% combinations. However, the water stress in Santa Maria/MA was more prominent. The increase in water stress resulted in higher peroxidase activities as well as phenol contents in both rootstocks. Although catalase activity, anthocyanin, and proline contents increased with the impact of stress, this was not statistically significant. The results suggest that the impact of stress increased with the increase of water stress; therefore, growers should be careful when using M9 and MA rootstocks in both nursery and orchards where water scarcity is present.

Process depending morphology and resulting physical properties of TPU

Energy Technology Data Exchange (ETDEWEB)

Frick, Achim, E-mail: achim.frick@hs-aalen.de; Spadaro, Marcel, E-mail: marcel.spadaro@hs-aalen.de [Institute of Polymer Science and Processing (iPSP), Aalen University (Germany)

2015-12-17

Thermoplastic polyurethane (TPU) is a rubber like material with outstanding properties, e.g. for seal applications. TPU basically provides high strength, low frictional behavior and excellent wear resistance. Though, due to segmented structure of TPU, which is composed of hard segments (HSs) and soft segments (SSs), physical properties depend strongly on the morphological arrangement of the phase separated HSs at a certain ratio of HSs to SSs. It is obvious that the TPU deforms differently depending on its bulk morphology. Basically, the morphology can either consist of HSs segregated into small domains, which are well dispersed in the SS matrix or of few strongly phase separated large size HS domains embedded in the SS matrix. The morphology development is hardly ruled by the melt processing conditions of the TPU. Depending on the morphology, TPU provides quite different physical properties with respect to strength, deformation behavior, thermal stability, creep resistance and tribological performance. The paper deals with the influence of important melt processing parameters, such as temperature, pressure and shear conditions, on the resulting physical properties tested by tensile and relaxation experiments. Furthermore the morphology is studied employing differential scanning calorimeter (DSC), transmission light microscopy (TLM), scanning electron beam microscopy (SEM) and transmission electron beam microscopy (TEM) investigations. Correlations between processing conditions and resulting TPU material properties are elaborated. Flow and shear simulations contribute to the understanding of thermal and flow induced morphology development.

The change of volume of each hepatic segment in liver cirrhosis

International Nuclear Information System (INIS)

Arai, Kazunori; Takashima, Tsutomu; Matsui, Osamu; Kadoya, Masumi; Kameyama, Tomiaki; Nishijima, Hiroshi; Takanaka, Tsuyoshi; Gabata, Toshifumi

1986-01-01

We studied morphological changes of liver due to liver cirrhosis by evaluating the volume of liver and each hepatic segments (left lateral, left medial, right anterior, right posterior, and caudate lobe) divided using dynamic sequential CT during arterial portography. In liver cirrhosis, left lateral segment and caudate lobe were relatively enlarged, while right lobe and left medial segment showed significant shrinkage. But when posterior inferior right hepatic vein was evident on CT, right posterior segment did not shrink. (author)

The effect of drought stress on morphological and physiological characteristics of millets

Directory of Open Access Journals (Sweden)

hamidreza khazaeii

2009-06-01

Full Text Available In order to study the effect of drought stress on morphological and physiological characteristics of millets, a field experiment was arranged in a randomised complete block as a split-plot design with three replication during 2004 growing season at Reasearch Farm of Ferdowsi University of Mashhad. Irrigation intervals (weekly interval, 14-day interval and three types of millet (Pennisetum glaceum , Setaria italica and Panicum miliaceum were allocated to main and sub plots, respectively. Results showed that, grain yield, panicle weight, grain weight, number of tillers, number of fertile tillers, panicle harvest index, leaf area and percentage of nitrogen leaf was not affected by water stress treatments. Although, type of millets had significiant effect on these traits. Exposure of plants to water stress led to noticeable decreases in plant height for all three cultivars. In this experiment, grain yield, plant height, panicle weight, grain weight, panicle harvest index and percentage of nitrogen of Panicum miliaceum was lowest, also Pennisetum glucum had relatively highest grain leaf yield, panicle weight, leaf area and percentage of leaf nitrogen and had favorable production potential in semi-arid tropical regions.

White blood cell segmentation by color-space-based k-means clustering.

Science.gov (United States)

Zhang, Congcong; Xiao, Xiaoyan; Li, Xiaomei; Chen, Ying-Jie; Zhen, Wu; Chang, Jun; Zheng, Chengyun; Liu, Zhi

2014-09-01

White blood cell (WBC) segmentation, which is important for cytometry, is a challenging issue because of the morphological diversity of WBCs and the complex and uncertain background of blood smear images. This paper proposes a novel method for the nucleus and cytoplasm segmentation of WBCs for cytometry. A color adjustment step was also introduced before segmentation. Color space decomposition and k-means clustering were combined for segmentation. A database including 300 microscopic blood smear images were used to evaluate the performance of our method. The proposed segmentation method achieves 95.7% and 91.3% overall accuracy for nucleus segmentation and cytoplasm segmentation, respectively. Experimental results demonstrate that the proposed method can segment WBCs effectively with high accuracy.

Morphological, Physiological, and Taxonomic Characterization of Actinobacterial Isolates Living as Endophytes of Cacao Pods and Cacao Seeds.

Science.gov (United States)

Tchinda, Romaric Armel Mouafo; Boudjeko, Thaddée; Simao-Beaunoir, Anne-Marie; Lerat, Sylvain; Tsala, Éric; Monga, Ernest; Beaulieu, Carole

2016-01-01

Vascular plants are commonly colonized by endophytic actinobacteria. However, very little is known about the relationship between these microorganisms and cacao fruits. In order to determine the physiological and taxonomic relationships between the members of this community, actinobacteria were isolated from cacao fruits and seeds. Among the 49 isolates recovered, 11 morphologically distinct isolates were selected for further characterization. Sequencing of the 16S rRNA gene allowed the partition of the selected isolates into three phylogenetic clades. Most of the selected endophytic isolates belonged to the Streptomyces violaceusniger clade. Physiological characterization was carried out and a similarity index was used to cluster the isolates. However, clustering based on physiological properties did not match phylogenetic lineages. Isolates were also characterized for traits commonly associated with plant growth-promoting bacteria, including antibiosis and auxin biosynthesis. All isolates exhibited resistance to geldanamycin, whereas only two isolates were shown to produce this antibiotic. Endophytes were inoculated on radish seedlings and most isolates were found to possess plant growth-promoting abilities. These endophytic actinobacteria inhibited the growth of various plant pathogenic fungi and/or bacteria. The present study showed that S. violaceusniger clade members represent a significant part of the actinobacterial community living as endophytes in cacao fruits and seeds. While several members of this clade are known to be geldanamycin producers and efficient biocontrol agents of plant diseases, we herein established the endophytic lifestyle of some of these microorganisms, demonstrating their potential as plant health agents.

AUTOMATIC LUNG NODULE SEGMENTATION USING AUTOSEED REGION GROWING WITH MORPHOLOGICAL MASKING (ARGMM AND FEATURE EX-TRACTION THROUGH COMPLETE LOCAL BINARY PATTERN AND MICROSCOPIC INFORMATION PATTERN

Directory of Open Access Journals (Sweden)

Senthil Kumar

2015-04-01

Full Text Available An efficient Autoseed Region Growing with Morphological Masking(ARGMM is imple-mented in this paper on the Lung CT Slice to segment the 'Lung Nodules',which may be the potential indicator for the Lung Cancer. The segmentation of lung nodules car-ried out in this paper through Multi-Thresholding, ARGMM and Level Set Evolution. ARGMM takes twice the time compared to Level Set, but still the number of suspected segmented nodules are doubled, which make sure that no potential cancerous nodules go unnoticed at the earlier stages of diagnosis. It is very important not to panic the patient by finding the presence of nodules from Lung CT scan. Only 40 percent of nod-ules can be cancerous. Hence, in this paper an efficient Shape and Texture analysis is computed to quantitatively describe the segmented lung nodules. The Frequency spectrum of the lung nodules is developed and its frequency domain features are com-puted. The Complete Local binary pattern of lung nodules is computed in this paper by constructing the combine histogram of Sign and Magnitude Local Binary Patterns. Lo-cal Configuration Pattern is also determined in this work for lung nodules to numeri-cally model the microscopic information of nodules pattern.

A Marked Poisson Process Driven Latent Shape Model for 3D Segmentation of Reflectance Confocal Microscopy Image Stacks of Human Skin

Science.gov (United States)

Ghanta, Sindhu; Jordan, Michael I.; Kose, Kivanc; Brooks, Dana H.; Rajadhyaksha, Milind; Dy, Jennifer G.

2016-01-01

Segmenting objects of interest from 3D datasets is a common problem encountered in biological data. Small field of view and intrinsic biological variability combined with optically subtle changes of intensity, resolution and low contrast in images make the task of segmentation difficult, especially for microscopy of unstained living or freshly excised thick tissues. Incorporating shape information in addition to the appearance of the object of interest can often help improve segmentation performance. However, shapes of objects in tissue can be highly variable and design of a flexible shape model that encompasses these variations is challenging. To address such complex segmentation problems, we propose a unified probabilistic framework that can incorporate the uncertainty associated with complex shapes, variable appearance and unknown locations. The driving application which inspired the development of this framework is a biologically important segmentation problem: the task of automatically detecting and segmenting the dermal-epidermal junction (DEJ) in 3D reflectance confocal microscopy (RCM) images of human skin. RCM imaging allows noninvasive observation of cellular, nuclear and morphological detail. The DEJ is an important morphological feature as it is where disorder, disease and cancer usually start. Detecting the DEJ is challenging because it is a 2D surface in a 3D volume which has strong but highly variable number of irregularly spaced and variably shaped “peaks and valleys”. In addition, RCM imaging resolution, contrast and intensity vary with depth. Thus a prior model needs to incorporate the intrinsic structure while allowing variability in essentially all its parameters. We propose a model which can incorporate objects of interest with complex shapes and variable appearance in an unsupervised setting by utilizing domain knowledge to build appropriate priors of the model. Our novel strategy to model this structure combines a spatial Poisson process

REVIEW ON HARD SEGMENT INFLUENCESON THE PHYSICALPROPERTIES OF THERMOPLASTICPOLYURETHANES

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Nurul Hidayati Fithriyah

2012-04-01

Full Text Available Thermoplastic polyurethanes (TPUs are the fastest growing market in polyurethane technology mainly due to their easy process ability, versatile properties and recyclable nature. They find applications in high performance materials like coatings, adhesives, fibres and foams in a variety of industries ranging from automotive and footwear to medical implants. TPUs are linear block copolymers comprising of alternating soft and hard segments. The versatile properties of TPUs are usually attributed to their phase-separated morphologies. Different parameters are known to affect TPUs physical properties. One of those is their chemical architecture that is the statistical arrangement of hard segments (HS and soft segments (SS.In particular the architecture of the HS will influence the molecular structure and intermolecular interaction. Its role as physical crosslink sites will govern thermal, mechanical and morphological properties. Hence a modification of HS chemical architecture might adjust the ultimate properties of TPU. This implication is important in process control of production and design of application. Therefore this paper will review various studies to understand the effect of different architecture to the properties of TPU.   Keywords: thermoplasticpolyurethanes, hard segment architecture, physical properties

Effects of Drought Stress and Rewatering on some Morphological and Physiological Properties of Three Grapevine Cultivars

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Mehdi Aran

2017-12-01

Full Text Available Introduction: Most plants have developed morphological and physiological mechanisms which allow them to cope with drought stress. Almost all the studies conducted on grapevines (Vitisvinifera L. responses to drought conditions have focused on physiological responses such as stomatal reactions, photosynthesis and osmotic adjustment, and biochemical responses like carbohydrates and proline. According to these studies, physiological and biochemical responses of grapevines to water stress are quite variable. This variability could be related to cultivar, time of the year, previous water stress level, intensity of stress, and environmental conditions. Osmotic adjustment in terms of compatible solutes accumulation has been considered as an important physiological adaptation for plant to resist drought, which facilitates the extraction of water from dry soils and maintenance of cell turgor, gas exchange and growth in very dry environments. Acting as compatible solutes as well as antioxidants, a significant rise in proline amount was observed in grapevine leaves under water stress conditions, suggesting that this amino acid has a protective role against the formation of excessive reactive oxygen species (ROS. Plants, in order to overcome oxidative stress, have developed enzymatic and non-enzymatic antioxidant defense mechanisms against scavenge ROS. Materials and Methods: This research was conducted to assess the effect of different levels of irrigation on some characteristics of three cultivars of grapevine (Yaghooti, Bidanesefid and Askari, as a factorial based on a randomized complete block design in two years with four replications. The experiment started in June 21, 2014 and 2015. Water treatments were applied in four levels including: control plant (100% FC, moderate stress (60% FC, severe stress (30% FC and rewatering treatment after severe stress treatment. Increase height, leaf number, stem diameter, leaf fresh and dry weight, stem dry weight

An interactive medical image segmentation framework using iterative refinement.

Science.gov (United States)

Kalshetti, Pratik; Bundele, Manas; Rahangdale, Parag; Jangra, Dinesh; Chattopadhyay, Chiranjoy; Harit, Gaurav; Elhence, Abhay

2017-04-01

Segmentation is often performed on medical images for identifying diseases in clinical evaluation. Hence it has become one of the major research areas. Conventional image segmentation techniques are unable to provide satisfactory segmentation results for medical images as they contain irregularities. They need to be pre-processed before segmentation. In order to obtain the most suitable method for medical image segmentation, we propose MIST (Medical Image Segmentation Tool), a two stage algorithm. The first stage automatically generates a binary marker image of the region of interest using mathematical morphology. This marker serves as the mask image for the second stage which uses GrabCut to yield an efficient segmented result. The obtained result can be further refined by user interaction, which can be done using the proposed Graphical User Interface (GUI). Experimental results show that the proposed method is accurate and provides satisfactory segmentation results with minimum user interaction on medical as well as natural images. Copyright © 2017 Elsevier Ltd. All rights reserved.

Automatic segmentation of mandible in panoramic x-ray

OpenAIRE

Abdi, Amir Hossein; Kasaei, Shohreh; Mehdizadeh, Mojdeh

2015-01-01

As the panoramic x-ray is the most common extraoral radiography in dentistry, segmentation of its anatomical structures facilitates diagnosis and registration of dental records. This study presents a fast and accurate method for automatic segmentation of mandible in panoramic x-rays. In the proposed four-step algorithm, a superior border is extracted through horizontal integral projections. A modified Canny edge detector accompanied by morphological operators extracts the inferior border of t...

Morphology and cardiac physiology are differentially affected by temperature in developing larvae of the marine fish mahi-mahi (Coryphaena hippurus

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Prescilla Perrichon

2017-06-01

Full Text Available Cardiovascular performance is altered by temperature in larval fishes, but how acute versus chronic temperature exposures independently affect cardiac morphology and physiology in the growing larva is poorly understood. Consequently, we investigated the influence of water temperature on cardiac plasticity in developing mahi-mahi. Morphological (e.g. standard length, heart angle and physiological cardiac variables (e.g. heart rate fH, stroke volume, cardiac output were recorded under two conditions by imaging: (i under acute temperature exposure where embryos were reared at 25°C up to 128 h post-fertilization (hpf and then acutely exposed to 25 (rearing temperature, 27 and 30°C; and (ii at two rearing (chronic temperatures of 26 and 30°C and performed at 32 and 56 hpf. Chronic elevated temperature improved developmental time in mahi-mahi. Heart rates were 1.2–1.4-fold higher under exposure of elevated acute temperatures across development (Q10≥2.0. Q10 for heart rate in acute exposure was 1.8-fold higher compared to chronic exposure at 56 hpf. At same stage, stroke volume was temperature independent (Q10∼1.0. However, larvae displayed higher stroke volume later in stage. Cardiac output in developing mahi-mahi is mainly dictated by chronotropic rather than inotropic modulation, is differentially affected by temperature during development and is not linked to metabolic changes.

Semi-automatized segmentation method using image-based flow cytometry to study sperm physiology: the case of capacitation-induced tyrosine phosphorylation.

Science.gov (United States)

Matamoros-Volante, Arturo; Moreno-Irusta, Ayelen; Torres-Rodriguez, Paulina; Giojalas, Laura; Gervasi, María G; Visconti, Pablo E; Treviño, Claudia L

2018-02-01

Is image-based flow cytometry a useful tool to study intracellular events in human sperm such as protein tyrosine phosphorylation or signaling processes? Image-based flow cytometry is a powerful tool to study intracellular events in a relevant number of sperm cells, which enables a robust statistical analysis providing spatial resolution in terms of the specific subcellular localization of the labeling. Sperm capacitation is required for fertilization. During this process, spermatozoa undergo numerous physiological changes, via activation of different signaling pathways, which are not completely understood. Classical approaches for studying sperm physiology include conventional microscopy, flow cytometry and Western blotting. These techniques present disadvantages for obtaining detailed subcellular information of signaling pathways in a relevant number of cells. This work describes a new semi-automatized analysis using image-based flow cytometry which enables the study, at the subcellular and population levels, of different sperm parameters associated with signaling. The increase in protein tyrosine phosphorylation during capacitation is presented as an example. Sperm cells were isolated from seminal plasma by the swim-up technique. We evaluated the intensity and distribution of protein tyrosine phosphorylation in sperm incubated in non-capacitation and capacitation-supporting media for 1 and 18 h under different experimental conditions. We used an antibody against FER kinase and pharmacological inhibitors in an attempt to identify the kinases involved in protein tyrosine phosphorylation during human sperm capacitation. Semen samples from normospermic donors were obtained by masturbation after 2-3 days of sexual abstinence. We used the innovative technique image-based flow cytometry and image analysis tools to segment individual images of spermatozoa. We evaluated and quantified the regions of sperm where protein tyrosine phosphorylation takes place at the

Gravel Image Segmentation in Noisy Background Based on Partial Entropy Method

Institute of Scientific and Technical Information of China (English)

无

2000-01-01

Because of wide variation in gray levels and particle dimensions and the presence of many small gravel objects in the background, as well as corrupting the image by noise, it is difficult o segment gravel objects. In this paper, we develop a partial entropy method and succeed to realize gravel objects segmentation. We give entropy principles and fur calculation methods. Moreover, we use minimum entropy error automaticly to select a threshold to segment image. We introduce the filter method using mathematical morphology. The segment experiments are performed by using different window dimensions for a group of gravel image and demonstrates that this method has high segmentation rate and low noise sensitivity.

Anismus, Physiology, Radiology: Is It Time for Some Pragmatism? A Comparative Study of Radiological and Anorectal Physiology Findings in Patients With Anismus.

Science.gov (United States)

Pisano, Umberto; Irvine, Lesley; Szczachor, Justina; Jawad, Ahsin; MacLeod, Andrew; Lim, Michael

2016-10-01

Anismus is a functional disorder featuring obstructive symptoms and paradoxical contractions of the pelvic floor. This study aims to establish diagnosis agreement between physiology and radiology, associate anismus with morphological outlet obstruction, and explore the role of sphincteric pressure and rectal volumes in the radiological diagnosis of anismus. Consecutive patients were evaluated by using magnetic resonance imaging proctography/fluoroscopic defecography and anorectal physiology. Morphological radiological features were associated with physiology tests. A categorical analysis was performed using the chi-square test, and agreement was assessed via the kappa coefficient. A Mann-Whitney test was used to assess rectal volumes and sphincterial pressure distributions between groups of patients. A P-value of Anismus was seen radiologically and physiologically in 18 (41.8%) and 12 patients (27.9%), respectively. The agreement between modalities was 0.298 (P = 0.04). Using physiology as a reference, radiology had positive and negative predictive values of 44% and 84%, respectively. Rectoceles, cystoceles, enteroceles and pathological pelvic floor descent were not physiologically predictive of animus (P > 0.05). The sphincterial straining pressure was 71 mmHg in the anismus group versus 12 mmHg. Radiology was likely to identify anismus when the straining pressure exceeded 50% of the resting pressure (P = 0.08). Radiological techniques detect pelvic morphological abnormalities, but lead to overdiagnoses of anismus. No proctographic pathological feature predicts anismus reliably. A stronger pelvic floor paradoxical contraction is associated with a greater likelihood of detection by proctography.

Pyramidal Watershed Segmentation Algorithm for High-Resolution Remote Sensing Images Using Discrete Wavelet Transforms

Directory of Open Access Journals (Sweden)

K. Parvathi

2009-01-01

Full Text Available The watershed transformation is a useful morphological segmentation tool for a variety of grey-scale images. However, over segmentation and under segmentation have become the key problems for the conventional algorithm. In this paper, an efficient segmentation method for high-resolution remote sensing image analysis is presented. Wavelet analysis is one of the most popular techniques that can be used to detect local intensity variation and hence the wavelet transformation is used to analyze the image. Wavelet transform is applied to the image, producing detail (horizontal, vertical, and diagonal and Approximation coefficients. The image gradient with selective regional minima is estimated with the grey-scale morphology for the Approximation image at a suitable resolution, and then the watershed is applied to the gradient image to avoid over segmentation. The segmented image is projected up to high resolutions using the inverse wavelet transform. The watershed segmentation is applied to small subset size image, demanding less computational time. We have applied our new approach to analyze remote sensing images. The algorithm was implemented in MATLAB. Experimental results demonstrated the method to be effective.

MORPHOLOGICAL AND PHYSIOLOGICAL CHANGES ON Schizolobium parahybaVAR .Amazonicum(HUBER EX DUCKE BARNEBY PLANTS INTOXICATED BY GLYPHOSATE

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Kaléo Dias Pereira

2017-06-01

Full Text Available The objective of this study was to evaluate the morphological and physiological changes in paricá plants (Schizolobium parahyba var. amazonicum intoxicated by glyphosate. The experiment was conducted in a protected environment using paricá plants during their planting stage, which were intoxicated with increasing doses of glyphosate: 0 (control; 43.2; 86.2; 129.6 and 172.8 g.ha-1. At 7 and 21 days after the application of the herbicide, the photosynthesis, transpiration, stomatal conductance and leaf temperature were measured. The visual intoxication degree and the growth of the shoot and the root of the plants were evaluated 21 days after the application. Paricá shows symptoms of visual intoxication characterized by chlorosis/winding, evolving to necrosis/abscission of the youngest leaflets. The growth of the stem and the roots of the intoxicated plants is preserved; however, an expressive leaf loss occurs, and paricá may have adaptation mechanisms to tolerate the action of the herbicide molecule. The photosynthesis decrease promoted by an indirect action of glyphosate represents the main reduction on the growth of plants. The decrease on the stomatal conductance, which was the most sensitive physiological variable to glyphosate, resulted in lower transpiration rates, which, consequently, caused increases on the leaf temperature.

The Reproductive Morphology and Physiological Age Grading of the Female Salvinia Weevil, Calder and Sands

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Lee Eisenberg

2018-01-01

Full Text Available The morphology of the female Cyrtobagous salviniae Calder and Sands reproductive system is similar to other weevil species being meroistic and telotrophic. The reproductive system is composed of 2 ovaries each containing 2 ovarioles where the follicles mature. A physiological age grading system was developed where the continuum of ovarium development was divided into 2 nulliparous and 3 parous classes. This was based on the differentiation of the ovarioles, presence, and appearance of follicular relics, cuticle hardness/coloration, and fat body quantity/appearance. High correlation occurred between the parous classes and number of eggs produced where the P3 class had over 9-fold higher number of eggs in comparison with the P1 class. Mean number of eggs produced for each parous class was significantly different, however, overlap occurred. Such a system enables a determination of the past, present, and future reproductive status of field populations and mass-rearing colonies.

Segmentation by watersheds : definition and parallel implementation

NARCIS (Netherlands)

Roerdink, Jos B.T.M.; Meijster, Arnold

1997-01-01

The watershed algorithm is a method for image segmentation widely used in the area of mathematical morphology. In this paper we first address the problem of how to define watersheds. It is pointed out that various existing definitions are not equivalent. In particular we explain the differences

Segmentation of rodent whole-body dynamic PET images: an unsupervised method based on voxel dynamics

International Nuclear Information System (INIS)

Maroy, R.; Boisgard, R.; Comtat, C.; Dolle, F.; Trebossen, R.; Tavitian, B.; Frouin, V.; Cathier, P.; Duchesnay, E.; D; Nielsen, P.E.

2008-01-01

Positron emission tomography (PET) is a useful tool for pharmacokinetics studies in rodents during the preclinical phase of drug and tracer development. However, rodent organs are small as compared to the scanner's intrinsic resolution and are affected by physiological movements. We present a new method for the segmentation of rodent whole-body PET images that takes these two difficulties into account by estimating the pharmacokinetics far from organ borders. The segmentation method proved efficient on whole-body numerical rat phantom simulations, including 3-14 organs, together with physiological movements (heart beating, breathing, and bladder filling). The method was resistant to spillover and physiological movements, while other methods failed to obtain a correct segmentation. The radioactivity concentrations calculated with this method also showed an excellent correlation with the manual delineation of organs in a large set of preclinical images. In addition, it was faster, detected more organs, and extracted organs' mean time activity curves with a better confidence on the measure than manual delineation. (authors)

WATERSHED ALGORITHM BASED SEGMENTATION FOR HANDWRITTEN TEXT IDENTIFICATION

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P. Mathivanan

2014-02-01

Full Text Available In this paper we develop a system for writer identification which involves four processing steps like preprocessing, segmentation, feature extraction and writer identification using neural network. In the preprocessing phase the handwritten text is subjected to slant removal process for segmentation and feature extraction. After this step the text image enters into the process of noise removal and gray level conversion. The preprocessed image is further segmented by using morphological watershed algorithm, where the text lines are segmented into single words and then into single letters. The segmented image is feature extracted by Daubechies’5/3 integer wavelet transform to reduce training complexity [1, 6]. This process is lossless and reversible [10], [14]. These extracted features are given as input to our neural network for writer identification process and a target image is selected for each training process in the 2-layer neural network. With the several trained output data obtained from different target help in text identification. It is a multilingual text analysis which provides simple and efficient text segmentation.

Superresolution improves MRI cortical segmentation with FACE

DEFF Research Database (Denmark)

Eskildsen, Simon Fristed; Manjón, José V.; Coupé, Pierrick

the cerebral cortex have been developed during the last decade (Dale 1999, Kim 2005, Eskildsen 2006). In many studies, the resolution of the morphological image acquisition sequence is chosen to be relatively low (~1mm3) due to time and equipment constraints. To improve segmentation accuracy, such low...

Automatic Cell Segmentation in Fluorescence Images of Confluent Cell Monolayers Using Multi-object Geometric Deformable Model.

Science.gov (United States)

Yang, Zhen; Bogovic, John A; Carass, Aaron; Ye, Mao; Searson, Peter C; Prince, Jerry L

2013-03-13

With the rapid development of microscopy for cell imaging, there is a strong and growing demand for image analysis software to quantitatively study cell morphology. Automatic cell segmentation is an important step in image analysis. Despite substantial progress, there is still a need to improve the accuracy, efficiency, and adaptability to different cell morphologies. In this paper, we propose a fully automatic method for segmenting cells in fluorescence images of confluent cell monolayers. This method addresses several challenges through a combination of ideas. 1) It realizes a fully automatic segmentation process by first detecting the cell nuclei as initial seeds and then using a multi-object geometric deformable model (MGDM) for final segmentation. 2) To deal with different defects in the fluorescence images, the cell junctions are enhanced by applying an order-statistic filter and principal curvature based image operator. 3) The final segmentation using MGDM promotes robust and accurate segmentation results, and guarantees no overlaps and gaps between neighboring cells. The automatic segmentation results are compared with manually delineated cells, and the average Dice coefficient over all distinguishable cells is 0.88.

External morphology of sensory structures of fourth instar larvae of neotropical species of phlebotomine sand flies (Diptera: Psychodidae under scanning electron microscopy

Directory of Open Access Journals (Sweden)

Pessoa Felipe Arley Costa

2001-01-01

Full Text Available In the present study, some morphological structures of antennae, maxillary palps and caudal setae of fourth instar larvae of laboratory-reared phlebotomine sand flies (Lutzomyia longipalpis, L. migonei, L. evandroi, L. lenti, L. sericea, L. whitmani and L. intermedia of the State of Ceará, Brazil, were examined under scanning electron microscopy. The antennal structures exhibited considerable variation in the morphology and position. A prominent digitiform distal segment has been observed only on the antenna of species of the subgenus Nyssomyia. The taxonomic relevance of this and other antennal structure is discussed. The papiliform structures found in the maxillae and the porous structures of the caudal setae of all species examined may have chemosensory function. Further studies with transmission electron microscopy are needed to better understand the physiological function of these external structures.

Sawtooth segmentation and deformation processes on the southern San Andreas fault, California

Science.gov (United States)

Bilham, R.; Williams, P.

1985-01-01

Five contiguous 12-13 km fault segments form a sawtooth geometry on the southernmost San Andreas fault. The kinematic and morphologic properties of each segment depend on fault strike, despite differences of strike between segments of as little as 3 degrees. Oblique slip (transpression) of fault segments within the Indio Hills, Mecca Hills and Durmid Hill results from an inferred 8:1 ratio of dextral slip to convergence across the fault zone. Triggered slip and creep are confined almost entirely to transpressive segments of the fault. Durmid Hill has been formed in the last 28 + or - 6 ka by uplift at an average rate of 3 + or - 1 mm/a.

Encapsulation of nodal segments of lobelia chinensis

Directory of Open Access Journals (Sweden)

Weng Hing Thong

2015-04-01

Full Text Available Lobelia chinensis served as an important herb in traditional chinese medicine. It is rare in the field and infected by some pathogens. Therefore, encapsulation of axillary buds has been developed for in vitro propagation of L. chinensis. Nodal explants of L. chinensis were used as inclusion materials for encapsulation. Various combinations of calcium chloride and sodium alginate were tested. Encapsulation beads produced by mixing 50 mM calcium chloride and 3.5% sodium alginate supported the optimal in vitro conversion potential. The number of multiple shoots formed by encapsulated nodal segments was not significantly different from the average of shoots produced by non-encapsulated nodal segments. The encapsulated nodal segments regenerated in vitro on different medium. The optimal germination and regeneration medium was Murashige-Skoog medium. Plantlets regenerated from the encapsulated nodal segments were hardened, acclimatized and established well in the field, showing similar morphology with parent plants. This encapsulation technology would serve as an alternative in vitro regeneration system for L. chinensis.

Automatic Cell Segmentation in Fluorescence Images of Confluent Cell Monolayers Using Multi-object Geometric Deformable Model

OpenAIRE

Yang, Zhen; Bogovic, John A.; Carass, Aaron; Ye, Mao; Searson, Peter C.; Prince, Jerry L.

2013-01-01

With the rapid development of microscopy for cell imaging, there is a strong and growing demand for image analysis software to quantitatively study cell morphology. Automatic cell segmentation is an important step in image analysis. Despite substantial progress, there is still a need to improve the accuracy, efficiency, and adaptability to different cell morphologies. In this paper, we propose a fully automatic method for segmenting cells in fluorescence images of confluent cell monolayers. T...

Computer input devices: neutral party or source of significant error in manual lesion segmentation?

Science.gov (United States)

Chen, James Y; Seagull, F Jacob; Nagy, Paul; Lakhani, Paras; Melhem, Elias R; Siegel, Eliot L; Safdar, Nabile M

2011-02-01

Lesion segmentation involves outlining the contour of an abnormality on an image to distinguish boundaries between normal and abnormal tissue and is essential to track malignant and benign disease in medical imaging for clinical, research, and treatment purposes. A laser optical mouse and a graphics tablet were used by radiologists to segment 12 simulated reference lesions per subject in two groups (one group comprised three lesion morphologies in two sizes, one for each input device for each device two sets of six, composed of three morphologies in two sizes each). Time for segmentation was recorded. Subjects completed an opinion survey following segmentation. Error in contour segmentation was calculated using root mean square error. Error in area of segmentation was calculated compared to the reference lesion. 11 radiologists segmented a total of 132 simulated lesions. Overall error in contour segmentation was less with the graphics tablet than with the mouse (P Error in area of segmentation was not significantly different between the tablet and the mouse (P = 0.62). Time for segmentation was less with the tablet than the mouse (P = 0.011). All subjects preferred the graphics tablet for future segmentation (P = 0.011) and felt subjectively that the tablet was faster, easier, and more accurate (P = 0.0005). For purposes in which accuracy in contour of lesion segmentation is of the greater importance, the graphics tablet is superior to the mouse in accuracy with a small speed benefit. For purposes in which accuracy of area of lesion segmentation is of greater importance, the graphics tablet and mouse are equally accurate.

Morphological, Physiological and Skating Performance Profiles of Male Age-Group Elite Ice Hockey Players.

Science.gov (United States)

Allisse, Maxime; Sercia, Pierre; Comtois, Alain-Steve; Leone, Mario

2017-09-01

The purpose of this study was to describe the evolution of morphological, physiological and skating performance profiles of elite age-group ice hockey players based on repeated measures spread over one season. In addition, the results of fitness tests and training programs performed in off-ice conditions and their relationship with skating performance were analyzed. Eighteen high level age-group ice hockey players (13.1 ± 0.6 years) were assessed off and on-ice at the beginning and at the end of the hockey season. A third evaluation was also conducted at the beginning of the following hockey season. The players were taller, heavier, and showed bone breadths and muscle girths above the reference population of the same age. Muscular variables improved significantly during and between the two hockey seasons (p skating performance tests exhibited significant enhancements during the hockey season, but not during the off-season where some degradation was observed. Finally, weak observed variances (generally skating performance tests indicated important gaps, both in the choice of the off-ice assessment tools as well as in training methods conventionally used. The reflection on the best way to assess and train hockey players certainly deserves to be continued.

Analysis of cerebral vessels dynamics using experimental data with missed segments

Science.gov (United States)

Pavlova, O. N.; Abdurashitov, A. S.; Ulanova, M. V.; Shihalov, G. M.; Semyachkina-Glushkovskaya, O. V.; Pavlov, A. N.

2018-04-01

Physiological signals often contain various bad segments that occur due to artifacts, failures of the recording equipment or varying experimental conditions. The related experimental data need to be preprocessed to avoid such parts of recordings. In the case of few bad segments, they can simply be removed from the signal and its analysis is further performed. However, when there are many extracted segments, the internal structure of the analyzed physiological process may be destroyed, and it is unclear whether such signal can be used in diagnostic-related studies. In this paper we address this problem for the case of cerebral vessels dynamics. We perform analysis of simulated data in order to reveal general features of quantifying scaling features of complex signals with distinct correlation properties and show that the effects of data loss are significantly different for experimental data with long-range correlations and anti-correlations. We conclude that the cerebral vessels dynamics is significantly less sensitive to missed data fragments as compared with signals with anti-correlated statistics.

Robust Nucleus/Cell Detection and Segmentation in Digital Pathology and Microscopy Images: A Comprehensive Review.

Science.gov (United States)

Xing, Fuyong; Yang, Lin

2016-01-01

Digital pathology and microscopy image analysis is widely used for comprehensive studies of cell morphology or tissue structure. Manual assessment is labor intensive and prone to interobserver variations. Computer-aided methods, which can significantly improve the objectivity and reproducibility, have attracted a great deal of interest in recent literature. Among the pipeline of building a computer-aided diagnosis system, nucleus or cell detection and segmentation play a very important role to describe the molecular morphological information. In the past few decades, many efforts have been devoted to automated nucleus/cell detection and segmentation. In this review, we provide a comprehensive summary of the recent state-of-the-art nucleus/cell segmentation approaches on different types of microscopy images including bright-field, phase-contrast, differential interference contrast, fluorescence, and electron microscopies. In addition, we discuss the challenges for the current methods and the potential future work of nucleus/cell detection and segmentation.

Automatic segmentation of Leishmania parasite in microscopic images using a modified CV level set method

Science.gov (United States)

Farahi, Maria; Rabbani, Hossein; Talebi, Ardeshir; Sarrafzadeh, Omid; Ensafi, Shahab

2015-12-01

Visceral Leishmaniasis is a parasitic disease that affects liver, spleen and bone marrow. According to World Health Organization report, definitive diagnosis is possible just by direct observation of the Leishman body in the microscopic image taken from bone marrow samples. We utilize morphological and CV level set method to segment Leishman bodies in digital color microscopic images captured from bone marrow samples. Linear contrast stretching method is used for image enhancement and morphological method is applied to determine the parasite regions and wipe up unwanted objects. Modified global and local CV level set methods are proposed for segmentation and a shape based stopping factor is used to hasten the algorithm. Manual segmentation is considered as ground truth to evaluate the proposed method. This method is tested on 28 samples and achieved 10.90% mean of segmentation error for global model and 9.76% for local model.

Morpho-physiological characterization of Indian wheat genotypes ...

African Journals Online (AJOL)

SAM

2014-05-14

May 14, 2014 ... Key words: Wheat, morphological parameters, physiological growth attributes, proline. INTRODUCTION ... few years, climatic conditions have been drastically changed and ..... Poster presented in the XXVIIIth Meeting of the.

Effects of insularity on digestion: living on islands induces shifts in physiological and morphological traits in island reptiles

Science.gov (United States)

Sagonas, Kostas; Pafilis, Panayiotis; Valakos, Efstratios D.

2015-10-01

Living on islands entails numerous challenges for animals, among which resource scarcity stands out. In order to survive, animals have to optimize energy acquisition. We examined the impact of insularity on digestion comparing a series of physiological and morphological traits of adult males between insular and mainland populations of the Balkan green lizard. Island lizards had longer gastrointestinal tracts and gut passage times and higher digestive efficiencies. The dissection of the hindgut revealed an unexpected finding, the presence of cecal valves that were more frequent in island lizards. Thanks to all above islanders retain food for longer periods and thus maximize energy income and increase the amount of the extracted nutrients. That way, they secure energy income from the limited, in time and quantity, food resources of the islands.

Physiological response of soybean genotypes to plant density

NARCIS (Netherlands)

Gan, Y; Stulen, [No Value; van Keulen, H; Kuiper, PJC

2002-01-01

Response of soybean (Glycine max (L.) Merr.) to plant density has occupied a segment of agronomic research for most of the century. Genotype differences have been noted especially in response to planting date, lodging problems and water limitation. There is limited information on the physiological

The pivotal role of aristaless in development and evolution of diverse antennal morphologies in moths and butterflies.

Science.gov (United States)

Ando, Toshiya; Fujiwara, Haruhiko; Kojima, Tetsuya

2018-01-25

Antennae are multi-segmented appendages and main odor-sensing organs in insects. In Lepidoptera (moths and butterflies), antennal morphologies have diversified according to their ecological requirements. While diurnal butterflies have simple, rod-shaped antennae, nocturnal moths have antennae with protrusions or lateral branches on each antennal segment for high-sensitive pheromone detection. A previous study on the Bombyx mori (silk moth) antenna, forming two lateral branches per segment, during metamorphosis has revealed the dramatic change in expression of antennal patterning genes to segmentally reiterated, branch-associated pattern and abundant proliferation of cells contributing almost all the dorsal half of the lateral branch. Thus, localized cell proliferation possibly controlled by the branch-associated expression of antennal patterning genes is implicated in lateral branch formation. Yet, actual gene function in lateral branch formation in Bombyx mori and evolutionary mechanism of various antennal morphologies in Lepidoptera remain elusive. We investigated the function of several genes and signaling specifically in lateral branch formation in Bombyx mori by the electroporation-mediated incorporation of siRNAs or morpholino oligomers. Knock down of aristaless, a homeobox gene expressed specifically in the region of abundant cell proliferation within each antennal segment, during metamorphosis resulted in missing or substantial shortening of lateral branches, indicating its importance for lateral branch formation. aristaless expression during metamorphosis was lost by knock down of Distal-less and WNT signaling but derepressed by knock down of Notch signaling, suggesting the strict determination of the aristaless expression domain within each antennal segment by the combinatorial action of them. In addition, analyses of pupal aristaless expression in antennae with various morphologies of several lepidopteran species revealed that the aristaless expression

Fatality of salt stress to plants: Morphological, physiological and ...

African Journals Online (AJOL)

GREGORY

2010-08-23

Aug 23, 2010 ... are difficult to establish in crops since salt stress may occur as a catastrophic episode, ... as well as cellular levels through osmotic and ionic adjustments that result in reduced biomass ... plant physiology such as increased respiration rate, ion toxicity ... eventually death of leaf cells and tissues (Marschner,.

Automatic segmentation of the lateral geniculate nucleus: Application to control and glaucoma patients.

Science.gov (United States)

Wang, Jieqiong; Miao, Wen; Li, Jing; Li, Meng; Zhen, Zonglei; Sabel, Bernhard; Xian, Junfang; He, Huiguang

2015-11-30

The lateral geniculate nucleus (LGN) is a key relay center of the visual system. Because the LGN morphology is affected by different diseases, it is of interest to analyze its morphology by segmentation. However, existing LGN segmentation methods are non-automatic, inefficient and prone to experimenters' bias. To address these problems, we proposed an automatic LGN segmentation algorithm based on T1-weighted imaging. First, the prior information of LGN was used to create a prior mask. Then region growing was applied to delineate LGN. We evaluated this automatic LGN segmentation method by (1) comparison with manually segmented LGN, (2) anatomically locating LGN in the visual system via LGN-based tractography, (3) application to control and glaucoma patients. The similarity coefficients of automatic segmented LGN and manually segmented one are 0.72 (0.06) for the left LGN and 0.77 (0.07) for the right LGN. LGN-based tractography shows the subcortical pathway seeding from LGN passes the optic tract and also reaches V1 through the optic radiation, which is consistent with the LGN location in the visual system. In addition, LGN asymmetry as well as LGN atrophy along with age is observed in normal controls. The investigation of glaucoma effects on LGN volumes demonstrates that the bilateral LGN volumes shrink in patients. The automatic LGN segmentation is objective, efficient, valid and applicable. Experiment results proved the validity and applicability of the algorithm. Our method will speed up the research on visual system and greatly enhance studies of different vision-related diseases. Copyright © 2015 Elsevier B.V. All rights reserved.

Computer aided system for segmentation and visualization of microcalcifications in digital mammograms

International Nuclear Information System (INIS)

Reljin, B.; Reljin, I.; Milosevic, Z.; Stojic, T.

2009-01-01

Two methods for segmentation and visualization of microcalcifications in digital or digitized mammograms are described. First method is based on modern mathematical morphology, while the second one uses the multifractal approach. In the first method, by using an appropriate combination of some morphological operations, high local contrast enhancement, followed by significant suppression of background tissue, irrespective of its radiology density, is obtained. By iterative procedure, this method highly emphasizes only small bright details, possible microcalcifications. In a multifractal approach, from initial mammogram image, a corresponding multifractal 'images' are created, from which a radiologist has a freedom to change the level of segmentation. An appropriate user friendly computer aided visualization (CAV) system with embedded two methods is realized. The interactive approach enables the physician to control the level and the quality of segmentation. Suggested methods were tested through mammograms from MIAS database as a gold standard, and from clinical praxis, using digitized films and digital images from full field digital mammograph. (authors)

The morphology, physiology and nutritional quality of lettuce grown under hypobaria and hypoxia

Science.gov (United States)

Tang, Yongkang; Gao, Feng; Guo, Shuangsheng; Li, Fang

2015-07-01

The objectives of this research were to investigate the morphological, physiological and nutritional characteristics of lettuce plants (Lactuca sativa L. cv. Rome) under hypobaric and hypoxic conditions. Plants were grown under two levels of total pressures (101 and 30 kPa) and three levels of oxygen partial pressures (21, 6 and 2 kPa) for 20 days. Hypoxia (6 or 2 kPa) not only significantly inhibited the growth of lettuce plants by decreasing biomass, leaf area, root/shoot ratio, water content, the contents of minerals and organic compounds (vitamin C, crude protein and crude fat), but also destroyed the ultrastructure of mitochondria and chloroplast. The activities of catalase and total superoxide dismutase, the contents of glutathione and the total antioxidant capacity significantly decreased due to hypoxia. Hypobaria (30 kPa) did not markedly enhance the biomass, but it increased leaf area, root/shoot ratio and relative water content. Hypobaria also decreased the contents of total phenols, malondialdehyde and total carbohydrate and protected the ultrastructure of mitochondria and chloroplast under hypoxia. Furthermore, the activities of catalase and total superoxide dismutase, the contents of minerals and organic compounds markedly increased under hypobaria. This study demonstrates that hypobaria (30 kPa) does not increase the growth of lettuce plants, but it enhances plant's stress resistance and nutritional quality under hypoxia.

Evaluation of physiological parameters and their influence on doses calculated from two alternative dosimetric models for the gastrointestinal tract

International Nuclear Information System (INIS)

Lessard, E.T.; Skrable, K.W.

1981-01-01

Two dosimetric models, the catenary compartmental model (Be70) and the slug flow model (Sk75), are examined using three sets of physiological parameters: those proposed by Eve, those proposed by ICRP, and those obtained from the Textbook of Physiology and Biochemistry by Bell et al. The impact of physiological parameters on the dosimetry of the tract is illustrated by comparing calculated maximum permissible daily activity ingestion rates for single, unabsorbed, particle emitting radionuclides with an effective energy term of unity. The conclusions drawn from this intercomparison of six different cases are: Current dosimetric models which use physiological parameters described in this article do not significantly disagree, and for the determination of average dose equivalent rates to segments of the tract due to chronic, long term ingestion of any radionuclide, the catenary compartmental model is a mathematically simpler approach. The catenary model in addition has certain advantages for the calculation of the photon dose contribution to one segment from cumulated activity (disintegrations) in another segment

Robust Nucleus/Cell Detection and Segmentation in Digital Pathology and Microscopy Images: A Comprehensive Review

Science.gov (United States)

Xing, Fuyong; Yang, Lin

2016-01-01

Digital pathology and microscopy image analysis is widely used for comprehensive studies of cell morphology or tissue structure. Manual assessment is labor intensive and prone to inter-observer variations. Computer-aided methods, which can significantly improve the objectivity and reproducibility, have attracted a great deal of interest in recent literatures. Among the pipeline of building a computer-aided diagnosis system, nucleus or cell detection and segmentation play a very important role to describe the molecular morphological information. In the past few decades, many efforts have been devoted to automated nucleus/cell detection and segmentation. In this review, we provide a comprehensive summary of the recent state-of-the-art nucleus/cell segmentation approaches on different types of microscopy images including bright-field, phase-contrast, differential interference contrast (DIC), fluorescence, and electron microscopies. In addition, we discuss the challenges for the current methods and the potential future work of nucleus/cell detection and segmentation. PMID:26742143

Detecting wood surface defects with fusion algorithm of visual saliency and local threshold segmentation

Science.gov (United States)

Wang, Xuejuan; Wu, Shuhang; Liu, Yunpeng

2018-04-01

This paper presents a new method for wood defect detection. It can solve the over-segmentation problem existing in local threshold segmentation methods. This method effectively takes advantages of visual saliency and local threshold segmentation. Firstly, defect areas are coarsely located by using spectral residual method to calculate global visual saliency of them. Then, the threshold segmentation of maximum inter-class variance method is adopted for positioning and segmenting the wood surface defects precisely around the coarse located areas. Lastly, we use mathematical morphology to process the binary images after segmentation, which reduces the noise and small false objects. Experiments on test images of insect hole, dead knot and sound knot show that the method we proposed obtains ideal segmentation results and is superior to the existing segmentation methods based on edge detection, OSTU and threshold segmentation.

Human physiology in space

Science.gov (United States)

Vernikos, J.

1996-01-01

The universality of gravity (1 g) in our daily lives makes it difficult to appreciate its importance in morphology and physiology. Bone and muscle support systems were created, cellular pumps developed, neurons organised and receptors and transducers of gravitational force to biologically relevant signals evolved under 1g gravity. Spaceflight provides the only microgravity environment where systematic experimentation can expand our basic understanding of gravitational physiology and perhaps provide new insights into normal physiology and disease processes. These include the surprising extent of our body's dependence on perceptual information, and understanding the effect and importance of forces generated within the body's weightbearing structures such as muscle and bones. Beyond this exciting prospect is the importance of this work towards opening the solar system for human exploration. Although both appear promising, we are only just beginning to taste what lies ahead.

Evidence for ontogenetically and morphologically distinct alternative reproductive tactics in the invasive round Goby Neogobius melanostomus

NARCIS (Netherlands)

Bleeker, Katinka; Jong, De Karen; Kessel, Van Nils; Hinde, Camilla A.; Nagelkerke, Leopold A.J.

2017-01-01

Alternative reproductive tactics are characterized by the occurrence of discrete alternative morphs that differ in behavioural, morphological and physiological traits within the same sex. Although much effort has been made to describe the behaviour, morphology and physiology of such alternative

A dorsolateral prefrontal cortex semi-automatic segmenter

Science.gov (United States)

Al-Hakim, Ramsey; Fallon, James; Nain, Delphine; Melonakos, John; Tannenbaum, Allen

2006-03-01

Structural, functional, and clinical studies in schizophrenia have, for several decades, consistently implicated dysfunction of the prefrontal cortex in the etiology of the disease. Functional and structural imaging studies, combined with clinical, psychometric, and genetic analyses in schizophrenia have confirmed the key roles played by the prefrontal cortex and closely linked "prefrontal system" structures such as the striatum, amygdala, mediodorsal thalamus, substantia nigra-ventral tegmental area, and anterior cingulate cortices. The nodal structure of the prefrontal system circuit is the dorsal lateral prefrontal cortex (DLPFC), or Brodmann area 46, which also appears to be the most commonly studied and cited brain area with respect to schizophrenia. 1, 2, 3, 4 In 1986, Weinberger et. al. tied cerebral blood flow in the DLPFC to schizophrenia.1 In 2001, Perlstein et. al. demonstrated that DLPFC activation is essential for working memory tasks commonly deficient in schizophrenia. 2 More recently, groups have linked morphological changes due to gene deletion and increased DLPFC glutamate concentration to schizophrenia. 3, 4 Despite the experimental and clinical focus on the DLPFC in structural and functional imaging, the variability of the location of this area, differences in opinion on exactly what constitutes DLPFC, and inherent difficulties in segmenting this highly convoluted cortical region have contributed to a lack of widely used standards for manual or semi-automated segmentation programs. Given these implications, we developed a semi-automatic tool to segment the DLPFC from brain MRI scans in a reproducible way to conduct further morphological and statistical studies. The segmenter is based on expert neuroanatomist rules (Fallon-Kindermann rules), inspired by cytoarchitectonic data and reconstructions presented by Rajkowska and Goldman-Rakic. 5 It is semi-automated to provide essential user interactivity. We present our results and provide details on

Computation of complexity measures of morphologically significant zones decomposed from binary fractal sets via multiscale convexity analysis

International Nuclear Information System (INIS)

Lim, Sin Liang; Koo, Voon Chet; Daya Sagar, B.S.

2009-01-01

Multiscale convexity analysis of certain fractal binary objects-like 8-segment Koch quadric, Koch triadic, and random Koch quadric and triadic islands-is performed via (i) morphologic openings with respect to recursively changing the size of a template, and (ii) construction of convex hulls through half-plane closings. Based on scale vs convexity measure relationship, transition levels between the morphologic regimes are determined as crossover scales. These crossover scales are taken as the basis to segment binary fractal objects into various morphologically prominent zones. Each segmented zone is characterized through normalized morphologic complexity measures. Despite the fact that there is no notably significant relationship between the zone-wise complexity measures and fractal dimensions computed by conventional box counting method, fractal objects-whether they are generated deterministically or by introducing randomness-possess morphologically significant sub-zones with varied degrees of spatial complexities. Classification of realistic fractal sets and/or fields according to sub-zones possessing varied degrees of spatial complexities provides insight to explore links with the physical processes involved in the formation of fractal-like phenomena.

The Effects of Different Irrigation Regimes on the Morphological and Physiological Characteristics of Three Soybean Cultivars (Glycine max

Directory of Open Access Journals (Sweden)

N. Razmi

2013-11-01

Full Text Available To study the effect of different irrigation regimes on morphological and physiological characteristics of soybean cultivars, this experiment was conducted at Moghan Agricultural Research Center during 2009-2010 in Iran. The experiment was split plot based on randomized complete block design, with 3 replications. The main plots consisted of four irrigation regimes: I1, I2, I3 and I4 indicating irrigation after 60, 100, 140 and 180 mm evaporation from class A pan respectively and 3 soybean cultivars named Linford, L17 and Williams assigned in the sub plots. Results of combined analysis showed that with increasing irrigation intervals from I1 to I4 reduced growth period, plant height and leaf area index (LAI, number of nodes, branches and internodes significantly. Physiologic characteristics such as chlorophyll contain of leaves and relative water content (RWC were also affected by irrigation regimes. LAI in I1 was 4.94 reduced inI4to 3.70.Plant height of soybean cultivars were declined by 21% in I4 (irrigation after 180 mm evaporation as compared to I1 (irrigation after 60 mm evaporation. Soluble proline content of the leaves and electric conduction (EC on the other hand increases significantly. There was significant differences among cultivars concerning the vegetative and physiological characteristics. Willams and L17 cultivars produced the highest numbers of nodes (15.5 and internode length (4.95cm receptivity. The maximum proline content (65.6 µmol/F.W and relative water content (67.65% belonged to Linford cultivar. Interaction of irrigation regimes and cultivars was significant on plant hieght, LAI and proline content. Linford cultivar had more soluble proline under water limited condition and maintained higher LAI and plant height in I4 treatment as compared other treatments.

Segmentation of the Breast Region in Digital Mammograms and Detection of Masses

OpenAIRE

Armen Sahakyan; Hakop Sarukhanyan

2012-01-01

The mammography is the most effective procedure for an early diagnosis of the breast cancer. Finding an accurate and efficient breast region segmentation technique still remains a challenging problem in digital mammography. In this paper we explore an automated technique for mammogram segmentation. The proposed algorithm uses morphological preprocessing algorithm in order to: remove digitization noises and separate background region from the breast profile region for further edge detection an...

Morphological and physiological changes during drought in critical periods and their effects on maize yield

International Nuclear Information System (INIS)

Mohamed, A.A.

1985-01-01

It is of interest to find out the best way of increasing productivity of maize by water management as well as exposing grains to gamma rays to eliminate the effect of soil moisture stress. therefore this study was performed to investigate the mechanism of environmental stress on the morphology, physiology, yield and yield components of maize. three sets of experiments were performed to realize this target as follows: 1)effect of skipping an irrigation : two field experiments were conducted during 1980 and 1981 at the experimental farm of Ain shams university at Shoubra El-kheima, Kaluobia governorate to study the effect of skipping one irrigation at a certain stage of growth on maize plant. 2) effect of water deficit: two field experiments were conducted in 1980 and 1981 at the experimental farm of Ain Shams university at Shubra El-kheima, Kalubia governorate to study the effect of soil moisture deficit on maize plant. 3) effect of salinity and gamma radiation: two pot experiments were performed in the greenhouse of agriculture department for soils and water research, atomic energy establishment, at Inshas in 1981 and 1982 growth seasons to study the effect of salinity and gamma rays on maize plant

Morphological operation based dense houses extraction from DSM

OpenAIRE

Li, Y.; Zhu, L.; Tachibana, K.; Shimamura, H.

2014-01-01

This paper presents a method of reshaping and extraction of markers and masks of the dense houses from the DSM based on mathematical morphology (MM). Houses in a digital surface model (DSM) are almost joined together in high-density housing areas, and most segmentation methods cannot completely separate them. We propose to label the markers of the buildings firstly and segment them into masks by watershed then. To avoid detecting more than one marker for a house or no marker at all d...

Evaluation of physiological parameters and their influence on doses calculated from two alternative dosimetric models for the gastrointestinal tract

International Nuclear Information System (INIS)

Lessard, E.T.; Skrable, K.W.

1981-01-01

Two dosimetric models, the catenary compartmental model and the slug flow model are examined using three sets of physiological parameters. The impact of physiological parameters on the dosimetry of the tract is illustrated by comparing calculated maximum permissible daily activity ingestion rates for single, unabsorbed, particle emitting radionuclides with an effective energy term of unity. The conclusions drawn from this intercomparison of six different cases are: (1) Current dosimetric models which use physiological parameters described in this article do not significantly disagree, and (2) For the determination of average dose equivalent rates to segments of the tract due to chronic, long term ingestion of any radionuclide, the catenary compartmental model is a mathematically simpler approach. The catenary model in addition has certain advantages for the calculation of the photon dose contribution to one segment from cumulated activity (disintegrations) in another segment

Physiology of in vitro culture

Directory of Open Access Journals (Sweden)

Maria Jesús Cañal

2001-01-01

Full Text Available The culture procedures described up to the eighties, did not made any mention to the environmental control of in vitro plant development. However, growth rate, development and many of the physiologic-morphologic features of the in vitro grown plants are influenced by the culture vessel. The increasing knowledge about the environmental control of culture vessels under sterile conditions, is helping to change micorpropagation procedures. The in vitro environment with lower rate ventilation, brings about low flow rates of matter and energy, with minimum variations of temperature, high relative humidity and large daily changes of the concentration of CO2 inside the culture vessel. The type of culture vessel (size, shape, fabric and closing system can influence the evolution of the atmosphere along the time of culture. Although submitted to different stresses factors plant can be grown in vitro, but plants can be faulty in their anatomy, morphology and physiology. As a consequence, these plants shown a phenotype unable to survive to ex vitro conditions. Different strategies can be used to control the atmosphere along the different phases of micropropagation, in heterotrophic, mixotrophic or autotrophic cultures. The election of the best strategy will be based on different factors as species, number of transplantes required, or quality-price relationship. enviromental control, tissue culture, micropropagation Keywords: in vitro enviromental, characteristic physiology,

Automatic classification of transient ischaemic and transient non-ischaemic heart-rate related ST segment deviation episodes in ambulatory ECG records

International Nuclear Information System (INIS)

Faganeli, J; Jager, F

2010-01-01

In ambulatory ECG records, besides transient ischaemic ST segment deviation episodes, there are also transient non-ischaemic heart-rate related ST segment deviation episodes present, which appear only due to a change in heart rate and thus complicate automatic detection of true ischaemic episodes. The goal of this work was to automatically classify these two types of episodes. The tested features to classify the ST segment deviation episodes were changes of heart rate, changes of the Mahalanobis distance of the first five Karhunen–Loève transform (KLT) coefficients of the QRS complex, changes of time-domain morphologic parameters of the ST segment and changes of the Legendre orthonormal polynomial coefficients of the ST segment. We chose Legendre basis functions because they best fit typical shapes of the ST segment morphology, thus allowing direct insight into the ST segment morphology changes through the feature space. The classification was performed with the help of decision trees. We tested the classification method using all records of the Long-Term ST Database on all ischaemic and all non-ischaemic heart-rate related deviation episodes according to annotation protocol B. In order to predict the real-world performance of the classification we used second-order aggregate statistics, gross and average statistics, and the bootstrap method. We obtained the best performance when we combined the heart-rate features, the Mahalanobis distance and the Legendre orthonormal polynomial coefficient features, with average sensitivity of 98.1% and average specificity of 85.2%

Muscles of mastication model-based MR image segmentation

Energy Technology Data Exchange (ETDEWEB)

Ng, H.P. [NUS Graduate School for Integrative Sciences and Engineering, Singapore (Singapore); Agency for Science Technology and Research, Singapore (Singapore). Biomedical Imaging Lab.; Ong, S.H. [National Univ. of Singapore (Singapore). Dept. of Electrical and Computer Engineering; National Univ. of Singapore (Singapore). Div. of Bioengineering; Hu, Q.; Nowinski, W.L. [Agency for Science Technology and Research, Singapore (Singapore). Biomedical Imaging Lab.; Foong, K.W.C. [NUS Graduate School for Integrative Sciences and Engineering, Singapore (Singapore); National Univ. of Singapore (Singapore). Dept. of Preventive Dentistry; Goh, P.S. [National Univ. of Singapore (Singapore). Dept. of Diagnostic Radiology

2006-11-15

Objective: The muscles of mastication play a major role in the orodigestive system as the principal motive force for the mandible. An algorithm for segmenting these muscles from magnetic resonance (MR) images was developed and tested. Materials and methods: Anatomical information about the muscles of mastication in MR images is used to obtain the spatial relationships relating the muscle region of interest (ROI) and head ROI. A model-based technique that involves the spatial relationships between head and muscle ROIs as well as muscle templates is developed. In the segmentation stage, the muscle ROI is derived from the model. Within the muscle ROI, anisotropic diffusion is applied to smooth the texture, followed by thresholding to exclude bone and fat. The muscle template and morphological operators are employed to obtain an initial estimate of the muscle boundary, which then serves as the input contour to the gradient vector flow snake that iterates to the final segmentation. Results: The method was applied to segmentation of the masseter, lateral pterygoid and medial pterygoid in 75 images. The overlap indices (K) achieved are 91.4, 92.1 and 91.2%, respectively. Conclusion: A model-based method for segmenting the muscles of mastication from MR images was developed and tested. The results show good agreement between manual and automatic segmentations. (orig.)

Muscles of mastication model-based MR image segmentation

International Nuclear Information System (INIS)

Ng, H.P.; Agency for Science Technology and Research, Singapore; Ong, S.H.; National Univ. of Singapore; Hu, Q.; Nowinski, W.L.; Foong, K.W.C.; National Univ. of Singapore; Goh, P.S.

2006-01-01

Objective: The muscles of mastication play a major role in the orodigestive system as the principal motive force for the mandible. An algorithm for segmenting these muscles from magnetic resonance (MR) images was developed and tested. Materials and methods: Anatomical information about the muscles of mastication in MR images is used to obtain the spatial relationships relating the muscle region of interest (ROI) and head ROI. A model-based technique that involves the spatial relationships between head and muscle ROIs as well as muscle templates is developed. In the segmentation stage, the muscle ROI is derived from the model. Within the muscle ROI, anisotropic diffusion is applied to smooth the texture, followed by thresholding to exclude bone and fat. The muscle template and morphological operators are employed to obtain an initial estimate of the muscle boundary, which then serves as the input contour to the gradient vector flow snake that iterates to the final segmentation. Results: The method was applied to segmentation of the masseter, lateral pterygoid and medial pterygoid in 75 images. The overlap indices (K) achieved are 91.4, 92.1 and 91.2%, respectively. Conclusion: A model-based method for segmenting the muscles of mastication from MR images was developed and tested. The results show good agreement between manual and automatic segmentations. (orig.)

Morphological development of the small intestine in White Roman ...

African Journals Online (AJOL)

Customer

2013-02-06

Feb 6, 2013 ... intestine using the light microscope and scanning electron microscope in order to ... in morphology and structure of small intestinal segments in geese from ... in the multi-regression model (Steel and Torrie, 1960). RESULTS.

STUDY OF IMAGE SEGMENTATION TECHNIQUES ON RETINAL IMAGES FOR HEALTH CARE MANAGEMENT WITH FAST COMPUTING

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Srikanth Prabhu

2012-02-01

Full Text Available The role of segmentation in image processing is to separate foreground from background. In this process, the features become clearly visible when appropriate filters are applied on the image. In this paper emphasis has been laid on segmentation of biometric retinal images to filter out the vessels explicitly for evaluating the bifurcation points and features for diabetic retinopathy. Segmentation on images is performed by calculating ridges or morphology. Ridges are those areas in the images where there is sharp contrast in features. Morphology targets the features using structuring elements. Structuring elements are of different shapes like disk, line which is used for extracting features of those shapes. When segmentation was performed on retinal images problems were encountered during image pre-processing stage. Also edge detection techniques have been deployed to find out the contours of the retinal images. After the segmentation has been performed, it has been seen that artifacts of the retinal images have been minimal when ridge based segmentation technique was deployed. In the field of Health Care Management, image segmentation has an important role to play as it determines whether a person is normal or having any disease specially diabetes. During the process of segmentation, diseased features are classified as diseased one’s or artifacts. The problem comes when artifacts are classified as diseased ones. This results in misclassification which has been discussed in the analysis Section. We have achieved fast computing with better performance, in terms of speed for non-repeating features, when compared to repeating features.

Morphological Characters and Histology of Pheretima darnleiensis

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ANDY DARMAWAN

2012-03-01

Full Text Available Pheretima darnleiensis is a native earthworm of Southeast Asia, India, and Japan. Although it is commonly found in Indonesia, the earthworm has never been studied well. This study was aimed to examine the morphological characters and structure of its several organs for an identification purpose, which is important for the earthworm culture. Earthworms were collected in a plot of 55-150 × 55-150 cm width and 20 cm depth at Bogor Agricultural University in Darmaga and Baranangsiang Campuses by hand sorting method. Examinations were carried out on its external as well as internal characters. The histology of the organs was studied using paraffin method. The observed characters on P. darnleiensis were the presence of prostate gland, one pair of male pores on segment XVIII, a cylindrical body with perichaetine setae, caeca on segment XXVII, copulatory pouches without diverticula and stalked glands, bithecal spermatheca with nephridia, and the first spermathecal pore on segment 4/5. In addition, other characters found on P. darnleiensis were the presence of an annular clitellum on segment XIV-XVI, an epilobus prostomium with open base, approximately 40 single pointed setae on segment XIII, one midventral female pore on segment XIV, one pair of lateroventral male pores on segment XVIII, four pairs of lateroventral spermathecal pores on segment 4/5, 5/6, 6/7, 7/8, and the first middorsal dorsal pore on segment 12/13. The histology of P. darnleiensis showed basic structure as found in other earthworms.

Deep convolutional neural network and 3D deformable approach for tissue segmentation in musculoskeletal magnetic resonance imaging.

Science.gov (United States)

Liu, Fang; Zhou, Zhaoye; Jang, Hyungseok; Samsonov, Alexey; Zhao, Gengyan; Kijowski, Richard

2018-04-01

To describe and evaluate a new fully automated musculoskeletal tissue segmentation method using deep convolutional neural network (CNN) and three-dimensional (3D) simplex deformable modeling to improve the accuracy and efficiency of cartilage and bone segmentation within the knee joint. A fully automated segmentation pipeline was built by combining a semantic segmentation CNN and 3D simplex deformable modeling. A CNN technique called SegNet was applied as the core of the segmentation method to perform high resolution pixel-wise multi-class tissue classification. The 3D simplex deformable modeling refined the output from SegNet to preserve the overall shape and maintain a desirable smooth surface for musculoskeletal structure. The fully automated segmentation method was tested using a publicly available knee image data set to compare with currently used state-of-the-art segmentation methods. The fully automated method was also evaluated on two different data sets, which include morphological and quantitative MR images with different tissue contrasts. The proposed fully automated segmentation method provided good segmentation performance with segmentation accuracy superior to most of state-of-the-art methods in the publicly available knee image data set. The method also demonstrated versatile segmentation performance on both morphological and quantitative musculoskeletal MR images with different tissue contrasts and spatial resolutions. The study demonstrates that the combined CNN and 3D deformable modeling approach is useful for performing rapid and accurate cartilage and bone segmentation within the knee joint. The CNN has promising potential applications in musculoskeletal imaging. Magn Reson Med 79:2379-2391, 2018. © 2017 International Society for Magnetic Resonance in Medicine. © 2017 International Society for Magnetic Resonance in Medicine.

FogBank: a single cell segmentation across multiple cell lines and image modalities.

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Chalfoun, Joe; Majurski, Michael; Dima, Alden; Stuelten, Christina; Peskin, Adele; Brady, Mary

2014-12-30

Many cell lines currently used in medical research, such as cancer cells or stem cells, grow in confluent sheets or colonies. The biology of individual cells provide valuable information, thus the separation of touching cells in these microscopy images is critical for counting, identification and measurement of individual cells. Over-segmentation of single cells continues to be a major problem for methods based on morphological watershed due to the high level of noise in microscopy cell images. There is a need for a new segmentation method that is robust over a wide variety of biological images and can accurately separate individual cells even in challenging datasets such as confluent sheets or colonies. We present a new automated segmentation method called FogBank that accurately separates cells when confluent and touching each other. This technique is successfully applied to phase contrast, bright field, fluorescence microscopy and binary images. The method is based on morphological watershed principles with two new features to improve accuracy and minimize over-segmentation. First, FogBank uses histogram binning to quantize pixel intensities which minimizes the image noise that causes over-segmentation. Second, FogBank uses a geodesic distance mask derived from raw images to detect the shapes of individual cells, in contrast to the more linear cell edges that other watershed-like algorithms produce. We evaluated the segmentation accuracy against manually segmented datasets using two metrics. FogBank achieved segmentation accuracy on the order of 0.75 (1 being a perfect match). We compared our method with other available segmentation techniques in term of achieved performance over the reference data sets. FogBank outperformed all related algorithms. The accuracy has also been visually verified on data sets with 14 cell lines across 3 imaging modalities leading to 876 segmentation evaluation images. FogBank produces single cell segmentation from confluent cell

Morphology of the Physiological Apical Foramen in Maxillary and Mandibular First Molars

OpenAIRE

Abarca, J.; Zaror, C.; Monardes, H.; Hermosilla, V.; Muñoz, C.; Cantin, M.

2014-01-01

Information regarding the anatomy of the physiological apical foramen is limited. Knowing its diameter and shapes contributes to clinical work, specifically to the cleaning and shaping of the apical third. The aim of this ex vivo study was to determine the minimum and maximum diameters and shape of the physiological apical foramen in the roots of maxillary and mandibular first molars. A descriptive study was conducted on 89 recently extracted first molars. Roots 3–5 mm from the apex were sect...

MIA-Clustering: a novel method for segmentation of paleontological material

Directory of Open Access Journals (Sweden)

Christopher J. Dunmore

2018-02-01

Full Text Available Paleontological research increasingly uses high-resolution micro-computed tomography (μCT to study the inner architecture of modern and fossil bone material to answer important questions regarding vertebrate evolution. This non-destructive method allows for the measurement of otherwise inaccessible morphology. Digital measurement is predicated on the accurate segmentation of modern or fossilized bone from other structures imaged in μCT scans, as errors in segmentation can result in inaccurate calculations of structural parameters. Several approaches to image segmentation have been proposed with varying degrees of automation, ranging from completely manual segmentation, to the selection of input parameters required for computational algorithms. Many of these segmentation algorithms provide speed and reproducibility at the cost of flexibility that manual segmentation provides. In particular, the segmentation of modern and fossil bone in the presence of materials such as desiccated soft tissue, soil matrix or precipitated crystalline material can be difficult. Here we present a free open-source segmentation algorithm application capable of segmenting modern and fossil bone, which also reduces subjective user decisions to a minimum. We compare the effectiveness of this algorithm with another leading method by using both to measure the parameters of a known dimension reference object, as well as to segment an example problematic fossil scan. The results demonstrate that the medical image analysis-clustering method produces accurate segmentations and offers more flexibility than those of equivalent precision. Its free availability, flexibility to deal with non-bone inclusions and limited need for user input give it broad applicability in anthropological, anatomical, and paleontological contexts.

MIA-Clustering: a novel method for segmentation of paleontological material.

Science.gov (United States)

Dunmore, Christopher J; Wollny, Gert; Skinner, Matthew M

2018-01-01

Paleontological research increasingly uses high-resolution micro-computed tomography (μCT) to study the inner architecture of modern and fossil bone material to answer important questions regarding vertebrate evolution. This non-destructive method allows for the measurement of otherwise inaccessible morphology. Digital measurement is predicated on the accurate segmentation of modern or fossilized bone from other structures imaged in μCT scans, as errors in segmentation can result in inaccurate calculations of structural parameters. Several approaches to image segmentation have been proposed with varying degrees of automation, ranging from completely manual segmentation, to the selection of input parameters required for computational algorithms. Many of these segmentation algorithms provide speed and reproducibility at the cost of flexibility that manual segmentation provides. In particular, the segmentation of modern and fossil bone in the presence of materials such as desiccated soft tissue, soil matrix or precipitated crystalline material can be difficult. Here we present a free open-source segmentation algorithm application capable of segmenting modern and fossil bone, which also reduces subjective user decisions to a minimum. We compare the effectiveness of this algorithm with another leading method by using both to measure the parameters of a known dimension reference object, as well as to segment an example problematic fossil scan. The results demonstrate that the medical image analysis-clustering method produces accurate segmentations and offers more flexibility than those of equivalent precision. Its free availability, flexibility to deal with non-bone inclusions and limited need for user input give it broad applicability in anthropological, anatomical, and paleontological contexts.

Development of inter-specific chromosomes segment substitution libraries (CSSL) in rice

Science.gov (United States)

Six libraries of inter-specific Chromosome Segment Substitution Lines (CSSLs) of rice are being developed as pre-breeding materials and genetic stocks. Three accessions of O. rufipogon were selected as donors, based on phylogenetic, geographical and morphological divergence, and crossed with two rec...

The segmentation of the human brain; a message to the neuroimaging community from an adjacent domain of the neurosciences

NARCIS (Netherlands)

Nieuwenhuys, R.

2018-01-01

Morphological and genoarchitectonic studies have conclusively shown that the human brain (and that of all vertebrates) is segmented i. e. is fundamentally composed of a number of rostrocaudally arranged brain segments or neuromeres. However in the current neuroimaging literature the term

Multi-segment foot kinematics and plantar fascia strain during treadmill and overground running

OpenAIRE

Sinclair, Jonathan Kenneth; Taylor, Paul John; Vincent, Hayley

2014-01-01

Although physiologically beneficial, running is known to be associated with a high incidence of chronic injuries. Excessive coronal and transverse plane motions of the foot segments and strain experienced by the plantar fascia are linked to the development of a number of chronic injuries. This study examined differences in multi-segment foot kinematics and plantar fascia strain during treadmill and overground running. Twelve male recreational runners ran at 4.0 m.s-1 in both treadmill and ove...

Effect of Small-Scale Turbulence on the Physiology and Morphology of Two Bloom-Forming Cyanobacteria.

Science.gov (United States)

Xiao, Yan; Li, Zhe; Li, Chao; Zhang, Zhen; Guo, Jinsong

2016-01-01

The main goal of the present work is to test the hypothesis that small-scale turbulence affected physiological activities and the morphology of cyanobacteria in high turbulence environments. Using quantified turbulence in a stirring device, we conducted one set of experiments on cultures of two strains of cyanobacteria with different phenotypes; i.e., unicellular Microcystis flos-aquae and colonial Anabaena flos-aquae. The effect of small-scale turbulence examined varied from 0 to 8.01×10-2 m2s-3, covering the range of turbulence intensities experienced by cyanobacteria in the field. The results of photosynthesis activity and the cellular chlorophyll a in both strains did not change significantly among the turbulence levels, indicating that the potential indirect effects of a light regime under the gradient of turbulent mixing could be ignored. However, the experiments demonstrated that small-scale turbulence significantly modulated algal nutrient uptake and growth in comparison to the stagnant control. Cellular N and C of the two stains showed approximately the same responses, resulting in a similar pattern of C/N ratios. Moreover, the change in the phosphate uptake rate was similar to that of growth in two strains, which implied that growth characteristic responses to turbulence may be dependent on the P strategy, which was correlated with accumulation of polyphosphate. Additionally, our results also showed the filament length of A. flos-aquae decreased in response to high turbulence, which could favor enhancement of the nutrient uptake. These findings suggested that both M. flos-aquae and A. flos-aquae adjust their growth rates in response to turbulence levels in the ways of asynchronous cellular stoichiometry of C, N, and P, especially the phosphorus strategy, to improve the nutrient application efficiency. The fact that adaptation strategies of cyanobacteria diversely to turbulence depending on their physiological conditions presents a good example to

Methods and systems for the processing of physiological signals

International Nuclear Information System (INIS)

Cosnac, B. de; Gariod, R.; Max, J.; Monge, V.

1975-01-01

This note is a general survey of the processing of physiological signals. After an introduction about electrodes and their limitations, the physiological nature of the main signals are shortly recalled. Different methods (signal averaging, spectral analysis, shape morphological analysis) are described as applications to the fields of magnetocardiography, electro-encephalography, cardiography, electronystagmography. As for processing means (single portable instruments and programmable), they are described through the example of application to rheography and to the Plurimat'S general system. As a conclusion the methods of signal processing are dominated by the morphological analysis of curves and by the necessity of a more important introduction of the statistical classification. As for the instruments, microprocessors will appear but specific operators linked to computer will certainly grow [fr

Automatic segmentation of liver structure in CT images

International Nuclear Information System (INIS)

Bae, K.T.; Giger, M.L.; Chen, C.; Kahn, C.E. Jr.

1993-01-01

The segmentation and three-dimensional representation of the liver from a computed tomography (CT) scan is an important step in many medical applications, such as in the surgical planning for a living-donor liver transplant and in the automatic detection and documentation of pathological states. A method is being developed to automatically extract liver structure from abdominal CT scans using a priori information about liver morphology and digital image-processing techniques. Segmentation is performed sequentially image-by-image (slice-by-slice), starting with a reference image in which the liver occupies almost the entire right half of the abdomen cross section. Image processing techniques include gray-level thresholding, Gaussian smoothing, and eight-point connectivity tracking. For each case, the shape, size, and pixel density distribution of the liver are recorded for each CT image and used in the processing of other CT images. Extracted boundaries of the liver are smoothed using mathematical morphology techniques and B-splines. Computer-determined boundaries were compared with those drawn by a radiologist. The boundary descriptions from the two methods were in agreement, and the calculated areas were within 10%

Automatic segmentation of mandible in panoramic x-ray.

Science.gov (United States)

Abdi, Amir Hossein; Kasaei, Shohreh; Mehdizadeh, Mojdeh

2015-10-01

As the panoramic x-ray is the most common extraoral radiography in dentistry, segmentation of its anatomical structures facilitates diagnosis and registration of dental records. This study presents a fast and accurate method for automatic segmentation of mandible in panoramic x-rays. In the proposed four-step algorithm, a superior border is extracted through horizontal integral projections. A modified Canny edge detector accompanied by morphological operators extracts the inferior border of the mandible body. The exterior borders of ramuses are extracted through a contour tracing method based on the average model of mandible. The best-matched template is fetched from the atlas of mandibles to complete the contour of left and right processes. The algorithm was tested on a set of 95 panoramic x-rays. Evaluating the results against manual segmentations of three expert dentists showed that the method is robust. It achieved an average performance of [Formula: see text] in Dice similarity, specificity, and sensitivity.

Plasticity in seedling morphology, biomass allocation and physiology among ten temperate tree species in response to shade is related to shade tolerance and not leaf habit.

Science.gov (United States)

Chmura, D J; Modrzyński, J; Chmielarz, P; Tjoelker, M G

2017-03-01

Mechanisms of shade tolerance in tree seedlings, and thus growth in shade, may differ by leaf habit and vary with ontogeny following seed germination. To examine early responses of seedlings to shade in relation to morphological, physiological and biomass allocation traits, we compared seedlings of 10 temperate species, varying in their leaf habit (broadleaved versus needle-leaved) and observed tolerance to shade, when growing in two contrasting light treatments - open (about 20% of full sunlight) and shade (about 5% of full sunlight). We analyzed biomass allocation and its response to shade using allometric relationships. We also measured leaf gas exchange rates and leaf N in the two light treatments. Compared to the open treatment, shading significantly increased traits typically associated with high relative growth rate (RGR) - leaf area ratio (LAR), specific leaf area (SLA), and allocation of biomass into leaves, and reduced seedling mass and allocation to roots, and net assimilation rate (NAR). Interestingly, RGR was not affected by light treatment, likely because of morphological and physiological adjustments in shaded plants that offset reductions of in situ net assimilation of carbon in shade. Leaf area-based rates of light-saturated leaf gas exchange differed among species groups, but not between light treatments, as leaf N concentration increased in concert with increased SLA in shade. We found little evidence to support the hypothesis of a increased plasticity of broadleaved species compared to needle-leaved conifers in response to shade. However, an expectation of higher plasticity in shade-intolerant species than in shade-tolerant ones, and in leaf and plant morphology than in biomass allocation was supported across species of contrasting leaf habit. © 2016 German Botanical Society and The Royal Botanical Society of the Netherlands.

Characterization of dynamic physiology of the bladder by optical coherence tomography

Science.gov (United States)

Yuan, Zhijia; Keng, Kerri; Pan, Rubin; Ren, Hugang; Du, Congwu; Kim, Jason; Pan, Yingtian

2012-03-01

Because of its high spatial resolution and noninvasive imaging capabilities, optical coherence tomography has been used to characterize the morphological details of various biological tissues including urinary bladder and to diagnose their alternations (e.g., cancers). In addition to static morphology, the dynamic features of tissue morphology can provide important information that can be used to diagnose the physiological and functional characteristics of biological tissues. Here, we present the imaging studies based on optical coherence tomography to characterize motion related physiology and functions of rat bladder detrusor muscles and compared the results with traditional biomechanical measurements. Our results suggest that optical coherence tomography is capable of providing quantitative evaluation of contractile functions of intact bladder (without removing bladder epithelium and connective tissue), which is potentially of more clinical relevance for future clinical diagnosis - if incorporated with cystoscopic optical coherence tomography.

Morphological and molecular characterization of L-methioninase ...

African Journals Online (AJOL)

Six species of L-methioninase producing Aspergillus species, isolated from Egyptian soil, were selected for comprehensive morphotypic and molecular characterization. Based on morphological and physiological features, these isolates were identified as Aspergillus flavipes, Aspergillus carneus, Aspergillus flavus, ...

Clinical usefulness of physiological components obtained by factor analysis

International Nuclear Information System (INIS)

Ohtake, Eiji; Murata, Hajime; Matsuda, Hirofumi; Yokoyama, Masao; Toyama, Hinako; Satoh, Tomohiko.

1989-01-01

The clinical usefulness of physiological components obtained by factor analysis was assessed in 99m Tc-DTPA renography. Using definite physiological components, another dynamic data could be analyzed. In this paper, the dynamic renal function after ESWL (Extracorporeal Shock Wave Lithotripsy) treatment was examined using physiological components in the kidney before ESWL and/or a normal kidney. We could easily evaluate the change of renal functions by this method. The usefulness of a new analysis using physiological components was summarized as follows: 1) The change of a dynamic function could be assessed in quantity as that of the contribution ratio. 2) The change of a sick condition could be morphologically evaluated as that of the functional image. (author)

CNNs for electron microscopy segmentation

OpenAIRE

García-Amorena García, Pablo

2013-01-01

In the framework of Biomedicine, mitochondria are known to play an important role in neural function. Recent studies show mitochondrial morphology to be crucial to cellular physiology and synaptic function, and a link between mitochondrial defects and neuro-degenerative diseases is strongly suspected. Electron microscopy (EM), with its very high resolution in all three directions, is one of the key tools to look more closely into these tissues, but the huge amounts of data it produces m...

Root bacterial endophytes alter plant phenotype, but not physiology

DEFF Research Database (Denmark)

Henning, Jeremiah A.; Weston, David J.; Pelletier, Dale A.

2016-01-01

(root:shoot, biomass production, root and leaf growth rates) and physiological traits (chlorophyll content, net photosynthesis, net photosynthesis at saturating light-Asat, and saturating CO2-Amax). Overall, we found that bacterial root endophyte infection increased root growth rate up to 184% and leaf...... growth rate up to 137% relative to non-inoculated control plants, evidence that plants respond to bacteria by modifying morphology. However, endophyte inoculation had no influence on total plant biomass and photosynthetic traits (net photosynthesis, chlorophyll content). In sum, bacterial inoculation did......Plant traits, such as root and leaf area, influence how plants interact with their environment and the diverse microbiota living within plants can influence plant morphology and physiology. Here, we explored how three bacterial strains isolated from the Populus root microbiome, influenced plant...

Automated quantitative 3D analysis of aorta size, morphology, and mural calcification distributions

Energy Technology Data Exchange (ETDEWEB)

Kurugol, Sila, E-mail: sila.kurugol@childrens.harvard.edu; Come, Carolyn E.; Diaz, Alejandro A.; Ross, James C.; Washko, George R.; San Jose Estepar, Raul [Brigham and Women’s Hospital and Harvard Medical School, Boston, Massachusetts 02115 (United States); Kinney, Greg L.; Black-Shinn, Jennifer L.; Hokanson, John E. [Colorado School of Public Health, University of Colorado Denver, Aurora, Colorado 80045 (United States); Budoff, Matthew J. [Los Angeles Biomedical Research Center at Harbor and UCLA Medical Center, Torrance, California 90502 (United States)

2015-09-15

Purpose: The purpose of this work is to develop a fully automated pipeline to compute aorta morphology and calcification measures in large cohorts of CT scans that can be used to investigate the potential of these measures as imaging biomarkers of cardiovascular disease. Methods: The first step of the automated pipeline is aorta segmentation. The algorithm the authors propose first detects an initial aorta boundary by exploiting cross-sectional circularity of aorta in axial slices and aortic arch in reformatted oblique slices. This boundary is then refined by a 3D level-set segmentation that evolves the boundary to the location of nearby edges. The authors then detect the aortic calcifications with thresholding and filter out the false positive regions due to nearby high intensity structures based on their anatomical location. The authors extract the centerline and oblique cross sections of the segmented aortas and compute the aorta morphology and calcification measures of the first 2500 subjects from COPDGene study. These measures include volume and number of calcified plaques and measures of vessel morphology such as average cross-sectional area, tortuosity, and arch width. Results: The authors computed the agreement between the algorithm and expert segmentations on 45 CT scans and obtained a closest point mean error of 0.62 ± 0.09 mm and a Dice coefficient of 0.92 ± 0.01. The calcification detection algorithm resulted in an improved true positive detection rate of 0.96 compared to previous work. The measurements of aorta size agreed with the measurements reported in previous work. The initial results showed associations of aorta morphology with calcification and with aging. These results may indicate aorta stiffening and unwrapping with calcification and aging. Conclusions: The authors have developed an objective tool to assess aorta morphology and aortic calcium plaques on CT scans that may be used to provide information about the presence of cardiovascular

Spatiotemporal Segmentation and Modeling of the Mitral Valve in Real-Time 3D Echocardiographic Images.

Science.gov (United States)

Pouch, Alison M; Aly, Ahmed H; Lai, Eric K; Yushkevich, Natalie; Stoffers, Rutger H; Gorman, Joseph H; Cheung, Albert T; Gorman, Joseph H; Gorman, Robert C; Yushkevich, Paul A

2017-09-01

Transesophageal echocardiography is the primary imaging modality for preoperative assessment of mitral valves with ischemic mitral regurgitation (IMR). While there are well known echocardiographic insights into the 3D morphology of mitral valves with IMR, such as annular dilation and leaflet tethering, less is understood about how quantification of valve dynamics can inform surgical treatment of IMR or predict short-term recurrence of the disease. As a step towards filling this knowledge gap, we present a novel framework for 4D segmentation and geometric modeling of the mitral valve in real-time 3D echocardiography (rt-3DE). The framework integrates multi-atlas label fusion and template-based medial modeling to generate quantitatively descriptive models of valve dynamics. The novelty of this work is that temporal consistency in the rt-3DE segmentations is enforced during both the segmentation and modeling stages with the use of groupwise label fusion and Kalman filtering. The algorithm is evaluated on rt-3DE data series from 10 patients: five with normal mitral valve morphology and five with severe IMR. In these 10 data series that total 207 individual 3DE images, each 3DE segmentation is validated against manual tracing and temporal consistency between segmentations is demonstrated. The ultimate goal is to generate accurate and consistent representations of valve dynamics that can both visually and quantitatively provide insight into normal and pathological valve function.

Automatic temporal segment detection via bilateral long short-term memory recurrent neural networks

Science.gov (United States)

Sun, Bo; Cao, Siming; He, Jun; Yu, Lejun; Li, Liandong

2017-03-01

Constrained by the physiology, the temporal factors associated with human behavior, irrespective of facial movement or body gesture, are described by four phases: neutral, onset, apex, and offset. Although they may benefit related recognition tasks, it is not easy to accurately detect such temporal segments. An automatic temporal segment detection framework using bilateral long short-term memory recurrent neural networks (BLSTM-RNN) to learn high-level temporal-spatial features, which synthesizes the local and global temporal-spatial information more efficiently, is presented. The framework is evaluated in detail over the face and body database (FABO). The comparison shows that the proposed framework outperforms state-of-the-art methods for solving the problem of temporal segment detection.

Changes in Anterior Segment Morphology and Predictors of Angle Widening after Laser Iridotomy in South Indian Eyes.

Science.gov (United States)

Zebardast, Nazlee; Kavitha, Srinivasan; Krishnamurthy, Palaniswamy; Friedman, David S; Nongpiur, Monisha E; Aung, Tin; Quigley, Harry A; Ramulu, Pradeep Y; Venkatesh, Rengaraj

2016-12-01

To compare anterior segment optical coherence tomography (ASOCT) angle morphology before and after laser peripheral iridotomy (LPI) in a cohort of South Indian subjects with primary angle-closure suspect (PACS) or primary angle-closure/primary angle-closure glaucoma (PAC/PACG) and to examine baseline parameters associated with angle widening. Prospective observational study. A total of 244 subjects aged ≥30 years with PACS or PAC/PACG in at least 1 eye. The ASOCT images and angle gonioscopic grades were analyzed for all subjects at baseline and 2 weeks after LPI. Multivariable linear and logistic regression models were used to determine predictors of angle widening (change in mean angle opening distance [AOD750]) and angle opening (all 4 quadrants with trabecular meshwork [TM] visible on gonioscopy after LPI). Change in ASOCT parameters with LPI and baseline predictors of angle widening. Laser peripheral iridotomy resulted in angle widening on ASOCT with significant increases in AOD750, angle recess area, and trabecular iris surface area (P gonioscopy, although some degree of persistent iridotrabecular contact was present in approximately half of PACS eyes and approximately two thirds of PAC/PACG eyes on gonioscopy. The greatest widening by ASOCT was observed in eyes with features most consistent with greater baseline pupillary block. Copyright © 2016 American Academy of Ophthalmology. All rights reserved.

Segmentation of kidney using C-V model and anatomy priors

Science.gov (United States)

Lu, Jinghua; Chen, Jie; Zhang, Juan; Yang, Wenjia

2007-12-01

This paper presents an approach for kidney segmentation on abdominal CT images as the first step of a virtual reality surgery system. Segmentation for medical images is often challenging because of the objects' complicated anatomical structures, various gray levels, and unclear edges. A coarse to fine approach has been applied in the kidney segmentation using Chan-Vese model (C-V model) and anatomy prior knowledge. In pre-processing stage, the candidate kidney regions are located. Then C-V model formulated by level set method is applied in these smaller ROI, which can reduce the calculation complexity to a certain extent. At last, after some mathematical morphology procedures, the specified kidney structures have been extracted interactively with prior knowledge. The satisfying results on abdominal CT series show that the proposed approach keeps all the advantages of C-V model and overcome its disadvantages.

Physiological and morphological determinants of maximal expiratory flow in chronic obstructive lung disease

NARCIS (Netherlands)

H.A.W.M. Tiddens (Harm); J.M. Bogaard (Jan); J.C. de Jongste (Johan); W.C.J. Hop (Wim); H.O. Coxson (Harvey); P.D. Pare

1996-01-01

textabstractMaximal expiratory flow in chronic obstructive pulmonary disease (COPD) could be reduced by three different mechanisms; loss of lung elastic recoil, decreased airway conductance upstream of flow-limiting segments; and increased collapsibility of airways.

Species-Specific Morphological and Physiological Responses of Four Korean Native Trees Species under Elevated CO2 Concentration using Open Top Chamber

Science.gov (United States)

Song, W.; Byeon, S.; Lee, H.; Lee, M.; Lim, H.; Kim, H. S.

2017-12-01

For the last three years, studies on the morphological and physiological characteristics were carried out for four tree species (Pinus densiflora, Quercus acutissima, Sorbus alnifolia and Fraxinus rhynchophylla) which are representative native species of Korea. We used a control site and three open top chambers (con, chamber 1, 2, and 3) which were exposed to ambient and two elevated CO2 concentration ([CO2]); the concentration were the ambient (400ppm) for control and chamber 1 and 1.4 times (560ppm) and 1.8 times (720 ppm) of the atmosphere for chamber 2 and 3, respectively. Leaf mass per area (LMA), stomatal size, density and area were examined to investigate the morphological changes of the trees. Among four species, F. rhynchophylla increased their LMA with increase of CO2 concentration. In addition, F. rhynchophylla showed the decrease of stomatal density significantly (p-value=0.02), while there was no difference in stoma size. These findings resulted in 25.5% and 38.7% decrease of stomata area per unit leaf area calculated by multiplying the size and density of the stomata. On the other hand, all 4 tree species were significantly increased in height and diameter growth with the elevated CO2. However, in the case of Q. acutissima, the increase in height growth was prominent. For physiological characteristics, the maximum photosynthetic rate was faster in the chambers exposed to high [CO2] than that in the control. However the rate of carboxylation and the electron transfer rate showed no particular tendency. The measurement of hydraulic conductivity (Ks, kg/m/s/Mpa) for Crataegus pinnatifida, increased as the [CO2] in the atmosphere increased, and the 50% Loss Conductance (Mpa) tended to increase slightly with the [CO2]. The correlation analysis between hydraulic conductivity and vulnerability to cavitation showed a strong negative correlation (P <0.05), which was unlike the general tendency.

Automatic airline baggage counting using 3D image segmentation

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Yin, Deyu; Gao, Qingji; Luo, Qijun

2017-06-01

The baggage number needs to be checked automatically during baggage self-check-in. A fast airline baggage counting method is proposed in this paper using image segmentation based on height map which is projected by scanned baggage 3D point cloud. There is height drop in actual edge of baggage so that it can be detected by the edge detection operator. And then closed edge chains are formed from edge lines that is linked by morphological processing. Finally, the number of connected regions segmented by closed chains is taken as the baggage number. Multi-bag experiment that is performed on the condition of different placement modes proves the validity of the method.

Automatic Segmentation and Quantification of Filamentous Structures in Electron Tomography.

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Loss, Leandro A; Bebis, George; Chang, Hang; Auer, Manfred; Sarkar, Purbasha; Parvin, Bahram

2012-10-01

Electron tomography is a promising technology for imaging ultrastructures at nanoscale resolutions. However, image and quantitative analyses are often hindered by high levels of noise, staining heterogeneity, and material damage either as a result of the electron beam or sample preparation. We have developed and built a framework that allows for automatic segmentation and quantification of filamentous objects in 3D electron tomography. Our approach consists of three steps: (i) local enhancement of filaments by Hessian filtering; (ii) detection and completion (e.g., gap filling) of filamentous structures through tensor voting; and (iii) delineation of the filamentous networks. Our approach allows for quantification of filamentous networks in terms of their compositional and morphological features. We first validate our approach using a set of specifically designed synthetic data. We then apply our segmentation framework to tomograms of plant cell walls that have undergone different chemical treatments for polysaccharide extraction. The subsequent compositional and morphological analyses of the plant cell walls reveal their organizational characteristics and the effects of the different chemical protocols on specific polysaccharides.

Reproducibility of myelin content-based human habenula segmentation at 3 Tesla.

Science.gov (United States)

Kim, Joo-Won; Naidich, Thomas P; Joseph, Joshmi; Nair, Divya; Glasser, Matthew F; O'halloran, Rafael; Doucet, Gaelle E; Lee, Won Hee; Krinsky, Hannah; Paulino, Alejandro; Glahn, David C; Anticevic, Alan; Frangou, Sophia; Xu, Junqian

2018-03-26

In vivo morphological study of the human habenula, a pair of small epithalamic nuclei adjacent to the dorsomedial thalamus, has recently gained significant interest for its role in reward and aversion processing. However, segmenting the habenula from in vivo magnetic resonance imaging (MRI) is challenging due to the habenula's small size and low anatomical contrast. Although manual and semi-automated habenula segmentation methods have been reported, the test-retest reproducibility of the segmented habenula volume and the consistency of the boundaries of habenula segmentation have not been investigated. In this study, we evaluated the intra- and inter-site reproducibility of in vivo human habenula segmentation from 3T MRI (0.7-0.8 mm isotropic resolution) using our previously proposed semi-automated myelin contrast-based method and its fully-automated version, as well as a previously published manual geometry-based method. The habenula segmentation using our semi-automated method showed consistent boundary definition (high Dice coefficient, low mean distance, and moderate Hausdorff distance) and reproducible volume measurement (low coefficient of variation). Furthermore, the habenula boundary in our semi-automated segmentation from 3T MRI agreed well with that in the manual segmentation from 7T MRI (0.5 mm isotropic resolution) of the same subjects. Overall, our proposed semi-automated habenula segmentation showed reliable and reproducible habenula localization, while its fully-automated version offers an efficient way for large sample analysis. © 2018 Wiley Periodicals, Inc.

A volumetric pulmonary CT segmentation method with applications in emphysema assessment

Science.gov (United States)

Silva, José Silvestre; Silva, Augusto; Santos, Beatriz S.

2006-03-01

A segmentation method is a mandatory pre-processing step in many automated or semi-automated analysis tasks such as region identification and densitometric analysis, or even for 3D visualization purposes. In this work we present a fully automated volumetric pulmonary segmentation algorithm based on intensity discrimination and morphologic procedures. Our method first identifies the trachea as well as primary bronchi and then the pulmonary region is identified by applying a threshold and morphologic operations. When both lungs are in contact, additional procedures are performed to obtain two separated lung volumes. To evaluate the performance of the method, we compared contours extracted from 3D lung surfaces with reference contours, using several figures of merit. Results show that the worst case generally occurs at the middle sections of high resolution CT exams, due the presence of aerial and vascular structures. Nevertheless, the average error is inferior to the average error associated with radiologist inter-observer variability, which suggests that our method produces lung contours similar to those drawn by radiologists. The information created by our segmentation algorithm is used by an identification and representation method in pulmonary emphysema that also classifies emphysema according to its severity degree. Two clinically proved thresholds are applied which identify regions with severe emphysema, and with highly severe emphysema. Based on this thresholding strategy, an application for volumetric emphysema assessment was developed offering new display paradigms concerning the visualization of classification results. This framework is easily extendable to accommodate other classifiers namely those related with texture based segmentation as it is often the case with interstitial diseases.

Segmentation: Identification of consumer segments

DEFF Research Database (Denmark)

Høg, Esben

2005-01-01

It is very common to categorise people, especially in the advertising business. Also traditional marketing theory has taken in consumer segments as a favorite topic. Segmentation is closely related to the broader concept of classification. From a historical point of view, classification has its...... origin in other sciences as for example biology, anthropology etc. From an economic point of view, it is called segmentation when specific scientific techniques are used to classify consumers to different characteristic groupings. What is the purpose of segmentation? For example, to be able to obtain...... a basic understanding of grouping people. Advertising agencies may use segmentation totarget advertisements, while food companies may usesegmentation to develop products to various groups of consumers. MAPP has for example investigated the positioning of fish in relation to other food products...

Segmentation of Thalamus from MR images via Task-Driven Dictionary Learning.

Science.gov (United States)

Liu, Luoluo; Glaister, Jeffrey; Sun, Xiaoxia; Carass, Aaron; Tran, Trac D; Prince, Jerry L

2016-02-27

Automatic thalamus segmentation is useful to track changes in thalamic volume over time. In this work, we introduce a task-driven dictionary learning framework to find the optimal dictionary given a set of eleven features obtained from T1-weighted MRI and diffusion tensor imaging. In this dictionary learning framework, a linear classifier is designed concurrently to classify voxels as belonging to the thalamus or non-thalamus class. Morphological post-processing is applied to produce the final thalamus segmentation. Due to the uneven size of the training data samples for the non-thalamus and thalamus classes, a non-uniform sampling scheme is proposed to train the classifier to better discriminate between the two classes around the boundary of the thalamus. Experiments are conducted on data collected from 22 subjects with manually delineated ground truth. The experimental results are promising in terms of improvements in the Dice coefficient of the thalamus segmentation over state-of-the-art atlas-based thalamus segmentation algorithms.

Morphological Imaging in the Localization of Neuroendocrine Gastroenteropancreatic Tumors Found by Somatostatin Receptor Scintigraphy

International Nuclear Information System (INIS)

Saga, T.; Doi, R.; Endo, K.; Shimatsu, A.; Koizumi, K.; Ichikawa, T.; Yamamoto, K.; Noguchi, S.; Ishibashi, M.; Machinami, R.; Nakamura, K.; Sakahara, H.

2005-01-01

Purpose: To evaluate the necessity of morphological images (MI) in reading somatostatin receptor scintigraphy (SRS) in patients with suspected neuroendocrine gastroenteropancreatic (GEP) tumors. Material and Methods: A Japanese multicenter clinical trial of SRS was conducted in 40 patients with suspected GEP tumors. Three experienced radiologists interpreted the images in three separate sessions in a blinded manner (1: SRS images alone, 2: MI alone, 3: SRS and MI analyzed simultaneously), and the reading results of each session were compared. In addition, the diagnostic abilities of SRS, MI and SRS alone and simultaneous SRS and MI readings were compared for patients where final diagnosis was obtained. Results: SRS detected more suspected lesions (positive or inconclusive uptake) than morphological images did (51 vs 27 lesions), but included many physiological uptakes detected as positive or inconclusive uptakes. Combined reading of SRS and morphological images helped to correctly recognize these physiological uptakes, and also helped in determining the anatomical localization of the abnormal uptakes. Combined reading of SRS and morphological images gave the highest diagnostic impact. Conclusion: The sensitivity of SRS with regard to GEP is high. However the specificity is very low. Morphologic imaging is necessary for the exclusion of physiological uptake and correct anatomic location of an abnormal tracer uptake. The combined reading of SRS and morphologic imaging studies gives the highest diagnostic impact

Phosphate-assisted phytoremediation of arsenic by Brassica napus and Brassica juncea: Morphological and physiological response.

Science.gov (United States)

Niazi, Nabeel Khan; Bibi, Irshad; Fatimah, Ayesha; Shahid, Muhammad; Javed, Muhammad Tariq; Wang, Hailong; Ok, Yong Sik; Bashir, Safdar; Murtaza, Behzad; Saqib, Zulfiqar Ahmad; Shakoor, Muhammad Bilal

2017-07-03

In this study, we examined the potential role of phosphate (P; 0, 50, 100 mg kg -1 ) on growth, gas exchange attributes, and photosynthetic pigments of Brassica napus and Brassica juncea under arsenic (As) stress (0, 25, 50, 75 mg kg -1 ) in a pot experiment. Results revealed that phosphate supplementation (P100) to As-stressed plants significantly increased shoot As concentration, dry biomass yield, and As uptake, in addition to the improved morphological and gas exchange attributes and photosynthetic pigments over P0. However, phosphate-assisted increase in As uptake was substantially (up to two times) greater for B. napus, notably due to higher shoot As concentration and dry biomass yield, compared to B. juncea at the P100 level. While phosphate addition in soil (P100) led to enhanced shoot As concentration in B. juncea, it reduced shoot dry biomass, primarily after 50 and 75 mg kg -1 As treatments. The translocation factor and bioconcentration factor values of B. napus were higher than B. juncea for all As levels in the presence of phosphate. This study demonstrates that phosphate supplementation has a potential to improve As phytoextraction efficiency, predominantly for B. napus, by minimizing As-induced damage to plant growth, as well as by improving the physiological and photosynthetic attributes.

Physiological Plasticity to Water Flow Habitat in the Damselfish, Acanthochromis polyacanthus: Linking Phenotype to Performance

Science.gov (United States)

Binning, Sandra A.; Ros, Albert F. H.; Nusbaumer, David; Roche, Dominique G.

2015-01-01

The relationships among animal form, function and performance are complex, and vary across environments. Therefore, it can be difficult to identify morphological and/or physiological traits responsible for enhancing performance in a given habitat. In fishes, differences in swimming performance across water flow gradients are related to morphological variation among and within species. However, physiological traits related to performance have been less well studied. We experimentally reared juvenile damselfish, Acanthochromis polyacanthus, under different water flow regimes to test 1) whether aspects of swimming physiology and morphology show plastic responses to water flow, 2) whether trait divergence correlates with swimming performance and 3) whether flow environment relates to performance differences observed in wild fish. We found that maximum metabolic rate, aerobic scope and blood haematocrit were higher in wave-reared fish compared to fish reared in low water flow. However, pectoral fin shape, which tends to correlate with sustained swimming performance, did not differ between rearing treatments or collection sites. Maximum metabolic rate was the best overall predictor of individual swimming performance; fin shape and fish total length were 3.3 and 3.7 times less likely than maximum metabolic rate to explain differences in critical swimming speed. Performance differences induced in fish reared in different flow environments were less pronounced than in wild fish but similar in direction. Our results suggest that exposure to water motion induces plastic physiological changes which enhance swimming performance in A. polyacanthus. Thus, functional relationships between fish morphology and performance across flow habitats should also consider differences in physiology. PMID:25807560

Molecular Age-Related Changes in the Anterior Segment of the Eye

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Luis Fernando Hernandez-Zimbron

2017-01-01

Full Text Available Purpose. To examine the current knowledge about the age-related processes in the anterior segment of the eye at a biological, clinical, and molecular level. Methods. We reviewed the available published literature that addresses the aging process of the anterior segment of the eye and its associated molecular and physiological events. We performed a search on PubMed, CINAHL, and Embase using the MeSH terms “eye,” “anterior segment,” and “age.” We generated searches to account for synonyms of these keywords and MESH headings as follows: (1 “Eye” AND “ageing process” OR “anterior segment ageing” and (2 “Anterior segment” AND “ageing process” OR “anterior segment” AND “molecular changes” AND “age.” Results. Among the principal causes of age-dependent alterations in the anterior segment of the eye, we found the mutation of the TGF-β gene and loss of autophagy in addition to oxidative stress, which contributes to the pathogenesis of degenerative diseases. Conclusions. In this review, we summarize the current knowledge regarding some of the molecular mechanisms related to aging in the anterior segment of the eye. We also introduce and propose potential roles of autophagy, an important mechanism responsible for maintaining homeostasis and proteostasis under stress conditions in the anterior segment during aging.

Microstructure and thermomechanical properties relationship of segmented thermoplastic polyurethane (TPU)

Science.gov (United States)

Frick, Achim; Borm, Michael; Kaoud, Nouran; Kolodziej, Jan; Neudeck, Jens

2014-05-01

Thermoplastic polyurethanes (TPU) are important polymeric materials for seals. In competition with Acrylonitrile butadiene rubbers (NBR), TPU exhibits higher strength and a considerable better abrasion resistance. The advantage of NBR over TPU is a smaller compression set but however TPU excels in its much shorter processing cycle times. Generally a TPU is a block copolymer composed of hard and soft segments, which plays an important role in determining the material properties. TPU can be processed either to ready moulded parts or can be incorporated by multi component moulding, in both cases it shows decent mechanical properties. In the present work, the relationship between melt-process induced TPU morphology and resultant thermo mechanical properties were examined and determined by means of quasi-static tensile test, creep experiment, tension test and dynamical mechanical analysis (DMA). Scanning electron beam microscope (SEM) and differential scanning calorimeter (DSC) were used to study the morphology of the samples. A significant mathematical description of the stress-strain behaviour of TPU was found using a 3 term approach. Moreover it became evident that processing conditions such as processing temperature have crucial influence on morphology as well as short and long-term performance. To be more precise, samples processed at higher temperatures showed a lack of large hard segment agglomerates, a smaller strength for strains up to 250% and higher creep compliance.

Microstructure and thermomechanical properties relationship of segmented thermoplastic polyurethane (TPU)

International Nuclear Information System (INIS)

Frick, Achim; Borm, Michael; Kaoud, Nouran; Kolodziej, Jan; Neudeck, Jens

2014-01-01

Thermoplastic polyurethanes (TPU) are important polymeric materials for seals. In competition with Acrylonitrile butadiene rubbers (NBR), TPU exhibits higher strength and a considerable better abrasion resistance. The advantage of NBR over TPU is a smaller compression set but however TPU excels in its much shorter processing cycle times. Generally a TPU is a block copolymer composed of hard and soft segments, which plays an important role in determining the material properties. TPU can be processed either to ready moulded parts or can be incorporated by multi component moulding, in both cases it shows decent mechanical properties. In the present work, the relationship between melt-process induced TPU morphology and resultant thermo mechanical properties were examined and determined by means of quasi-static tensile test, creep experiment, tension test and dynamical mechanical analysis (DMA). Scanning electron beam microscope (SEM) and differential scanning calorimeter (DSC) were used to study the morphology of the samples. A significant mathematical description of the stress-strain behaviour of TPU was found using a 3 term approach. Moreover it became evident that processing conditions such as processing temperature have crucial influence on morphology as well as short and long-term performance. To be more precise, samples processed at higher temperatures showed a lack of large hard segment agglomerates, a smaller strength for strains up to 250% and higher creep compliance

Morphologies of precise polyethylene-based acid copolymers and ionomers

Science.gov (United States)

Buitrago, C. Francisco

identified for precise acid copolymers and ionomers at room temperature: (1) liquid-like order of aggregates dispersed throughout an amorphous PE matrix, (2) one-dimensional long-range order of aggregates in layers coexisting with PE crystals, and (3) three-dimensional periodicity of aggregates in cubic lattices in a PE matrix featuring defective packing. The liquid-like morphology is a result of high content of acid or ionic substituents deterring PE crystallinity due to steric hindrance. The layered morphology occurs when the content of pendants is low and the PE segments are long enough to crystallize. The cubic morphologies occur in precise copolymers with geminal substitution of phosphonic acid (PA) groups and long, flexible PE segments. At temperatures above the thermal transitions of the PE matrix, all but one material present a liquid-like morphology. Those conditions are ideal to study the evolution of the interaggregate spacing (d*) in X-ray scattering as a function of PE segment length between pendants, pendant type and pendant architecture (specifically, mono or geminal substitution). Also at elevated temperatures, the morphologies of precise acrylic acid (AA) copolymers and ionomers were investigated further via atomistic molecular dynamics (MD) simulations. The simulations complement X-ray scattering by providing real space visualization of the aggregates, demonstrating the occurrence of isolated, string-like and even percolated aggregate structures. This is the first dissertation completely devoted to the morphology of precise acid copolymers and precise ionomers. The complete analysis of the morphologies in these novel materials provides new insights into the shapes of aggregates in acid copolymers and ionomers in general. A key aspect of this thesis is the complementary use of experimental and simulation methods to unlock a wealth of new understanding.

Influencia de factores objetivos y subjetivos en la disciplina Morfofisiología de la Carrera de Estomatología Influence of the objective and subjective factors in Morphology-physiology discipline in Dentistry Studies

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Maritza Travieso Pérez

2010-06-01

Full Text Available La disciplina curricular de Morfofisiología se encuentra bajo la incidencia de los factores objetivos y subjetivos que limitan la estructuración y perfeccionamiento de los nuevos procesos educativos. Objetivo: valorar los factores objetivos y subjetivos que influyen en la dirección del proceso enseñanza aprendizaje de la disciplina Morfofisiología, limitando su estructuración y perfeccionamiento en la Carrera de Estomatología. Método: se realizó un estudio, en la disciplina Morfofisiología, de la Carrera de Estomatología de la provincia de Pinar del Río, en el período comprendido de septiembre de 2007 a enero de 2009. La muestra estuvo constituida por 142 estudiantes, de ellos, 131 de primer año y 101 de segundo. El método empleado fue la revisión y análisis de los documentos. Los datos obtenidos se procesaron utilizando los métodos y procedimientos que brinda la estadística descriptiva. Resultados: se encontraron más bajos niveles de rendimiento académico en la sede central con respecto a las sedes municipales, siendo las asignaturas Morfofisiología II y V las de más bajos resultados. Escasa participación de estudiantes en los exámenes de premio y menor calidad de los mismos en las sedes municipales. Conclusiones: que los resultados académicos en la disciplina Morfofisiología en la provincia de Pinar del Río, indican que el cambio educativo teniendo en cuenta los actuales contextos universitarios, implica necesariamente vincular a los estudiantes a los métodos productivos de enseñanza y a los servicios en la búsqueda de la excelencia educativa.The curricular discipline of Morphology-physiology is under the influence of objective and subjective factors which limit the structuring and improvement of the new educational process. Objective: to assess the objective and subjective factors that influence on the direction of the teaching-learning process of Morphology-physiology which limits its structuring and

A Gaussian process and derivative spectral-based algorithm for red blood cell segmentation

Science.gov (United States)

Xue, Yingying; Wang, Jianbiao; Zhou, Mei; Hou, Xiyue; Li, Qingli; Liu, Hongying; Wang, Yiting

2017-07-01

As an imaging technology used in remote sensing, hyperspectral imaging can provide more information than traditional optical imaging of blood cells. In this paper, an AOTF based microscopic hyperspectral imaging system is used to capture hyperspectral images of blood cells. In order to achieve the segmentation of red blood cells, Gaussian process using squared exponential kernel function is applied first after the data preprocessing to make the preliminary segmentation. The derivative spectrum with spectral angle mapping algorithm is then applied to the original image to segment the boundary of cells, and using the boundary to cut out cells obtained from the Gaussian process to separated adjacent cells. Then the morphological processing method including closing, erosion and dilation is applied so as to keep adjacent cells apart, and by applying median filtering to remove noise points and filling holes inside the cell, the final segmentation result can be obtained. The experimental results show that this method appears better segmentation effect on human red blood cells.

Cyclic Stretch Alters Vascular Reactivity of Mouse Aortic Segments

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Arthur Leloup

2017-10-01

Full Text Available Large, elastic arteries buffer the pressure wave originating in the left ventricle and are constantly exposed to higher amplitudes of cyclic stretch (10% than muscular arteries (2%. As a crucial factor for endothelial and smooth muscle cell function, cyclic stretch has, however, never been studied in ex vivo aortic segments of mice. To investigate the effects of cyclic stretch on vaso-reactivity of mouse aortic segments, we used the Rodent Oscillatory Tension Set-up to study Arterial Compliance (ROTSAC. The aortic segments were clamped at frequencies of 6–600 bpm between two variable preloads, thereby mimicking dilation as upon left ventricular systole and recoiling as during diastole. The preloads corresponding to different transmural pressures were chosen to correspond to a low, normal or high amplitude of cyclic stretch. At different time intervals, cyclic stretch was interrupted, the segments were afterloaded and isometric contractions by α1-adrenergic stimulation with 2 μM phenylephrine in the absence and presence of 300 μM L-NAME (eNOS inhibitor and/or 35 μM diltiazem (blocker of voltage-gated Ca2+ channels were measured. As compared with static or cyclic stretch at low amplitude (<10 mN or low frequency (0.1 Hz, cyclic stretch at physiological amplitude (>10 mN and frequency (1–10 Hz caused better ex vivo conservation of basal NO release with time after mounting. The relaxation of PE-precontracted segments by addition of ACh to stimulate NO release was unaffected by cyclic stretch. In the absence of basal NO release (hence, presence of L-NAME, physiological in comparison with aberrant cyclic stretch decreased the baseline tension, attenuated the phasic contraction by phenylephrine in the absence of extracellular Ca2+ and shifted the smaller tonic contraction more from a voltage-gated Ca2+ channel-mediated to a non-selective cation channel-mediated. Data highlight the need of sufficient mechanical activation of endothelial and

Morphology and digitally aided morphometry of the human paracentral lobule.

Science.gov (United States)

Spasojević, Goran; Malobabic, Slobodan; Pilipović-Spasojević, Olivera; Djukić-Macut, Nataša; Maliković, Aleksandar

2013-02-01

The human paracentral lobule, the junction of the precentral and postcentral gyri at the medial hemispheric surface, contains several important functional regions, and its variable morphology requires exact morphological and quantitativedata. In order to obtain precise data we investigated the morphology of the paracentral lobule and quantified its visible (extrasulcal) surface. This surface corresponds to commonly used magnetic resonance imaging scout images. We studied 84 hemispheres of adult persons (42 brains; 26 males and 16 females; 20-65 years) fixed in neutral formalin for at least 4 weeks. The medial hemispheric surface was photographed at standard distance and each digital photo was calibrated. Using the intercommissural line system (commissura anterior-commissura posterior or CA-CP line), we performed standardised measurements of the paracentral lobule. Exact determination of its boundaries and morphological types was followed by digital morphometry of its extrasulcal surface using AutoCAD software. We found two distinct morphological types of the human paracentral lobule: continuous type, which was predominant (95.2%), and rare segmented type (4.8%). In hemispheres with segmented cingulate sulcus we also found the short transitional lobulo-limbic gyrus (13.1%). The mean extrasulcal surface of the left paracentral lobule was significantly larger, both in males (left 6.79 cm2 vs. right 5.76 cm2) and in females (left 6.05 cm2 vs. right 5.16 cm2). However, even larger average surfaces in males were not significantly different than the same in females. Reported morphological and quantitative data will be useful during diagnostics and treatment of pathologies affecting the human paracentral lobule, and in further studies of its cytoarchitectonic and functional parcellations.

3D TEM reconstruction and segmentation process of laminar bio-nanocomposites

International Nuclear Information System (INIS)

Iturrondobeitia, M.; Okariz, A.; Fernandez-Martinez, R.; Jimbert, P.; Guraya, T.; Ibarretxe, J.

2015-01-01

The microstructure of laminar bio-nanocomposites (Poly (lactic acid)(PLA)/clay) depends on the amount of clay platelet opening after integration with the polymer matrix and determines the final properties of the material. Transmission electron microscopy (TEM) technique is the only one that can provide a direct observation of the layer dispersion and the degree of exfoliation. However, the orientation of the clay platelets, which affects the final properties, is practically immeasurable from a single 2D TEM image. This issue can be overcome using transmission electron tomography (ET), a technique that allows the complete 3D characterization of the structure, including the measurement of the orientation of clay platelets, their morphology and their 3D distribution. ET involves a 3D reconstruction of the study volume and a subsequent segmentation of the study object. Currently, accurate segmentation is performed manually, which is inefficient and tedious. The aim of this work is to propose an objective/automated segmentation methodology process of a 3D TEM tomography reconstruction. In this method the segmentation threshold is optimized by minimizing the variation of the dimensions of the segmented objects and matching the segmented V clay (%) and the actual one. The method is first validated using a fictitious set of objects, and then applied on a nanocomposite

Estimating the concentration of gold nanoparticles incorporated on natural rubber membranes using multi-level starlet optimal segmentation

Energy Technology Data Exchange (ETDEWEB)

Siqueira, A. F. de, E-mail: siqueiraaf@gmail.com; Cabrera, F. C., E-mail: flavioccabrera@yahoo.com.br [UNESP – Univ Estadual Paulista, Dep de Física, Química e Biologia (Brazil); Pagamisse, A., E-mail: aylton@fct.unesp.br [UNESP – Univ Estadual Paulista, Dep de Matemática e Computação (Brazil); Job, A. E., E-mail: job@fct.unesp.br [UNESP – Univ Estadual Paulista, Dep de Física, Química e Biologia (Brazil)

2014-12-15

This study consolidates multi-level starlet segmentation (MLSS) and multi-level starlet optimal segmentation (MLSOS) techniques for photomicrograph segmentation, based on starlet wavelet detail levels to separate areas of interest in an input image. Several segmentation levels can be obtained using MLSS; after that, Matthews correlation coefficient is used to choose an optimal segmentation level, giving rise to MLSOS. In this paper, MLSOS is employed to estimate the concentration of gold nanoparticles with diameter around 47  nm, reduced on natural rubber membranes. These samples were used for the construction of SERS/SERRS substrates and in the study of the influence of natural rubber membranes with incorporated gold nanoparticles on the physiology of Leishmania braziliensis. Precision, recall, and accuracy are used to evaluate the segmentation performance, and MLSOS presents an accuracy greater than 88 % for this application.

An Automatic Cognitive Graph-Based Segmentation for Detection of Blood Vessels in Retinal Images

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Rasha Al Shehhi

2016-01-01

Full Text Available This paper presents a hierarchical graph-based segmentation for blood vessel detection in digital retinal images. This segmentation employs some of perceptual Gestalt principles: similarity, closure, continuity, and proximity to merge segments into coherent connected vessel-like patterns. The integration of Gestalt principles is based on object-based features (e.g., color and black top-hat (BTH morphology and context and graph-analysis algorithms (e.g., Dijkstra path. The segmentation framework consists of two main steps: preprocessing and multiscale graph-based segmentation. Preprocessing is to enhance lighting condition, due to low illumination contrast, and to construct necessary features to enhance vessel structure due to sensitivity of vessel patterns to multiscale/multiorientation structure. Graph-based segmentation is to decrease computational processing required for region of interest into most semantic objects. The segmentation was evaluated on three publicly available datasets. Experimental results show that preprocessing stage achieves better results compared to state-of-the-art enhancement methods. The performance of the proposed graph-based segmentation is found to be consistent and comparable to other existing methods, with improved capability of detecting small/thin vessels.

A Comparison of Two Commercial Volumetry Software Programs in the Analysis of Pulmonary Ground-Glass Nodules: Segmentation Capability and Measurement Accuracy

Science.gov (United States)

Kim, Hyungjin; Lee, Sang Min; Lee, Hyun-Ju; Goo, Jin Mo

2013-01-01

Objective To compare the segmentation capability of the 2 currently available commercial volumetry software programs with specific segmentation algorithms for pulmonary ground-glass nodules (GGNs) and to assess their measurement accuracy. Materials and Methods In this study, 55 patients with 66 GGNs underwent unenhanced low-dose CT. GGN segmentation was performed by using 2 volumetry software programs (LungCARE, Siemens Healthcare; LungVCAR, GE Healthcare). Successful nodule segmentation was assessed visually and morphologic features of GGNs were evaluated to determine factors affecting segmentation by both types of software. In addition, the measurement accuracy of the software programs was investigated by using an anthropomorphic chest phantom containing simulated GGNs. Results The successful nodule segmentation rate was significantly higher in LungCARE (90.9%) than in LungVCAR (72.7%) (p = 0.012). Vascular attachment was a negatively influencing morphologic feature of nodule segmentation for both software programs. As for measurement accuracy, mean relative volume measurement errors in nodules ≥ 10 mm were 14.89% with LungCARE and 19.96% with LungVCAR. The mean relative attenuation measurement errors in nodules ≥ 10 mm were 3.03% with LungCARE and 5.12% with LungVCAR. Conclusion LungCARE shows significantly higher segmentation success rates than LungVCAR. Measurement accuracy of volume and attenuation of GGNs is acceptable in GGNs ≥ 10 mm by both software programs. PMID:23901328

A comparison of two commercial volumetry software programs in the analysis of pulmonary ground-glass nodules: Segmentation capability and measurement accuracy

International Nuclear Information System (INIS)

Kim, Hyung Jin; Park, Chang Min; Lee, Sang Min; Lee, Hyun Joo; Goo, Jin Mo

2013-01-01

To compare the segmentation capability of the 2 currently available commercial volumetry software programs with specific segmentation algorithms for pulmonary ground-glass nodules (GGNs) and to assess their measurement accuracy. In this study, 55 patients with 66 GGNs underwent unenhanced low-dose CT. GGN segmentation was performed by using 2 volumetry software programs (LungCARE, Siemens Healthcare; LungVCAR, GE Healthcare). Successful nodule segmentation was assessed visually and morphologic features of GGNs were evaluated to determine factors affecting segmentation by both types of software. In addition, the measurement accuracy of the software programs was investigated by using an anthropomorphic chest phantom containing simulated GGNs. The successful nodule segmentation rate was significantly higher in LungCARE (90.9%) than in LungVCAR (72.7%) (p = 0.012). Vascular attachment was a negatively influencing morphologic feature of nodule segmentation for both software programs. As for measurement accuracy, mean relative volume measurement errors in nodules ≥ 10 mm were 14.89% with LungCARE and 19.96% with LungVCAR. The mean relative attenuation measurement errors in nodules ≥ 10 mm were 3.03% with LungCARE and 5.12% with LungVCAR. LungCARE shows significantly higher segmentation success rates than LungVCAR. Measurement accuracy of volume and attenuation of GGNs is acceptable in GGNs ≥ 10 mm by both software programs.

A comparison of two commercial volumetry software programs in the analysis of pulmonary ground-glass nodules: Segmentation capability and measurement accuracy

Energy Technology Data Exchange (ETDEWEB)

Kim, Hyung Jin; Park, Chang Min; Lee, Sang Min; Lee, Hyun Joo; Goo, Jin Mo [Dept. of Radiology, Seoul National University College of Medicine, and Institute of Radiation Medicine, Seoul National University Medical Research Center, Seoul (Korea, Republic of)

2013-08-15

To compare the segmentation capability of the 2 currently available commercial volumetry software programs with specific segmentation algorithms for pulmonary ground-glass nodules (GGNs) and to assess their measurement accuracy. In this study, 55 patients with 66 GGNs underwent unenhanced low-dose CT. GGN segmentation was performed by using 2 volumetry software programs (LungCARE, Siemens Healthcare; LungVCAR, GE Healthcare). Successful nodule segmentation was assessed visually and morphologic features of GGNs were evaluated to determine factors affecting segmentation by both types of software. In addition, the measurement accuracy of the software programs was investigated by using an anthropomorphic chest phantom containing simulated GGNs. The successful nodule segmentation rate was significantly higher in LungCARE (90.9%) than in LungVCAR (72.7%) (p = 0.012). Vascular attachment was a negatively influencing morphologic feature of nodule segmentation for both software programs. As for measurement accuracy, mean relative volume measurement errors in nodules ≥ 10 mm were 14.89% with LungCARE and 19.96% with LungVCAR. The mean relative attenuation measurement errors in nodules ≥ 10 mm were 3.03% with LungCARE and 5.12% with LungVCAR. LungCARE shows significantly higher segmentation success rates than LungVCAR. Measurement accuracy of volume and attenuation of GGNs is acceptable in GGNs ≥ 10 mm by both software programs.

Morphological operation based dense houses extraction from DSM

Science.gov (United States)

Li, Y.; Zhu, L.; Tachibana, K.; Shimamura, H.

2014-08-01

This paper presents a method of reshaping and extraction of markers and masks of the dense houses from the DSM based on mathematical morphology (MM). Houses in a digital surface model (DSM) are almost joined together in high-density housing areas, and most segmentation methods cannot completely separate them. We propose to label the markers of the buildings firstly and segment them into masks by watershed then. To avoid detecting more than one marker for a house or no marker at all due to its higher neighbour, the DSM is morphologically reshaped. It is carried out by a MM operation using the certain disk shape SE of the similar size to the houses. The sizes of the houses need to be estimated before reshaping. A granulometry generated by opening-by-reconstruction to the NDSM is proposed to detect the scales of the off-terrain objects. It is a histogram of the global volume of the top hats of the convex objects in the continuous scales. The obvious step change in the profile means that there are many objects of similar sizes occur at this scale. In reshaping procedure, the slices of the object are derived by morphological filtering at the detected continuous scales and reconstructed in pile as the dome. The markers are detected on the basis of the domes.

Smoke regions extraction based on two steps segmentation and motion detection in early fire

Science.gov (United States)

Jian, Wenlin; Wu, Kaizhi; Yu, Zirong; Chen, Lijuan

2018-03-01

Aiming at the early problems of video-based smoke detection in fire video, this paper proposes a method to extract smoke suspected regions by combining two steps segmentation and motion characteristics. Early smoldering smoke can be seen as gray or gray-white regions. In the first stage, regions of interests (ROIs) with smoke are obtained by using two step segmentation methods. Then, suspected smoke regions are detected by combining the two step segmentation and motion detection. Finally, morphological processing is used for smoke regions extracting. The Otsu algorithm is used as segmentation method and the ViBe algorithm is used to detect the motion of smoke. The proposed method was tested on 6 test videos with smoke. The experimental results show the effectiveness of our proposed method over visual observation.

Morphological and physiological profile of elite basketball players in Belgium

OpenAIRE

Boone, Jan; Bourgois, Jan

2013-01-01

PURPOSE: The present study aimed to gain insight into the physiological profile of elite basketball players in Belgium in relation to their position on the field. METHODS: The group consisted of 144 players, divided into 5 groups according to position (point guards [PG], shooting guards [SG], small forwards [SF], power forwards [PF] and centers [C]). The anthropometrics were measured and the subjects underwent fitness tests (incremental running test, 10m-sprint,5x10m,Squat and Counter Move...

Asphalt Pavement Pothole Detection and Segmentation Based on Wavelet Energy Field

Directory of Open Access Journals (Sweden)

Penghui Wang

2017-01-01

Full Text Available Potholes are one type of pavement surface distresses whose assessment is essential for developing road network maintenance strategies. Existing methods for automatic pothole detection either rely on expensive and high-maintenance equipment or could not segment the pothole accurately. In this paper, an asphalt pavement pothole detection and segmentation method based on energy field is put forward. The proposed method mainly includes two processes. Firstly, the wavelet energy field of the pavement image is constructed to detect the pothole by morphological processing and geometric criterions. Secondly, the detected pothole is segmented by Markov random field model and the pothole edge is extracted accurately. This methodology has been implemented in a MATLAB prototype, trained, and tested on 120 pavement images. The results show that it can effectively distinguish potholes from cracks, patches, greasy dirt, shadows, and manhole covers and accurately segment the pothole. For pothole detection, the method reaches an overall accuracy of 86.7%, with 83.3% precision and 87.5% recall. For pothole segmentation, the overlap degree between the extracted pothole region and the original pothole region is mostly more than 85%, which accounts for 88.6% of the total detected pavement pothole images.

Monitoring and Morphologic Classification of Pediatric Cataract Using Slit-Lamp-Adapted Photography.

Science.gov (United States)

Long, Erping; Lin, Zhuoling; Chen, Jingjing; Liu, Zhenzhen; Cao, Qianzhong; Lin, Haotian; Chen, Weirong; Liu, Yizhi

2017-11-01

To investigate the feasibility of pediatric cataract monitoring and morphologic classification using slit lamp-adapted anterior segmental photography in a large cohort that included uncooperative children. Patients registered in the Childhood Cataract Program of the Chinese Ministry of Health were prospectively selected. Eligible patients underwent slit-lamp adapted anterior segmental photography to record and monitor the morphology of their cataractous lenses. A set of assistance techniques for slit lamp-adapted photography was developed to instruct the parents of uncooperative children how to help maintain the child's head position and keep the eyes open after sleep aid administration. Briefly, slit lamp-adapted photography was completed for all 438 children, including 260 (59.4%) uncooperative children with our assistance techniques. All 746 images of 438 patients successfully confirmed the diagnoses and classifications. Considering the lesion location, pediatric cataract morphologies could be objectively classified into the seven following types: total; nuclear; polar, including two subtypes (anterior and posterior); lamellar; nuclear combined with cortical, including three subtypes (coral-like, dust-like, and blue-dot); cortical; and Y suture. The top three types of unilateral cataracts were polar (55, 42.3%), total (42, 32.3%), and nuclear (23, 17.7%); and the top three types of bilateral cataracts were nuclear (110, 35.8%), total (102, 33.2%), and lamellar (34, 11.1%). Slit lamp-adapted anterior segmental photography is applicable for monitoring and classifying the morphologies of pediatric cataracts and is even safe and feasible for uncooperative children with assistance techniques and sleep aid administration. This study proposes a novel strategy for the preoperative evaluation and evidence-based management of pediatric ophthalmology (Clinical Trials.gov, NCT02748031).

Single locus affects embryonic segment polarity and multiple aspects of an adult evolutionary novelty

Directory of Open Access Journals (Sweden)

Saenko Suzanne V

2010-08-01

Full Text Available Abstract Background The characterization of the molecular changes that underlie the origin and diversification of morphological novelties is a key challenge in evolutionary developmental biology. The evolution of such traits is thought to rely largely on co-option of a toolkit of conserved developmental genes that typically perform multiple functions. Mutations that affect both a universal developmental process and the formation of a novelty might shed light onto the genetics of traits not represented in model systems. Here we describe three pleiotropic mutations with large effects on a novel trait, butterfly eyespots, and on a conserved stage of embryogenesis, segment polarity. Results We show that three mutations affecting eyespot size and/or colour composition in Bicyclus anynana butterflies occurred in the same locus, and that two of them are embryonic recessive lethal. Using surgical manipulations and analysis of gene expression patterns in developing wings, we demonstrate that the effects on eyespot morphology are due to changes in the epidermal response component of eyespot induction. Our analysis of morphology and of gene expression in mutant embryos shows that they have a typical segment polarity phenotype, consistent with the mutant locus encoding a negative regulator of Wingless signalling. Conclusions This study characterizes the segregation and developmental effects of alleles at a single locus that controls the morphology of a lineage-specific trait (butterfly eyespots and a conserved process (embryonic segment polarity and, specifically, the regulation of Wingless signalling. Because no gene with such function was found in the orthologous, highly syntenic genomic regions of two other lepidopterans, we hypothesize that our locus is a yet undescribed, possibly lineage-specific, negative regulator of the conserved Wnt/Wg pathway. Moreover, the fact that this locus interferes with multiple aspects of eyespot morphology and maps to a

Soft-tissue segmentation and three-dimensional display with MR imaging

International Nuclear Information System (INIS)

Koenig, H.A.; Laub, G.

1987-01-01

The purpose of this study is to design a method capable of segmenting different soft-tissue types. The investigated cases were measured using fast three-dimensional (3D) sequences (FISP of fast low-angle shot) with isotropic voxel resolution of nearly 1 mm. The segmentation is based on the assumption that different tissue types are discernible by their morphologic and/or physical features. Surface reconstructions are then used to display specific tissue types from different viewing directions. This automatic procedure is applied to different head cases to represent specific tissues in 3D format. With 3D techniques, rotation of classified objects in cine format is performed for better topologic correlation and therapeutic planning

Status of the segment interconnect, cable segment ancillary logic, and the cable segment hybrid driver projects

International Nuclear Information System (INIS)

Swoboda, C.; Barsotti, E.; Chappa, S.; Downing, R.; Goeransson, G.; Lensy, D.; Moore, G.; Rotolo, C.; Urish, J.

1985-01-01

The FASTBUS Segment Interconnect (SI) provides a communication path between two otherwise independent, asynchronous bus segments. In particular, the Segment Interconnect links a backplane crate segment to a cable segment. All standard FASTBUS address and data transactions can be passed through the SI or any number of SIs and segments in a path. Thus systems of arbitrary connection complexity can be formed, allowing simultaneous independent processing, yet still permitting devices associated with one segment to be accessed from others. The model S1 Segment Interconnect and the Cable Segment Ancillary Logic covered in this report comply with all the mandatory features stated in the FASTBUS specification document DOE/ER-0189. A block diagram of the SI is shown

Automatic Vessel Segmentation on Retinal Images

Institute of Scientific and Technical Information of China (English)

Chun-Yuan Yu; Chia-Jen Chang; Yen-Ju Yao; Shyr-Shen Yu

2014-01-01

Several features of retinal vessels can be used to monitor the progression of diseases. Changes in vascular structures, for example, vessel caliber, branching angle, and tortuosity, are portents of many diseases such as diabetic retinopathy and arterial hyper-tension. This paper proposes an automatic retinal vessel segmentation method based on morphological closing and multi-scale line detection. First, an illumination correction is performed on the green band retinal image. Next, the morphological closing and subtraction processing are applied to obtain the crude retinal vessel image. Then, the multi-scale line detection is used to fine the vessel image. Finally, the binary vasculature is extracted by the Otsu algorithm. In this paper, for improving the drawbacks of multi-scale line detection, only the line detectors at 4 scales are used. The experimental results show that the accuracy is 0.939 for DRIVE (digital retinal images for vessel extraction) retinal database, which is much better than other methods.

Morphological and molecular characterisation of the entomoparasitic nematode Hammerschmidtiella diesingi (Nematoda, Oxyurida, Thelastomatidae).

Science.gov (United States)

Blanco, María V; Lax, Paola; Dueñas, Juan C Rondan; Gardenal, Cristina N; Doucet, Marcelo E

2012-09-01

A population of Hammerschmidtiella diesingi was detected in specimens of Periplaneta americana collected in Córdoba city (Argentina) was studied. Nematodes were characterized based on morphological, morphometric and genetic (D2-D3 expansion segment) analyses. New data are provided, especially on particular morphological characters that were a matter of controversy in previous studies. H. diesingi is reported in Argentina for the first time.

Effect of JPEG2000 mammogram compression on microcalcifications segmentation

International Nuclear Information System (INIS)

Georgiev, V.; Arikidis, N.; Karahaliou, A.; Skiadopoulos, S.; Costaridou, L.

2012-01-01

The purpose of this study is to investigate the effect of mammographic image compression on the automated segmentation of individual microcalcifications. The dataset consisted of individual microcalcifications of 105 clusters originating from mammograms of the Digital Database for Screening Mammography. A JPEG2000 wavelet-based compression algorithm was used for compressing mammograms at 7 compression ratios (CRs): 10:1, 20:1, 30:1, 40:1, 50:1, 70:1 and 100:1. A gradient-based active contours segmentation algorithm was employed for segmentation of microcalcifications as depicted on original and compressed mammograms. The performance of the microcalcification segmentation algorithm on original and compressed mammograms was evaluated by means of the area overlap measure (AOM) and distance differentiation metrics (d mean and d max ) by comparing automatically derived microcalcification borders to manually defined ones by an expert radiologist. The AOM monotonically decreased as CR increased, while d mean and d max metrics monotonically increased with CR increase. The performance of the segmentation algorithm on original mammograms was (mean±standard deviation): AOM=0.91±0.08, d mean =0.06±0.05 and d max =0.45±0.20, while on 40:1 compressed images the algorithm's performance was: AOM=0.69±0.15, d mean =0.23±0.13 and d max =0.92±0.39. Mammographic image compression deteriorates the performance of the segmentation algorithm, influencing the quantification of individual microcalcification morphological properties and subsequently affecting computer aided diagnosis of microcalcification clusters. (authors)

Genotypic variation in growth and physiological responses of ...

African Journals Online (AJOL)

Beyaz Fasulye, Boncuk Sırık, Kökez, Oturak and Sırık) was investigated in terms of morphological and physiological. Plants were grown in a plant growth chamber at 26/18°C (day/night) temperature with RH 70% and 450 m-2 s-1 light intensity.

Morphologic changes in the vein after different numbers of radiofrequency ablation cycles.

Science.gov (United States)

Shaidakov, Evgeny V; Grigoryan, Arsen G; Korzhevskii, Dmitriy E; Ilyukhin, Evgeny A; Rosukhovski, Dmitriy A; Bulatov, Vasiliy L; Tsarev, Oleg I

2015-10-01

It has not yet been clarified whether it is possible to decrease the percentage of recurrences after radiofrequency (RF) ablation by way of increasing the number of RF ablation cycles. The aim of this study was to assess the morphologic changes in excised vein fragments after different durations of RF ablation exposure. In the first part of the study, we performed a morphologic analysis of eight cases of great saphenous vein (GSV) recanalization 6 months after RF ablation. The second part was performed on a suprafascial segment of the GSV with a length of >22 cm and a minimum diameter of 5 mm in 10 patients, who had given their consent to intraoperative excision of suprafascial GSV segments after RF ablation treatment through four 1-cm-long diametrical cuts. Prior ultrasound analysis had shown an average 6.9-mm diameter of the suprafascial segments. The segment was divided into three 7-cm-long subsegments and one control segment. The first, second, and third segments were treated with three, two, and one RF ablation cycles (ClosureFast; Covidien, Mansfield, Mass), respectively; the control segment was not exposed to RF ablation at all. Morphologic study of 160 sections of the vein (five sections of each segment and 10 control specimens) was carried out. The specimens were dyed with hematoxylin and orcein. The ensuing analysis was performed by an experienced expert with the blind study method (the specimens were numbered without any hint as to the quantity of RF ablation cycles performed on them). The intergroup comparison of the depth of venous wall damage was based on comparison of the coefficient of alteration, which is calculated as the relation of damage depth to thickness of the vein. After one RF ablation cycle, the depth of blurring of the structural elements only on some portions reached the middle of the muscle layer of the wall (coefficient of alteration, α = 26%). After two cycles, blurring of the structural elements on some portions extended to the

Relationship between sagittal plane kinematics, foot morphology and vertical forces applied to three regions of the foot

OpenAIRE

Hannah, I.; Sawacha, Z.; Guiotto, A.; Mazza, C.

2016-01-01

Kinetic analysis of human motion with a multi-segment musculoskeletal foot model requires the distribution of loading applied to the modeled foot segments to be determined. This work thus examines the existence of any correlation between intersegmental foot kinematics, foot morphology, and the distribution of vertical loading in a multi-segment foot model. Gait analysis trials were performed by 20 healthy subjects at a self-selected speed with intersegmental foot joint angles and the distribu...

Segmentation of the temporalis muscle from MR data

Energy Technology Data Exchange (ETDEWEB)

Ng, H.P. [NUS Graduate School for Integrative Sciences and Engineering, Singapore (Singapore); Agency for Science Technology and Research, Biomedical Imaging Lab, Singapore (Singapore); Hu, Q.M.; Liu, J.; Nowinski, W.L. [Agency for Science Technology and Research, Biomedical Imaging Lab, Singapore (Singapore); Ong, S.H. [National University of Singapore, Department of Electrical and Computer Engineering, Singapore (Singapore); National University of Singapore, Division of Bioengineering, Singapore (Singapore); Foong, K.W.C. [NUS Graduate School for Integrative Sciences and Engineering, Singapore (Singapore); National University of Singapore, Department of Preventive Dentistry, Singapore (Singapore); Goh, P.S. [National University of Singapore, Department of Diagnostic Radiology, Singapore (Singapore)

2007-06-15

Objective A method for segmenting the temporalis from magnetic resonance (MR) images was developed and tested. The temporalis muscle is one of the muscles of mastication which plays a major role in the mastication system. Materials and methods The temporalis region of interest (ROI) and the head ROI are defined in reference images, from which the spatial relationship between the two ROIs is derived. This relationship is used to define the temporalis ROI in a study image. Range-constrained thresholding is then employed to remove the fat, bone marrow and muscle tendon in the ROI. Adaptive morphological operations are then applied to first remove the brain tissue, followed by the removal of the other soft tissues surrounding the temporalis. Ten adult head MR data sets were processed to test this method. Results Using five data sets each for training and testing, the method was applied to the segmentation of the temporalis in 25 MR images (five from each test set). An average overlap index ({kappa}) of 90.2% was obtained. Applying a leave-one-out evaluation method, an average {kappa} of 90.5% was obtained from 50 test images. Conclusion A method for segmenting the temporalis from MR images was developed and tested on in vivo data sets. The results show that there is consistency between manual and automatic segmentations. (orig.)

Segmentation of the temporalis muscle from MR data

International Nuclear Information System (INIS)

Ng, H.P.; Hu, Q.M.; Liu, J.; Nowinski, W.L.; Ong, S.H.; Foong, K.W.C.; Goh, P.S.

2007-01-01

Objective A method for segmenting the temporalis from magnetic resonance (MR) images was developed and tested. The temporalis muscle is one of the muscles of mastication which plays a major role in the mastication system. Materials and methods The temporalis region of interest (ROI) and the head ROI are defined in reference images, from which the spatial relationship between the two ROIs is derived. This relationship is used to define the temporalis ROI in a study image. Range-constrained thresholding is then employed to remove the fat, bone marrow and muscle tendon in the ROI. Adaptive morphological operations are then applied to first remove the brain tissue, followed by the removal of the other soft tissues surrounding the temporalis. Ten adult head MR data sets were processed to test this method. Results Using five data sets each for training and testing, the method was applied to the segmentation of the temporalis in 25 MR images (five from each test set). An average overlap index (κ) of 90.2% was obtained. Applying a leave-one-out evaluation method, an average κ of 90.5% was obtained from 50 test images. Conclusion A method for segmenting the temporalis from MR images was developed and tested on in vivo data sets. The results show that there is consistency between manual and automatic segmentations. (orig.)

Intraparenchymal hemorrhage segmentation from clinical head CT of patients with traumatic brain injury

Science.gov (United States)

Roy, Snehashis; Wilkes, Sean; Diaz-Arrastia, Ramon; Butman, John A.; Pham, Dzung L.

2015-03-01

Quantification of hemorrhages in head computed tomography (CT) images from patients with traumatic brain injury (TBI) has potential applications in monitoring disease progression and better understanding of the patho-physiology of TBI. Although manual segmentations can provide accurate measures of hemorrhages, the processing time and inter-rater variability make it infeasible for large studies. In this paper, we propose a fully automatic novel pipeline for segmenting intraparenchymal hemorrhages (IPH) from clinical head CT images. Unlike previous methods of model based segmentation or active contour techniques, we rely on relevant and matching examples from already segmented images by trained raters. The CT images are first skull-stripped. Then example patches from an "atlas" CT and its manual segmentation are used to learn a two-class sparse dictionary for hemorrhage and normal tissue. Next, for a given "subject" CT, a subject patch is modeled as a sparse convex combination of a few atlas patches from the dictionary. The same convex combination is applied to the atlas segmentation patches to generate a membership for the hemorrhages at each voxel. Hemorrhages are segmented from 25 subjects with various degrees of TBI. Results are compared with segmentations obtained from an expert rater. A median Dice coefficient of 0.85 between automated and manual segmentations is achieved. A linear fit between automated and manual volumes show a slope of 1.0047, indicating a negligible bias in volume estimation.

The fabrication and the coercivity mechanism of segmented (Ni/Fe)m composite nanowire arrays

International Nuclear Information System (INIS)

Xue, D S; Shi, H G; Si, M S

2004-01-01

Arrays of segmented (Ni/Fe) m (m = 1,2,3,4,5) composite nanowires about 3 μm in length and with aspect ratios of about 60 were electrodeposited on anodic porous alumina templates using a dual bath. The structure, morphology and magnetic properties of the samples were characterized by means of x-ray diffraction, transmission electron microscopy and vibrating sample magnetometry, respectively. It is found that Fe(110) and Ni(111) orientations along nanowire axis are preferred. The large aspect ratio of the composite nanowires reveals a strong shape magnetic anisotropy. As the number of the Ni/Fe composite segments m increases, the coercivity of the nanowire arrays, with the magnetic field applied parallel to the wire, gradually increases. The coercivity variation of the segmented composite nanowires is closely related to the effective exchange coupling between the Ni and Fe segments

Geological interpretation of volcanism and segmentation of the Mariana back-arc spreading center between 12.7°N and 18.3°N

Science.gov (United States)

Anderson, Melissa O.; Chadwick, William W.; Hannington, Mark D.; Merle, Susan G.; Resing, Joseph A.; Baker, Edward T.; Butterfield, David A.; Walker, Sharon L.; Augustin, Nico

2017-06-01

The relationships between tectonic processes, magmatism, and hydrothermal venting along ˜600 km of the slow-spreading Mariana back-arc between 12.7°N and 18.3°N reveal a number of similarities and differences compared to slow-spreading mid-ocean ridges. Analysis of the volcanic geomorphology and structure highlights the complexity of the back-arc spreading center. Here, ridge segmentation is controlled by large-scale basement structures that appear to predate back-arc rifting. These structures also control the orientation of the chains of cross-arc volcanoes that characterize this region. Segment-scale faulting is oriented perpendicular to the spreading direction, allowing precise spreading directions to be determined. Four morphologically distinct segment types are identified: dominantly magmatic segments (Type I); magmatic segments currently undergoing tectonic extension (Type II); dominantly tectonic segments (Type III); and tectonic segments currently undergoing magmatic extension (Type IV). Variations in axial morphology (including eruption styles, neovolcanic eruption volumes, and faulting) reflect magma supply, which is locally enhanced by cross-arc volcanism associated with N-S compression along the 16.5°N and 17.0°N segments. In contrast, cross-arc seismicity is associated with N-S extension and increased faulting along the 14.5°N segment, with structures that are interpreted to be oceanic core complexes—the first with high-resolution bathymetry described in an active back-arc basin. Hydrothermal venting associated with recent magmatism has been discovered along all segment types.

Automatic segmentation of coronary vessels from digital subtracted angiograms: a knowledge-based approach

International Nuclear Information System (INIS)

Stansfield, S.A.

1986-01-01

This paper presents a rule-based expert system for identifying and isolating coronary vessels in digital angiograms. The system is written in OPS5 and LISP and uses low level processors written in C. The system embodies both stages of the vision hierarchy: The low level image processing stage works concurrently with edges (or lines) and regions to segment the input image. Its knowledge is that of segmentation, grouping, and shape analysis. The high level stage then uses its knowledge of cardiac anatomy and physiology to interpret the result and to eliminate those structures not desired in the output. (Auth.)

Anterior Overgrowth in Primary Curves, Compensatory Curves and Junctional Segments in Adolescent Idiopathic Scoliosis

NARCIS (Netherlands)

Schlösser, Tom P C; van Stralen, M; Chu, Winnie C W; Lam, Tsz-Ping; Ng, Bobby K W; Vincken, Koen L; Cheng, Jack C Y; Castelein, RM

2016-01-01

INTRODUCTION: Although much attention has been given to the global three-dimensional aspect of adolescent idiopathic scoliosis (AIS), the accurate three-dimensional morphology of the primary and compensatory curves, as well as the intervening junctional segments, in the scoliotic spine has not been

Segmentation of rodent whole-body dynamic PET images: an unsupervised method based on voxel dynamics

DEFF Research Database (Denmark)

Maroy, Renaud; Boisgard, Raphaël; Comtat, Claude

2008-01-01

Positron emission tomography (PET) is a useful tool for pharmacokinetics studies in rodents during the preclinical phase of drug and tracer development. However, rodent organs are small as compared to the scanner's intrinsic resolution and are affected by physiological movements. We present a new...... method for the segmentation of rodent whole-body PET images that takes these two difficulties into account by estimating the pharmacokinetics far from organ borders. The segmentation method proved efficient on whole-body numerical rat phantom simulations, including 3-14 organs, together...

Influence of coamide on the morphological status of pancreatic islands of irradiated animals

International Nuclear Information System (INIS)

Sejfullin, F.Kh.; Atabekov, T.A.; Iskhanbekov, B.I.; Salikhodzhaev, Z.; Rakhimov, T.T.

1986-01-01

X-irradiation of animals with a dose of 6 Gy brings about fatty degeneration of the liver and a concurrent destruction of the morphologic status in functional activity of the insular apparatus. The administration of coamide promotes the recovery of the morphological and physiological status of the pancreas

Segmented block copolymers with monodisperse aramide end-segments

NARCIS (Netherlands)

Araichimani, A.; Gaymans, R.J.

2008-01-01

Segmented block copolymers were synthesized using monodisperse diaramide (TT) as hard segments and PTMO with a molecular weight of 2 900 g · mol-1 as soft segments. The aramide: PTMO segment ratio was increased from 1:1 to 2:1 thereby changing the structure from a high molecular weight multi-block

Physiological and morphological adaptations of herbaceous perennial legumes allow differential access to sources of varyingly soluble phosphate.

Science.gov (United States)

Pang, Jiayin; Yang, Jiyun; Lambers, Hans; Tibbett, Mark; Siddique, Kadambot H M; Ryan, Megan H

2015-08-01

The aim of this study was to investigate the capacity of three perennial legume species to access sources of varyingly soluble phosphorus (P) and their associated morphological and physiological adaptations. Two Australian native legumes with pasture potential (Cullen australasicum and Kennedia prostrata) and Medicago sativa cv. SARDI 10 were grown in sand under two P levels (6 and 40 µg P g(-1) ) supplied as Ca(H2 PO4 )2 ·H2 O (Ca-P, highly soluble, used in many fertilizers) or as one of three sparingly soluble forms: Ca10 (OH)2 (PO4 )6 (apatite-P, found in relatively young soils; major constituent of rock phosphate), C6 H6 O24 P6 Na12 (inositol-P, the most common form of organic P in soil) and FePO4 (Fe-P, a poorly-available inorganic source of P). All species grew well with soluble P. When 6 µg P g(-1) was supplied as sparingly soluble P, plant dry weight (DW) and P uptake were very low for C. australasicum and M. sativa (0.1-0.4 g DW) with the exception of M. sativa supplied with apatite-P (1.5 g). In contrast, K. prostrata grew well with inositol-P (1.0 g) and Fe-P (0.7 g), and even better with apatite-P (1.7 g), similar to that with Ca-P (1.9 g). Phosphorus uptake at 6 µg P g(-1) was highly correlated with total root length, total rhizosphere carboxylate content and total rhizosphere acid phosphatase (EC 3.1.3.2) activity. These findings provide strong indications that there are opportunities to utilize local Australian legumes in low P pasture systems to access sparingly soluble soil P and increase perennial legume productivity, diversity and sustainability. © 2014 Scandinavian Plant Physiology Society.

Segmentation of consumer's markets and evaluation of market's segments

OpenAIRE

ŠVECOVÁ, Iveta

2013-01-01

The goal of this bachelor thesis was to explain a possibly segmentation of consumer´s markets for a chosen company, and to present a suitable goods offer, so it would be suitable to the needs of selected segments. The work is divided into theoretical and practical part. First part describes marketing, segmentation, segmentation of consumer's markets, consumer's market, market's segments a other terms. Second part describes an evaluation of questionnaire survey, discovering of market's segment...

The Kidney in Aging: Physiological Changes and Pathological Implications.

Science.gov (United States)

Sobamowo, H; Prabhakar, S S

2017-01-01

Aging is associated with progressive decline in renal function along with concurrent morphological changes that ultimately lead to glomerulosclerosis. The mechanisms leading to such changes in the kidney with age as well as the basis of controversies that surround the physiological basis vs pathological nature of aging kidney are the focus of this in-depth review. In addition, the renal functional defects of acid-base homeostasis and electrolyte disturbances in elderly and the physiological basis of such disorders are also discussed. © 2017 Elsevier Inc. All rights reserved.

Morphological and physiological responses of seagrasses (Alismatales to grazers (Testudines: Cheloniidae and the role of these responses as grazing patch abandonment cues

Directory of Open Access Journals (Sweden)

Elizabeth A. Lacey

2014-12-01

Full Text Available Green sea turtles, Chelonia mydas, are grazers influencing the distribution of seagrass within shallow coastal ecosystems, yet the drivers behind C. mydas patch use within seagrass beds are largely unknown. Current theories center on food quality (nutrient content as the plant responds to grazing disturbances; however, no study has monitored these parameters in a natural setting without grazer manipulation. To determine the morphological and physiological responses potentially influencing seagrass recovery from grazing disturbances, seagrasses were monitored for one year under three different grazing scenarios (turtle grazed, fish grazed and ungrazed in a tropical ecosystem in Akumal Bay, Quintana Roo, Mexico. Significantly less soluble carbohydrates and increased nitrogen and phosphorus content in Thalassia testudinum were indicative of the stresses placed on seagrasses during herbivory. To determine if these physiological responses were the drivers of the heterogeneous grazing behavior by C. mydas recorded in Akumal Bay, patches were mapped and monitored over a six-month interval. The abandoned patches had the lowest standing crop rather than leaf nutrient or rhizome soluble carbohydrate content. This suggests a modified Giving Up Density (GUD behavior: the critical threshold where cost of continued grazing does not provide minimum nutrients, therefore, new patches must be utilized, explains resource abandonment and mechanism behind C. mydas grazing. This study is the first to apply GUD theory, often applied in terrestrial literature, to explain marine herbivore grazing behavior.

Morphological and physiological responses of seagrasses (Alismatales) to grazers (Testudines: Cheloniidae) and the role of these responses as grazing patch abandonment cues.

Science.gov (United States)

Lacey, Elizabeth A; Collado-Vides, Ligia; Fourqurean, James W

2014-12-01

Green sea turtles, Chelonia mydas, are grazers influencing the distribution of seagrass within shallow coastal ecosystems, yet the drivers behind C. mydas patch use within seagrass beds are largely unknown. Current theories center on food quality (nutrient content) as the plant responds to grazing disturbances; however, no study has monitored these parameters in a natural setting without grazer manipulation. To determine the morphological and physiological responses potentially influencing seagrass recovery from grazing disturbances, seagrasses were monitored for one year under three different grazing scenarios (turtle grazed, fish grazed and ungrazed) in a tropical ecosystem in Akumal Bay, Quintana Roo, Mexico. Significantly less soluble carbohydrates and increased nitrogen and phosphorus content in Thalassia testudinum were indicative of the stresses placed on seagrasses during herbivory. To determine if these physiological responses were the drivers of the heterogeneous grazing behavior by C. mydas recorded in Akumal Bay, patches were mapped and monitored over a six-month interval. The abandoned patches had the lowest standing crop rather than leaf nutrient or rhi- zome soluble carbohydrate content. This suggests a modified Giving Up Density (GUD) behavior: the critical threshold where cost of continued grazing does not provide minimum nutrients, therefore, new patches must be utilized, explains resource abandonment and mechanism behind C. mydas grazing. This study is the first to apply GUD theory, often applied in terrestrial literature, to explain marine herbivore grazing behavior.

A two-stage method for microcalcification cluster segmentation in mammography by deformable models

International Nuclear Information System (INIS)

Arikidis, N.; Kazantzi, A.; Skiadopoulos, S.; Karahaliou, A.; Costaridou, L.; Vassiou, K.

2015-01-01

Purpose: Segmentation of microcalcification (MC) clusters in x-ray mammography is a difficult task for radiologists. Accurate segmentation is prerequisite for quantitative image analysis of MC clusters and subsequent feature extraction and classification in computer-aided diagnosis schemes. Methods: In this study, a two-stage semiautomated segmentation method of MC clusters is investigated. The first stage is targeted to accurate and time efficient segmentation of the majority of the particles of a MC cluster, by means of a level set method. The second stage is targeted to shape refinement of selected individual MCs, by means of an active contour model. Both methods are applied in the framework of a rich scale-space representation, provided by the wavelet transform at integer scales. Segmentation reliability of the proposed method in terms of inter and intraobserver agreements was evaluated in a case sample of 80 MC clusters originating from the digital database for screening mammography, corresponding to 4 morphology types (punctate: 22, fine linear branching: 16, pleomorphic: 18, and amorphous: 24) of MC clusters, assessing radiologists’ segmentations quantitatively by two distance metrics (Hausdorff distance—HDIST cluster , average of minimum distance—AMINDIST cluster ) and the area overlap measure (AOM cluster ). The effect of the proposed segmentation method on MC cluster characterization accuracy was evaluated in a case sample of 162 pleomorphic MC clusters (72 malignant and 90 benign). Ten MC cluster features, targeted to capture morphologic properties of individual MCs in a cluster (area, major length, perimeter, compactness, and spread), were extracted and a correlation-based feature selection method yielded a feature subset to feed in a support vector machine classifier. Classification performance of the MC cluster features was estimated by means of the area under receiver operating characteristic curve (Az ± Standard Error) utilizing tenfold cross

Marker-controlled watershed segmentation of nuclei in H&E stained breast cancer biopsy images

NARCIS (Netherlands)

Veta, M.; Huisman, A.; Viergever, M.A.; Diest, van P.J.; Pluim, J.P.W.

2011-01-01

In this paper we present an unsupervised automatic method for segmentation of nuclei in H&E stained breast cancer biopsy images. Colour deconvolution and morphological operations are used to preprocess the images in order to remove irrelevant structures. Candidate nuclei locations, obtained with the

A workflow for the automatic segmentation of organelles in electron microscopy image stacks

Science.gov (United States)

Perez, Alex J.; Seyedhosseini, Mojtaba; Deerinck, Thomas J.; Bushong, Eric A.; Panda, Satchidananda; Tasdizen, Tolga; Ellisman, Mark H.

2014-01-01

Electron microscopy (EM) facilitates analysis of the form, distribution, and functional status of key organelle systems in various pathological processes, including those associated with neurodegenerative disease. Such EM data often provide important new insights into the underlying disease mechanisms. The development of more accurate and efficient methods to quantify changes in subcellular microanatomy has already proven key to understanding the pathogenesis of Parkinson's and Alzheimer's diseases, as well as glaucoma. While our ability to acquire large volumes of 3D EM data is progressing rapidly, more advanced analysis tools are needed to assist in measuring precise three-dimensional morphologies of organelles within data sets that can include hundreds to thousands of whole cells. Although new imaging instrument throughputs can exceed teravoxels of data per day, image segmentation and analysis remain significant bottlenecks to achieving quantitative descriptions of whole cell structural organellomes. Here, we present a novel method for the automatic segmentation of organelles in 3D EM image stacks. Segmentations are generated using only 2D image information, making the method suitable for anisotropic imaging techniques such as serial block-face scanning electron microscopy (SBEM). Additionally, no assumptions about 3D organelle morphology are made, ensuring the method can be easily expanded to any number of structurally and functionally diverse organelles. Following the presentation of our algorithm, we validate its performance by assessing the segmentation accuracy of different organelle targets in an example SBEM dataset and demonstrate that it can be efficiently parallelized on supercomputing resources, resulting in a dramatic reduction in runtime. PMID:25426032

Fully automated whole-head segmentation with improved smoothness and continuity, with theory reviewed.

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Yu Huang

Full Text Available Individualized current-flow models are needed for precise targeting of brain structures using transcranial electrical or magnetic stimulation (TES/TMS. The same is true for current-source reconstruction in electroencephalography and magnetoencephalography (EEG/MEG. The first step in generating such models is to obtain an accurate segmentation of individual head anatomy, including not only brain but also cerebrospinal fluid (CSF, skull and soft tissues, with a field of view (FOV that covers the whole head. Currently available automated segmentation tools only provide results for brain tissues, have a limited FOV, and do not guarantee continuity and smoothness of tissues, which is crucially important for accurate current-flow estimates. Here we present a tool that addresses these needs. It is based on a rigorous Bayesian inference framework that combines image intensity model, anatomical prior (atlas and morphological constraints using Markov random fields (MRF. The method is evaluated on 20 simulated and 8 real head volumes acquired with magnetic resonance imaging (MRI at 1 mm3 resolution. We find improved surface smoothness and continuity as compared to the segmentation algorithms currently implemented in Statistical Parametric Mapping (SPM. With this tool, accurate and morphologically correct modeling of the whole-head anatomy for individual subjects may now be feasible on a routine basis. Code and data are fully integrated into SPM software tool and are made publicly available. In addition, a review on the MRI segmentation using atlas and the MRF over the last 20 years is also provided, with the general mathematical framework clearly derived.

Fully automated whole-head segmentation with improved smoothness and continuity, with theory reviewed.

Science.gov (United States)

Huang, Yu; Parra, Lucas C

2015-01-01

Individualized current-flow models are needed for precise targeting of brain structures using transcranial electrical or magnetic stimulation (TES/TMS). The same is true for current-source reconstruction in electroencephalography and magnetoencephalography (EEG/MEG). The first step in generating such models is to obtain an accurate segmentation of individual head anatomy, including not only brain but also cerebrospinal fluid (CSF), skull and soft tissues, with a field of view (FOV) that covers the whole head. Currently available automated segmentation tools only provide results for brain tissues, have a limited FOV, and do not guarantee continuity and smoothness of tissues, which is crucially important for accurate current-flow estimates. Here we present a tool that addresses these needs. It is based on a rigorous Bayesian inference framework that combines image intensity model, anatomical prior (atlas) and morphological constraints using Markov random fields (MRF). The method is evaluated on 20 simulated and 8 real head volumes acquired with magnetic resonance imaging (MRI) at 1 mm3 resolution. We find improved surface smoothness and continuity as compared to the segmentation algorithms currently implemented in Statistical Parametric Mapping (SPM). With this tool, accurate and morphologically correct modeling of the whole-head anatomy for individual subjects may now be feasible on a routine basis. Code and data are fully integrated into SPM software tool and are made publicly available. In addition, a review on the MRI segmentation using atlas and the MRF over the last 20 years is also provided, with the general mathematical framework clearly derived.

Complete volumetric decomposition of individual trabecular plates and rods and its morphological correlations with anisotropic elastic moduli in human trabecular bone.

Science.gov (United States)

Liu, X Sherry; Sajda, Paul; Saha, Punam K; Wehrli, Felix W; Bevill, Grant; Keaveny, Tony M; Guo, X Edward

2008-02-01

Trabecular plates and rods are important microarchitectural features in determining mechanical properties of trabecular bone. A complete volumetric decomposition of individual trabecular plates and rods was used to assess the orientation and morphology of 71 human trabecular bone samples. The ITS-based morphological analyses better characterize microarchitecture and help predict anisotropic mechanical properties of trabecular bone. Standard morphological analyses of trabecular architecture lack explicit segmentations of individual trabecular plates and rods. In this study, a complete volumetric decomposition technique was developed to segment trabecular bone microstructure into individual plates and rods. Contributions of trabecular type-associated morphological parameters to the anisotropic elastic moduli of trabecular bone were studied. Seventy-one human trabecular bone samples from the femoral neck (FN), tibia, and vertebral body (VB) were imaged using muCT or serial milling. Complete volumetric decomposition was applied to segment trabecular bone microstructure into individual plates and rods. The orientation of each individual trabecula was determined, and the axial bone volume fractions (aBV/TV), axially aligned bone volume fraction along each orthotropic axis, were correlated with the elastic moduli. The microstructural type-associated morphological parameters were derived and compared with standard morphological parameters. Their contributions to the anisotropic elastic moduli, calculated by finite element analysis (FEA), were evaluated and compared. The distribution of trabecular orientation suggested that longitudinal plates and transverse rods dominate at all three anatomic sites. aBV/TV along each axis, in general, showed a better correlation with the axial elastic modulus (r(2) = 0.95 approximately 0.99) compared with BV/TV (r(2) = 0.93 approximately 0.94). The plate-associated morphological parameters generally showed higher correlations with the

Chemostat Culture for Yeast Physiology.

Science.gov (United States)

Kerr, Emily O; Dunham, Maitreya J

2017-07-05

The use of chemostat culture facilitates the careful comparison of different yeast strains growing in well-defined conditions. Variations in physiology can be measured by examining gene expression, metabolite levels, protein content, and cell morphology. In this protocol, we show how a combination of sample types can be collected during harvest from a single 20-mL chemostat in a ministat array, with special attention to coordinating the handling of the most time-sensitive sample types. © 2017 Cold Spring Harbor Laboratory Press.

Segmentation of the millipede trunk as suggested by a homeotic mutant with six extra pairs of gonopods

DEFF Research Database (Denmark)

Akkari, Nesrine; Enghoff, Henrik; Minelli, Alessandro

2014-01-01

morphological entities. Two predictions were suggested to test the plausibility of multiple-duplication models of segmentation: first, a specific pattern of evolvability of segment number in those arthropod clades in which segment number is not fixed (e.g., epimorphic centipedes and millipedes); second...... of ectopic ones on ring 8) is reiterated by the posterior set (on rings 15-16) after exactly 16 leg positions along the AP body axis. This suggests that a body section including 16 leg pairs could be a module deriving from 4 cycles of regular binary splitting of an embryonic ‘primary segment’. Conclusions...

Regional differences of physiological functions and cancer susceptibility in the human large intestine

NARCIS (Netherlands)

Cats, A; DeVries, EGE; Mulder, NH; Kleibeuker, JH

1996-01-01

Regional differences in function, metabolism and morphology between proximal colon, distal colon and rectum may be important in the pathogenesis and biologic behaviour of tumours originating from these segments. Thus, the effect of primary prevention of colorectal cancer may also differ from one

Segmentation and morphometric analysis of cells from fluorescence microscopy images of cytoskeletons.

Science.gov (United States)

Ujihara, Yoshihiro; Nakamura, Masanori; Miyazaki, Hiroshi; Wada, Shigeo

2013-01-01

We developed a method to reconstruct cell geometry from confocal fluorescence microscopy images of the cytoskeleton. In the method, region growing was implemented twice. First, it was applied to the extracellular regions to differentiate them from intracellular noncytoskeletal regions, which both appear black in fluorescence microscopy imagery, and then to cell regions for cell identification. Analysis of morphological parameters revealed significant changes in cell shape associated with cytoskeleton disruption, which offered insight into the mechanical role of the cytoskeleton in maintaining cell shape. The proposed segmentation method is promising for investigations on cell morphological changes with respect to internal cytoskeletal structures.

Active contour segmentation in dynamic medical imaging: application to nuclear cardiology

International Nuclear Information System (INIS)

Debreuve, Eric

2000-01-01

In emission imaging, nuclear medicine provides functional information about the organ of interest. In transmission imaging, it provides anatomical information whose goal may be the correction of physical phenomena that corrupt emission images. With both emission and transmission images, it is useful to know how to extract, either automatically or semi-automatically, the organs of interest and the body outline in the case of a large field of view. This is the aim of segmentation. We developed two active contour segmentation methods. They were implemented using level sets. The key point is the evolution velocity definition. First, we were interested in static transmission imaging of the thorax. The evolution velocity was heuristically defined and depended only on the acquired projections. The segmented transmission map was computed w/o reconstruction and could be advantageously used for attenuation correction. Then, we studied the segmentation of cardiac gated sequences. The developed space-time segmentation method results from the minimization of a variational criterion which takes into account the whole sequence. The computed segmentation could be used for calculating physiological parameters. As an illustration, we computed the ejection fraction. Finally, we exploited some level set properties to develop a non-rigid, non-parametric, and geometric registration method. We applied it for kinetic compensation of cardiac gated sequences. The registered images were then added together providing an image with noise characteristics similar to a cardiac static image but w/o motion-induced blurring. (author)

Multi-scale learning based segmentation of glands in digital colonrectal pathology images.

Science.gov (United States)

Gao, Yi; Liu, William; Arjun, Shipra; Zhu, Liangjia; Ratner, Vadim; Kurc, Tahsin; Saltz, Joel; Tannenbaum, Allen

2016-02-01

Digital histopathological images provide detailed spatial information of the tissue at micrometer resolution. Among the available contents in the pathology images, meso-scale information, such as the gland morphology, texture, and distribution, are useful diagnostic features. In this work, focusing on the colon-rectal cancer tissue samples, we propose a multi-scale learning based segmentation scheme for the glands in the colon-rectal digital pathology slides. The algorithm learns the gland and non-gland textures from a set of training images in various scales through a sparse dictionary representation. After the learning step, the dictionaries are used collectively to perform the classification and segmentation for the new image.

Volumetric quantification of bone-implant contact using micro-computed tomography analysis based on region-based segmentation.

Science.gov (United States)

Kang, Sung-Won; Lee, Woo-Jin; Choi, Soon-Chul; Lee, Sam-Sun; Heo, Min-Suk; Huh, Kyung-Hoe; Kim, Tae-Il; Yi, Won-Jin

2015-03-01

We have developed a new method of segmenting the areas of absorbable implants and bone using region-based segmentation of micro-computed tomography (micro-CT) images, which allowed us to quantify volumetric bone-implant contact (VBIC) and volumetric absorption (VA). The simple threshold technique generally used in micro-CT analysis cannot be used to segment the areas of absorbable implants and bone. Instead, a region-based segmentation method, a region-labeling method, and subsequent morphological operations were successively applied to micro-CT images. The three-dimensional VBIC and VA of the absorbable implant were then calculated over the entire volume of the implant. Two-dimensional (2D) bone-implant contact (BIC) and bone area (BA) were also measured based on the conventional histomorphometric method. VA and VBIC increased significantly with as the healing period increased (pimplants using micro-CT analysis using a region-based segmentation method.

Effect of Planting Date on Physiological and MorphologicalCharacteristics of Four Canola Cultivars in Yasouj

Directory of Open Access Journals (Sweden)

M. H. Fallah Heki

2012-08-01

Full Text Available In order to study the physiological and morphological characteristics of canola cultivars at different planting dates, an experiment was carried out in 2008-2009 at the Agriculture Research Station of Yasouj. A factorial with Randomized Complete Block Design with four replications was conducted. Four planting dates (September 12, September 22, October 2 and October 12 and four cultivars (Zarfam, Okapi, Elite and SLM-046 were used in this study. Results showed that cultivars and planting dates had significant effects on more characteristics. In addition, interaction of planting date and cultivar was significant on plant height, height to lowest silique, number of branches, growth indices and grain yield. Zarfam and Elite cultivars had lower initial fluorescence (Fo and higher maximum fluorescence (Fm and photochemical capacity of photosystem II (Fv/Fm than Okapi and SLM-046 cultivars. Elite cultivar at September 12 planting date had the highest plant height (173 cm and height to lowest silique (87.5 cm and Okapi cultivar at October 12 planting date showed the lowest plant height (91 cm and height to lowest silique (43.7 cm. At September 12 planting date, Elite cultivar had the greatest leaf area index (5.21 and grain yield (5231 kg/ha. At other planting dates, Zarfam cultivar because of priority in leaf area index, crop growth rate and total dry matter have the greatest grain yield than other cultivars. In general, seems at September 12 planting date, Elite cultivar and for delayed sowing, Zarfam cultivar had better reaction than other cultivars.

Recognition of Wheat Spike from Field Based Phenotype Platform Using Multi-Sensor Fusion and Improved Maximum Entropy Segmentation Algorithms

Directory of Open Access Journals (Sweden)

Chengquan Zhou

2018-02-01

Full Text Available To obtain an accurate count of wheat spikes, which is crucial for estimating yield, this paper proposes a new algorithm that uses computer vision to achieve this goal from an image. First, a home-built semi-autonomous multi-sensor field-based phenotype platform (FPP is used to obtain orthographic images of wheat plots at the filling stage. The data acquisition system of the FPP provides high-definition RGB images and multispectral images of the corresponding quadrats. Then, the high-definition panchromatic images are obtained by fusion of three channels of RGB. The Gram–Schmidt fusion algorithm is then used to fuse these multispectral and panchromatic images, thereby improving the color identification degree of the targets. Next, the maximum entropy segmentation method is used to do the coarse-segmentation. The threshold of this method is determined by a firefly algorithm based on chaos theory (FACT, and then a morphological filter is used to de-noise the coarse-segmentation results. Finally, morphological reconstruction theory is applied to segment the adhesive part of the de-noised image and realize the fine-segmentation of the image. The computer-generated counting results for the wheat plots, using independent regional statistical function in Matlab R2017b software, are then compared with field measurements which indicate that the proposed method provides a more accurate count of wheat spikes when compared with other traditional fusion and segmentation methods mentioned in this paper.

Delphi definition of the EADC-ADNI Harmonized Protocol for hippocampal segmentation on magnetic resonance.

Science.gov (United States)

Boccardi, Marina; Bocchetta, Martina; Apostolova, Liana G; Barnes, Josephine; Bartzokis, George; Corbetta, Gabriele; DeCarli, Charles; deToledo-Morrell, Leyla; Firbank, Michael; Ganzola, Rossana; Gerritsen, Lotte; Henneman, Wouter; Killiany, Ronald J; Malykhin, Nikolai; Pasqualetti, Patrizio; Pruessner, Jens C; Redolfi, Alberto; Robitaille, Nicolas; Soininen, Hilkka; Tolomeo, Daniele; Wang, Lei; Watson, Craig; Wolf, Henrike; Duvernoy, Henri; Duchesne, Simon; Jack, Clifford R; Frisoni, Giovanni B

2015-02-01

This study aimed to have international experts converge on a harmonized definition of whole hippocampus boundaries and segmentation procedures, to define standard operating procedures for magnetic resonance (MR)-based manual hippocampal segmentation. The panel received a questionnaire regarding whole hippocampus boundaries and segmentation procedures. Quantitative information was supplied to allow evidence-based answers. A recursive and anonymous Delphi procedure was used to achieve convergence. Significance of agreement among panelists was assessed by exact probability on Fisher's and binomial tests. Agreement was significant on the inclusion of alveus/fimbria (P = .021), whole hippocampal tail (P = .013), medial border of the body according to visible morphology (P = .0006), and on this combined set of features (P = .001). This definition captures 100% of hippocampal tissue, 100% of Alzheimer's disease-related atrophy, and demonstrated good reliability on preliminary intrarater (0.98) and inter-rater (0.94) estimates. Consensus was achieved among international experts with respect to hippocampal segmentation using MR resulting in a harmonized segmentation protocol. Copyright © 2015 The Alzheimer's Association. Published by Elsevier Inc. All rights reserved.

USABILITY TESTING OF JAPANESE CAPTIONS SEGMENTATION SYSTEM TO SCAFFOLD BEGINNERS TO COMPREHEND JAPANESE VIDEOS

Directory of Open Access Journals (Sweden)

Ya-Fei Yang

2013-06-01

Full Text Available A major learning difficulty of Japanese foreign language (JFL learners is the complex composition of two syllabaries, hiragana and katakana, and kanji characters adopted from logographic Chinese ones. As the number of Japanese language learners increases, computer-assisted Japanese language education gradually gains more attention. This study aimed to adopt a Japanese word segmentation system to help JFL learners overcome literacy problems. This study adopted MeCab, a Japanese morphological analyzer and part-of-speech (POS tagger, to segment Japanese texts into separate morphemes by adding spaces and to attach POS tags to each morpheme for beginners. The participants were asked to participate in three experimental activities involvingwatching two Japanese videos with general or segmented Japanese captions and complete the Nielsen’s Attributes of Usability (NAU survey and the After Scenario Questionnaire (ASQ to evaluate the usability of the learning activities. The results of the system evaluation showed that the videos with the segmented captions could increase the participants’ learning motivation and willingness to adopt the word segmentation system to learn Japanese.

Segmental and regional quantification of 3D cellular density of human meniscus from osteoarthritic knee.

Science.gov (United States)

Cengiz, Ibrahim Fatih; Pereira, Hélder; Pêgo, José Miguel; Sousa, Nuno; Espregueira-Mendes, João; Oliveira, Joaquim Miguel; Reis, Rui Luís

2017-06-01

The knee menisci have important roles in the knee joint. Complete healing of the meniscus remains a challenge in the clinics. Cellularity is one of the most important biological parameters that must be taken into account in regenerative strategies. However, knowledge on the 3D cellularity of the human meniscus is lacking in the literature. The aim of this study was to quantify the 3D cellular density of human meniscus from the osteoarthritic knee in a segmental and regional manner with respect to laterality. Human lateral menisci were histologically processed and stained with Giemsa for histomorphometric analysis. The cells were counted in an in-depth fashion. 3D cellular density in the vascular region (27 199 cells/mm 3 ) was significantly higher than in the avascular region (12 820 cells/mm 3 ). The cells were observed to possess two distinct morphologies, roundish or flattened. The 3D density of cells with fibrochondrocyte morphology (14 705 cells/mm 3 ) was significantly greater than the 3D density of the cells with fibroblast-like cell morphology (5539 cells/mm 3 ). The best-fit equation for prediction of the 3D density of cells with fibrochondrocyte morphology was found to be: Density of cells with fibrochondrocyte morphology = 1.22 × density of cells withfibroblast-like cell morphology + 7750. The present study revealed the segmental and regional 3D cellular density of human lateral meniscus from osteoarthritic knee with respect to laterality. This crucial but so far missing information will empower cellular strategies aiming at meniscus tissue regeneration. Copyright © 2015 John Wiley & Sons, Ltd. Copyright © 2015 John Wiley & Sons, Ltd.

Quantitative 3D ultrashort time-to-echo (UTE) MRI and micro-CT (μCT) evaluation of the temporomandibular joint (TMJ) condylar morphology

Energy Technology Data Exchange (ETDEWEB)

Geiger, Daniel [Sapienza University of Rome, Department of Radiological, Oncological and Pathological Sciences, Rome (Italy); Bae, Won C.; Statum, Sheronda; Du, Jiang; Chung, Christine B. [University of California-San Diego, Department of Radiology, San Diego, CA (United States)

2014-01-15

Temporomandibular dysfunction involves osteoarthritis of the TMJ, including degeneration and morphologic changes of the mandibular condyle. The purpose of this study was to determine the accuracy of novel 3D-UTE MRI versus micro-CT (μCT) for quantitative evaluation of mandibular condyle morphology. Nine TMJ condyle specimens were harvested from cadavers (2 M, 3 F; age 85 ± 10 years, mean ± SD). 3D-UTE MRI (TR = 50 ms, TE = 0.05 ms, 104-μm isotropic-voxel) was performed using a 3-T MR scanner and μCT (18-μm isotropic-voxel) was also performed. MR datasets were spatially registered with a μCT dataset. Two observers segmented bony contours of the condyles. Fibrocartilage was segmented on the MR dataset. Using a custom program, bone and fibrocartilage surface coordinates, Gaussian curvature, volume of segmented regions, and fibrocartilage thickness were determined for quantitative evaluation of joint morphology. Agreement between techniques (MRI vs. μCT) and observers (MRI vs. MRI) for Gaussian curvature, mean curvature, and segmented volume of the bone were determined using intraclass correlation coefficient (ICC) analysis. Between MRI and μCT, the average deviation of surface coordinates was 0.19 ± 0.15 mm, slightly higher than the spatial resolution of MRI. Average deviation of the Gaussian curvature and volume of segmented regions, from MRI to μCT, was 5.7 ± 6.5 % and 6.6 ± 6.2 %, respectively. ICC coefficients (MRI vs. μCT) for Gaussian curvature, mean curvature, and segmented volumes were 0.892, 0.893, and 0.972, respectively. Between observers (MRI vs. MRI), the ICC coefficients were 0.998, 0.999, and 0.997, respectively. Fibrocartilage thickness was 0.55 ± 0.11 mm, as previously described in the literature for grossly normal TMJ samples. 3D-UTE MR quantitative evaluation of TMJ condyle morphology ex-vivo, including surface, curvature, and segmented volume, shows high correlation against μCT and between observers. In addition, UTE MRI allows

Multidendritic sensory neurons in the adult Drosophila abdomen: origins, dendritic morphology, and segment- and age-dependent programmed cell death

Directory of Open Access Journals (Sweden)

Sugimura Kaoru

2009-10-01

Full Text Available Abstract Background For the establishment of functional neural circuits that support a wide range of animal behaviors, initial circuits formed in early development have to be reorganized. One way to achieve this is local remodeling of the circuitry hardwiring. To genetically investigate the underlying mechanisms of this remodeling, one model system employs a major group of Drosophila multidendritic sensory neurons - the dendritic arborization (da neurons - which exhibit dramatic dendritic pruning and subsequent growth during metamorphosis. The 15 da neurons are identified in each larval abdominal hemisegment and are classified into four categories - classes I to IV - in order of increasing size of their receptive fields and/or arbor complexity at the mature larval stage. Our knowledge regarding the anatomy and developmental basis of adult da neurons is still fragmentary. Results We identified multidendritic neurons in the adult Drosophila abdomen, visualized the dendritic arbors of the individual neurons, and traced the origins of those cells back to the larval stage. There were six da neurons in abdominal hemisegment 3 or 4 (A3/4 of the pharate adult and the adult just after eclosion, five of which were persistent larval da neurons. We quantitatively analyzed dendritic arbors of three of the six adult neurons and examined expression in the pharate adult of key transcription factors that result in the larval class-selective dendritic morphologies. The 'baseline design' of A3/4 in the adult was further modified in a segment-dependent and age-dependent manner. One of our notable findings is that a larval class I neuron, ddaE, completed dendritic remodeling in A2 to A4 and then underwent caspase-dependent cell death within 1 week after eclosion, while homologous neurons in A5 and in more posterior segments degenerated at pupal stages. Another finding is that the dendritic arbor of a class IV neuron, v'ada, was immediately reshaped during post

Rough-fuzzy clustering and unsupervised feature selection for wavelet based MR image segmentation.

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Pradipta Maji

Full Text Available Image segmentation is an indispensable process in the visualization of human tissues, particularly during clinical analysis of brain magnetic resonance (MR images. For many human experts, manual segmentation is a difficult and time consuming task, which makes an automated brain MR image segmentation method desirable. In this regard, this paper presents a new segmentation method for brain MR images, integrating judiciously the merits of rough-fuzzy computing and multiresolution image analysis technique. The proposed method assumes that the major brain tissues, namely, gray matter, white matter, and cerebrospinal fluid from the MR images are considered to have different textural properties. The dyadic wavelet analysis is used to extract the scale-space feature vector for each pixel, while the rough-fuzzy clustering is used to address the uncertainty problem of brain MR image segmentation. An unsupervised feature selection method is introduced, based on maximum relevance-maximum significance criterion, to select relevant and significant textural features for segmentation problem, while the mathematical morphology based skull stripping preprocessing step is proposed to remove the non-cerebral tissues like skull. The performance of the proposed method, along with a comparison with related approaches, is demonstrated on a set of synthetic and real brain MR images using standard validity indices.

Pyrolytic carbon membranes containing silica: morphological approach on gas transport behavior

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Park, Ho Bum; Lee, Sun Yong; Lee, Young Moo

2005-04-01

Pyrolytic carbon membrane containing silica (C-SiO 2) is a new-class material for gas separation, and in the present work we will deal with it in view of the morphological changes arising from the difference in the molecular structure of the polymeric precursors. The silica embedded carbon membranes were fabricated by a predetermined pyrolysis step using imide-siloxane copolymers (PISs) that was synthesized from benzophenone tetracarboxylic dianhydrides (BTDA), 4,4'-oxydianiline (ODA), and amine-terminated polydimethylsiloxane (PDMS). To induce different morphologies at the same chemical composition, the copolymers were prepared using one-step (preferentially a random segmented copolymer) sand two-step polymerization (a block segmented copolymer) methods. The polymeric precursors and their pyrolytic C-SiO 2 membranes were analyzed using thermal analysis, atomic force microscopy, and transmission electron microscopy, etc. It was found that the C-SiO 2 membrane derived from the random PIS copolymer showed a micro-structure containing small well-dispersed silica domains, whereas the C-SiO 2 membrane from the block PIS copolymer exhibited a micro-structure containing large silica domains in the continuous carbon matrix. Eventually, the gas transport through these C-SiO 2 membranes was significantly affected by the morphological changes of the polymeric precursors.

Morphological and molecular evidence for functional organization along the rostrocaudal axis of the adult zebrafish intestine

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Lam Siew

2010-06-01

Full Text Available Abstract Background The zebrafish intestine is a simple tapered tube that is folded into three sections. However, whether the intestine is functionally similar along its length remains unknown. Thus, a systematic structural and functional characterization of the zebrafish intestine is desirable for future studies of the digestive tract and the intestinal biology and development. Results To characterize the structure and function of the adult zebrafish intestine, we divided the intestine into seven roughly equal-length segments, S1-S7, and systematically examined the morphology of the mucosal lining, histology of the epithelium, and molecular signatures from transcriptome analysis. Prominent morphological features are circumferentially-oriented villar ridges in segments S1-S6 and the absence of crypts. Molecular characterization of the transcriptome from each segment shows that segments S1-S5 are very similar while S6 and S7 unique. Gene ontology analyses reveal that S1-S5 express genes whose functions involve metabolism of carbohydrates, transport of lipids and energy generation, while the last two segments display relatively limited function. Based on comparative Gene Set Enrichment Analysis, the first five segments share strong similarity with human and mouse small intestine while S6 shows similarity with human cecum and rectum, and S7 with human rectum. The intestinal tract does not display the anatomical, morphological, and molecular signatures of a stomach and thus we conclude that this organ is absent from the zebrafish digestive system. Conclusions Our genome-wide gene expression data indicate that, despite the lack of crypts, the rostral, mid, and caudal portions of the zebrafish intestine have distinct functions analogous to the mammalian small and large intestine, respectively. Organization of ridge structures represents a unique feature of zebrafish intestine, though they produce similar cross sections to mammalian intestines

Hierarchical graph-based segmentation for extracting road networks from high-resolution satellite images

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Alshehhi, Rasha; Marpu, Prashanth Reddy

2017-04-01

Extraction of road networks in urban areas from remotely sensed imagery plays an important role in many urban applications (e.g. road navigation, geometric correction of urban remote sensing images, updating geographic information systems, etc.). It is normally difficult to accurately differentiate road from its background due to the complex geometry of the buildings and the acquisition geometry of the sensor. In this paper, we present a new method for extracting roads from high-resolution imagery based on hierarchical graph-based image segmentation. The proposed method consists of: 1. Extracting features (e.g., using Gabor and morphological filtering) to enhance the contrast between road and non-road pixels, 2. Graph-based segmentation consisting of (i) Constructing a graph representation of the image based on initial segmentation and (ii) Hierarchical merging and splitting of image segments based on color and shape features, and 3. Post-processing to remove irregularities in the extracted road segments. Experiments are conducted on three challenging datasets of high-resolution images to demonstrate the proposed method and compare with other similar approaches. The results demonstrate the validity and superior performance of the proposed method for road extraction in urban areas.

Predator-induced physiological responses in tadpoles challenged with herbicide pollution

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Pablo BURRACO, Lidia Jiménez DUARTE, Ivan GOMEZ-MESTRE

2013-08-01

Full Text Available Predators induce plastic responses in multiple prey taxa, ranging from morphological to behavioral or physiological changes. In amphibians, tadpoles activate plastic responses to reduce predation risk by reducing their activity rate and altering their morphology, specifically tail depth and pigmentation. Furthermore, there is now evidence that tadpoles’ defenses are modified when predators combine with other stressful factors such as pollutants or competitors, but our knowledge on the physiological responses underlying these responses is still scarce. Here we study physiological responses in Pelobates cultripes tadpoles exposed to a natural predator (larvae of the aquatic beetle Dytiscus circumflexus, non-lethal concentrations of herbicide (glyphosate, 0.5 mg/L and 1.0 mg/L or both factors combined. We measured corticosterone levels, standard metabolic rate, oxidative damage (TBARS and activity of antioxidant enzymes, and immune response (via leukocyte count. Tadpoles reduced their corticosterone concentration by ca. 24% in the presence of predator cues, whereas corticosterone did not change in the presence of glyphosate. Two enzymes involved in antioxidant response also decreased in the presence of predators (14.7% and 13.2% respectively but not to glyphosate. Herbicide, however, increased the number of neutrophils and reduced that of lymphocytes, and had an interaction effect with predator presence. Standard metabolic rate did not vary across treatments in our experiment. Thus we show a marked physiological response to the presence of predators but little evidence for interaction between predators and low levels of herbicide. Multiple assessment of the physiological state of animals is important to understand the basis and consequences of phenotypic plasticity [Current Zoology 59 (4: 475–484, 2013].

The hippocampal formation: morphological changes induced by thyroid, gonadal and adrenal hormones.

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Gould, E; Woolley, C S; McEwen, B S

1991-01-01

The hippocampal formation is of considerable interest due to its proposed role in a number of important functions, including learning and memory processes. Manipulations of thyroid, gonadal and adrenal hormones have been shown to influence hippocampal physiology as well as learning and memory. The cellular events which underlie these hormone-induced functional changes are largely unexplored. However, studies suggest that hormonal manipulations during development and in adulthood result in dramatic morphological changes within the hippocampal formation. Because neuronal physiology has been suggested to depend upon neuronal morphology, we have been determining the morphologic sensitivity of hippocampal neurons to thyroid and steroid hormones in an effort to elucidate possible structural mechanisms to account for differences in hippocampal function. In this review, hormone-induced structural changes in the developing and adult hippocampal formation are discussed, with particular emphasis on their functional relevance. Sex differences, as well as the developmental effects of thyroid hormone and glucocorticoids, are described. Moreover, the effects of ovarian steroids, thyroid hormone and glucocorticoids on neuronal morphology in the hippocampal formation of the adult rat are reviewed. These hormone-induced structural changes may account, at least in part, for previously reported hormone-induced changes in hippocampal function.

Socintigraphic evaluation of lateral segment of the left lobe of the liver

International Nuclear Information System (INIS)

Oyama, Kazuyuki; Hayashi, Sanshin; Kogure, Takashi; Hirakawa, Ken; Akaike, Akira

1979-01-01

Lateral segment of left lobe of the liver is clearly demarcated on sup(99m) Tc-labeled cholescintigram. With analysis of 112 sup(99m) Tc-pyridoxylideneisoleucine scintigrams about lateral border of left lobe, there are some variants in 22 cases (19.7%) in shape in lateral segment of Type 4 left lobe in morphologic classification. Of lateral segment of left lobe, there are classified into five types in the anterior view according to the degeneration; Type 1 is gradually elongated tapered type in 8 cases (36.4%), Type 2 is laterally elongated type as rod shape or island shape in 5 cases (22.7%), Type 3 is lobulated type in 1 case (4.6%), Type 4 is narrowing type in 5 cases (22.7%), Type 5 is indentation type in 3 cases (13.6%). Using colloidal radiopharmaceuticals in liver scintigraphy, lateral segment of left lobe often overlapps with the spleen, which disturb to interpret the abnormality in left lobe of the liver and in the spleen. This analysis depends upon the recent advances in sup(99m) Tc-labeled hepatobiliary radiopharmaceuticals and equipment, and there has never discussed about the shape of lateral segment of left lobe in roentgenologic and scintigraphic evaluations. (author)

James Webb Space Telescope Optical Simulation Testbed: Segmented Mirror Phase Retrieval Testing

Science.gov (United States)

Laginja, Iva; Egron, Sylvain; Brady, Greg; Soummer, Remi; Lajoie, Charles-Philippe; Bonnefois, Aurélie; Long, Joseph; Michau, Vincent; Choquet, Elodie; Ferrari, Marc; Leboulleux, Lucie; Mazoyer, Johan; N’Diaye, Mamadou; Perrin, Marshall; Petrone, Peter; Pueyo, Laurent; Sivaramakrishnan, Anand

2018-01-01

The James Webb Space Telescope (JWST) Optical Simulation Testbed (JOST) is a hardware simulator designed to produce JWST-like images. A model of the JWST three mirror anastigmat is realized with three lenses in form of a Cooke Triplet, which provides JWST-like optical quality over a field equivalent to a NIRCam module, and an Iris AO segmented mirror with hexagonal elements is standing in for the JWST segmented primary. This setup successfully produces images extremely similar to NIRCam images from cryotesting in terms of the PSF morphology and sampling relative to the diffraction limit.The testbed is used for staff training of the wavefront sensing and control (WFS&C) team and for independent analysis of WFS&C scenarios of the JWST. Algorithms like geometric phase retrieval (GPR) that may be used in flight and potential upgrades to JWST WFS&C will be explored. We report on the current status of the testbed after alignment, implementation of the segmented mirror, and testing of phase retrieval techniques.This optical bench complements other work at the Makidon laboratory at the Space Telescope Science Institute, including the investigation of coronagraphy for segmented aperture telescopes. Beyond JWST we intend to use JOST for WFS&C studies for future large segmented space telescopes such as LUVOIR.

Sequential segmental classification of feline congenital heart disease.

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Scansen, Brian A; Schneider, Matthias; Bonagura, John D

2015-12-01

Feline congenital heart disease is less commonly encountered in veterinary medicine than acquired feline heart diseases such as cardiomyopathy. Understanding the wide spectrum of congenital cardiovascular disease demands a familiarity with a variety of lesions, occurring both in isolation and in combination, along with an appreciation of complex nomenclature and variable classification schemes. This review begins with an overview of congenital heart disease in the cat, including proposed etiologies and prevalence, examination approaches, and principles of therapy. Specific congenital defects are presented and organized by a sequential segmental classification with respect to their morphologic lesions. Highlights of diagnosis, treatment options, and prognosis are offered. It is hoped that this review will provide a framework for approaching congenital heart disease in the cat, and more broadly in other animal species based on the sequential segmental approach, which represents an adaptation of the common methodology used in children and adults with congenital heart disease. Copyright © 2015 Elsevier B.V. All rights reserved.

Crop physiological analysis of seed quality variation in common bean (Phaseolus vulgaris L.)

NARCIS (Netherlands)

Muasya, R.M.

2001-01-01

Keywords : Physiological maturity, harvest maturity, earliness, common bean, Phaseolus vulgaris L., morphological markers, variation, moisture content, dry weight, viability, vigour, electrical conductivity, tetrazolium, seed lot, seed

Effect of Trinexapac-Ethyl and Traffic Stress on Physiological and Morphological Characteristics of Wheat Grass(Agropyron desertorum

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M. H. Sheikh Mohamadi

2015-06-01

Full Text Available In order to evaluate the effect of trinexapac ethyl concentrations (0, 250 and 500 g/h and traffic stress (traffic and non traffic treatments on wheat grass physiological and morphological traits, an experiment was conducted on research farm of Isfahan University of Technology in 2011 - 2012 as factorial in completely randomized designs with three replications. The studied traits involved plant height and plant density, shoot dry weight and fresh weights, tillering, chlorophyll level, roots and shoot dissolved carbohydrates. Results showed that Trinexapac ethyl reduced plant height, fresh weight and dry weight of cut parts significantly. Application of 250 and 500 g/h Trinexapac ethyl decreased plant height by 21.23 percent and 31.85 percent respectively. Application of Trinexapac ethyl improved plant height, tillering and chlorophyll level. In contrast, chlorophyll level was decreased substantially under traffic treatment and this treatment did not affect wheat grass density and tillering significantly. Under 500 g/h Trinexapac ethyl treatment, tillering was increased by 36 percent compared with under control condition one. Results showed that Trinexapac ethyl application and traffic increased dissolved carbohydrates of root and shoot significantly. As a result, it was found that wheat grass is a traffic resistant plant and it seems that the use of Trinexapac ethyl increases plant resistance to traffic stress

Segmentation of heart sound recordings by a duration-dependent hidden Markov model

International Nuclear Information System (INIS)

Schmidt, S E; Graff, C; Toft, E; Struijk, J J; Holst-Hansen, C

2010-01-01

Digital stethoscopes offer new opportunities for computerized analysis of heart sounds. Segmentation of heart sound recordings into periods related to the first and second heart sound (S1 and S2) is fundamental in the analysis process. However, segmentation of heart sounds recorded with handheld stethoscopes in clinical environments is often complicated by background noise. A duration-dependent hidden Markov model (DHMM) is proposed for robust segmentation of heart sounds. The DHMM identifies the most likely sequence of physiological heart sounds, based on duration of the events, the amplitude of the signal envelope and a predefined model structure. The DHMM model was developed and tested with heart sounds recorded bedside with a commercially available handheld stethoscope from a population of patients referred for coronary arterioangiography. The DHMM identified 890 S1 and S2 sounds out of 901 which corresponds to 98.8% (CI: 97.8–99.3%) sensitivity in 73 test patients and 13 misplaced sounds out of 903 identified sounds which corresponds to 98.6% (CI: 97.6–99.1%) positive predictivity. These results indicate that the DHMM is an appropriate model of the heart cycle and suitable for segmentation of clinically recorded heart sounds

[Pyramidal syndrome in lateral amyotrophic sclerosis: clinico-morphological analysis].

Science.gov (United States)

Musaeva, L S; Zavalishin, I A; Gulevskaia, T S

2003-01-01

Retrospective clinical analysis with a special focus on pyramidal syndrome expression in the disease course as well as morphological study of brain and spinal structures in all levels of cortical-spinal projection (from brain motor cortex to spinal lumbar segments) have been conducted for 11 section cases of lateral amyotrophic sclerosis (LAS), sporadic type. Two groups of patients were studied: with pronounced pyramidal syndrome (spasticity, hyperreflexia, etc)--7 cases and with some signs of pyramidal deficiency (anisoreflexia, stability of peritoneal reflexes)--4 cases. Pyramidal syndrome in LAS is considered as an emergence of current neurodegenerative process, embracing a significant part of upper motor neurons of both precentral convolution and its axons along the whole length of cerebrospinal axis in the form of cytoplasmic inclusions and axonal spheroids. A presence of pathomorphological changes in other upper segmental structures of motor control reveals their role in pyramidal deficiency. Comparative analysis showed that expression of pyramidal syndrome signs and its correlation to atrophic paresis appearances is specifically determined by the severity of upper and lower motor neurons lesions. With regard to morphological changes in CNS structures, the peculiarities of some pyramidal syndrome appearances in LAS are analyzed.

Ranked retrieval of segmented nuclei for objective assessment of cancer gene repositioning

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Cukierski William J

2012-09-01

Full Text Available Abstract Background Correct segmentation is critical to many applications within automated microscopy image analysis. Despite the availability of advanced segmentation algorithms, variations in cell morphology, sample preparation, and acquisition settings often lead to segmentation errors. This manuscript introduces a ranked-retrieval approach using logistic regression to automate selection of accurately segmented nuclei from a set of candidate segmentations. The methodology is validated on an application of spatial gene repositioning in breast cancer cell nuclei. Gene repositioning is analyzed in patient tissue sections by labeling sequences with fluorescence in situ hybridization (FISH, followed by measurement of the relative position of each gene from the nuclear center to the nuclear periphery. This technique requires hundreds of well-segmented nuclei per sample to achieve statistical significance. Although the tissue samples in this study contain a surplus of available nuclei, automatic identification of the well-segmented subset remains a challenging task. Results Logistic regression was applied to features extracted from candidate segmented nuclei, including nuclear shape, texture, context, and gene copy number, in order to rank objects according to the likelihood of being an accurately segmented nucleus. The method was demonstrated on a tissue microarray dataset of 43 breast cancer patients, comprising approximately 40,000 imaged nuclei in which the HES5 and FRA2 genes were labeled with FISH probes. Three trained reviewers independently classified nuclei into three classes of segmentation accuracy. In man vs. machine studies, the automated method outperformed the inter-observer agreement between reviewers, as measured by area under the receiver operating characteristic (ROC curve. Robustness of gene position measurements to boundary inaccuracies was demonstrated by comparing 1086 manually and automatically segmented nuclei. Pearson

Automatic initialization and quality control of large-scale cardiac MRI segmentations.

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Albà, Xènia; Lekadir, Karim; Pereañez, Marco; Medrano-Gracia, Pau; Young, Alistair A; Frangi, Alejandro F

2018-01-01

Continuous advances in imaging technologies enable ever more comprehensive phenotyping of human anatomy and physiology. Concomitant reduction of imaging costs has resulted in widespread use of imaging in large clinical trials and population imaging studies. Magnetic Resonance Imaging (MRI), in particular, offers one-stop-shop multidimensional biomarkers of cardiovascular physiology and pathology. A wide range of analysis methods offer sophisticated cardiac image assessment and quantification for clinical and research studies. However, most methods have only been evaluated on relatively small databases often not accessible for open and fair benchmarking. Consequently, published performance indices are not directly comparable across studies and their translation and scalability to large clinical trials or population imaging cohorts is uncertain. Most existing techniques still rely on considerable manual intervention for the initialization and quality control of the segmentation process, becoming prohibitive when dealing with thousands of images. The contributions of this paper are three-fold. First, we propose a fully automatic method for initializing cardiac MRI segmentation, by using image features and random forests regression to predict an initial position of the heart and key anatomical landmarks in an MRI volume. In processing a full imaging database, the technique predicts the optimal corrective displacements and positions in relation to the initial rough intersections of the long and short axis images. Second, we introduce for the first time a quality control measure capable of identifying incorrect cardiac segmentations with no visual assessment. The method uses statistical, pattern and fractal descriptors in a random forest classifier to detect failures to be corrected or removed from subsequent statistical analysis. Finally, we validate these new techniques within a full pipeline for cardiac segmentation applicable to large-scale cardiac MRI databases. The

Evaluation of scale invariance in physiological signals by means of balanced estimation of diffusion entropy

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Zhang, Wenqing; Qiu, Lu; Xiao, Qin; Yang, Huijie; Zhang, Qingjun; Wang, Jianyong

2012-11-01

By means of the concept of the balanced estimation of diffusion entropy, we evaluate the reliable scale invariance embedded in different sleep stages and stride records. Segments corresponding to waking, light sleep, rapid eye movement (REM) sleep, and deep sleep stages are extracted from long-term electroencephalogram signals. For each stage the scaling exponent value is distributed over a considerably wide range, which tell us that the scaling behavior is subject and sleep cycle dependent. The average of the scaling exponent values for waking segments is almost the same as that for REM segments (˜0.8). The waking and REM stages have a significantly higher value of the average scaling exponent than that for light sleep stages (˜0.7). For the stride series, the original diffusion entropy (DE) and the balanced estimation of diffusion entropy (BEDE) give almost the same results for detrended series. The evolutions of local scaling invariance show that the physiological states change abruptly, although in the experiments great efforts have been made to keep conditions unchanged. The global behavior of a single physiological signal may lose rich information on physiological states. Methodologically, the BEDE can evaluate with considerable precision the scale invariance in very short time series (˜102), while the original DE method sometimes may underestimate scale-invariance exponents or even fail in detecting scale-invariant behavior. The BEDE method is sensitive to trends in time series. The existence of trends may lead to an unreasonably high value of the scaling exponent and consequent mistaken conclusions.

Variations in cell morphology in the canine cruciate ligament complex.

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Smith, K D; Vaughan-Thomas, A; Spiller, D G; Clegg, P D; Innes, J F; Comerford, E J

2012-08-01

Cell morphology may reflect the mechanical environment of tissues and influence tissue physiology and response to injury. Normal cruciate ligaments (CLs) from disease-free stifle joints were harvested from dog breeds with a high (Labrador retriever) and low (Greyhound) risk of cranial cruciate ligament (CCL) rupture. Antibodies against the cytoskeletal components vimentin and alpha tubulin were used to analyse cell morphology; nuclei were stained with 4',6-diamidino-2-phenylindole, and images were collected using conventional and confocal microscopy. Both cranial and caudal CLs contained cells of heterogenous morphologies. Cells were arranged between collagen bundles and frequently had cytoplasmic processes. Some of these processes were long (type A cells), others were shorter, thicker and more branched (type B cells), and some had no processes (type C cells). Processes were frequently shown to contact other cells, extending longitudinally and transversely through the CLs. Cells with longer processes had fusiform nuclei, and those with no processes had rounded nuclei and were more frequent in the mid-substance of both CLs. Cells with long processes were more commonly noted in the CLs of the Greyhound. As contact between cells may facilitate direct communication, variances in cell morphology between breeds at a differing risk of CCL rupture may reflect differences in CL physiology. Copyright © 2012 Elsevier Ltd. All rights reserved.

Segmentation of human skull in MRI using statistical shape information from CT data.

Science.gov (United States)

Wang, Defeng; Shi, Lin; Chu, Winnie C W; Cheng, Jack C Y; Heng, Pheng Ann

2009-09-01

To automatically segment the skull from the MRI data using a model-based three-dimensional segmentation scheme. This study exploited the statistical anatomy extracted from the CT data of a group of subjects by means of constructing an active shape model of the skull surfaces. To construct a reliable shape model, a novel approach was proposed to optimize the automatic landmarking on the coupled surfaces (i.e., the skull vault) by minimizing the description length that incorporated local thickness information. This model was then used to locate the skull shape in MRI of a different group of patients. Compared with performing landmarking separately on the coupled surfaces, the proposed landmarking method constructed models that had better generalization ability and specificity. The segmentation accuracies were measured by the Dice coefficient and the set difference, and compared with the method based on mathematical morphology operations. The proposed approach using the active shape model based on the statistical skull anatomy presented in the head CT data contributes to more reliable segmentation of the skull from MRI data.

Exploiting unsupervised and supervised classification for segmentation of the pathological lung in CT

International Nuclear Information System (INIS)

Korfiatis, P; Costaridou, L; Kalogeropoulou, C; Petsas, T; Daoussis, D; Adonopoulos, A

2009-01-01

Delineation of lung fields in presence of diffuse lung diseases (DLPDs), such as interstitial pneumonias (IP), challenges segmentation algorithms. To deal with IP patterns affecting the lung border an automated image texture classification scheme is proposed. The proposed segmentation scheme is based on supervised texture classification between lung tissue (normal and abnormal) and surrounding tissue (pleura and thoracic wall) in the lung border region. This region is coarsely defined around an initial estimate of lung border, provided by means of Markov Radom Field modeling and morphological operations. Subsequently, a support vector machine classifier was trained to distinguish between the above two classes of tissue, using textural feature of gray scale and wavelet domains. 17 patients diagnosed with IP, secondary to connective tissue diseases were examined. Segmentation performance in terms of overlap was 0.924±0.021, and for shape differentiation mean, rms and maximum distance were 1.663±0.816, 2.334±1.574 and 8.0515±6.549 mm, respectively. An accurate, automated scheme is proposed for segmenting abnormal lung fields in HRC affected by IP

Exploiting unsupervised and supervised classification for segmentation of the pathological lung in CT

Science.gov (United States)

Korfiatis, P.; Kalogeropoulou, C.; Daoussis, D.; Petsas, T.; Adonopoulos, A.; Costaridou, L.

2009-07-01

Delineation of lung fields in presence of diffuse lung diseases (DLPDs), such as interstitial pneumonias (IP), challenges segmentation algorithms. To deal with IP patterns affecting the lung border an automated image texture classification scheme is proposed. The proposed segmentation scheme is based on supervised texture classification between lung tissue (normal and abnormal) and surrounding tissue (pleura and thoracic wall) in the lung border region. This region is coarsely defined around an initial estimate of lung border, provided by means of Markov Radom Field modeling and morphological operations. Subsequently, a support vector machine classifier was trained to distinguish between the above two classes of tissue, using textural feature of gray scale and wavelet domains. 17 patients diagnosed with IP, secondary to connective tissue diseases were examined. Segmentation performance in terms of overlap was 0.924±0.021, and for shape differentiation mean, rms and maximum distance were 1.663±0.816, 2.334±1.574 and 8.0515±6.549 mm, respectively. An accurate, automated scheme is proposed for segmenting abnormal lung fields in HRC affected by IP

Effect of regulated deficit irrigation on the morphology, physiology, carbon allocation and nonstructural carbohydrates of three Kentucky bluegrasses

International Nuclear Information System (INIS)

Liu, J. R.; Ma, L.; Liu, Y. K.; Liu, T. J.; Lu, J. N.; Wang, D. N.

2015-01-01

Regulated deficit irrigation (RDI) has been assessed in a wide number of field and fruit crops. However, few are the studies dealing with turfgrass. This study was conducted to investigate the morphology, physiology and carbon metabolic responses to regulated deficit irrigation for three Kentucky bluegrass (Poa pratensis L.) cultivars. Three Kentucky bluegrass cultivars were grown in PVC (polyvinyl chloride) tubes in a greenhouse and subjected to three soil water treatments in a growth chamber: 1) full irrigation; 2) drought stress, 21 days without water after full irrigation; and 3) drought recovery, stressed plants were re-watered for an additional 21 d. The present study indicated that drought resulted in a decline in turf quality (TQ), leaf relative water content (RWC), and photochemical efficiency (Fv/Fm) and an increase in electrolyte leakage (EL) for the cultivars. The turf quality, RWC, and Fv/Fm of the three Kentucky bluegrass cultivars increased with re-watering. The allocation of /sup 14/ C increased in the roots of these cultivars during the initial phase of drought stress, where a /sup 14/ C distribution shift from the roots to the stem and leaves appeared with further drought stress. Moreover, there was a significant accumulation of total nonstructural carbohydrates (TNC) in the leaves and stem. The TNC content in the leaves, stem, and roots did not completely return to the control levels following 21 d of re-watering, which was consistent with the recovery of TQ, RWC, Fv/Fm, and EL. In addition, during the re-watering treatment, the reduction in the TNC content may be due to increases in the demand or usage as a result of a rapid recovery in the growth and physiological activities as shown by increased TQ, RWC, and Fv/Fm and decreased EL. Our results suggested that the changes in the carbon allocation model and the accumulation and storage of TNC, as well as the changes in TQ, RWC, Fv/Fm, and EL, for the three cultivars are an adaptive reaction to

Marker-controlled watershed for lymphoma segmentation in sequential CT images

International Nuclear Information System (INIS)

Yan Jiayong; Zhao Binsheng; Wang, Liang; Zelenetz, Andrew; Schwartz, Lawrence H.

2006-01-01

Segmentation of lymphoma containing lymph nodes is a difficult task because of multiple variables associated with the tumor's location, intensity distribution, and contrast to its surrounding tissues. In this paper, we present a reliable and practical marker-controlled watershed algorithm for semi-automated segmentation of lymphoma in sequential CT images. Robust determination of internal and external markers is the key to successful use of the marker-controlled watershed transform in the segmentation of lymphoma and is the focus of this work. The external marker in our algorithm is the circle enclosing the lymphoma in a single slice. The internal marker, however, is determined automatically by combining techniques including Canny edge detection, thresholding, morphological operation, and distance map estimation. To obtain tumor volume, the segmented lymphoma in the current slice needs to be propagated to the adjacent slice to help determine the external and internal markers for delineation of the lymphoma in that slice. The algorithm was applied to 29 lymphomas (size range, 9-53 mm in diameter; mean, 23 mm) in nine patients. A blinded radiologist manually delineated all lymphomas on all slices. The manual result served as the ''gold standard'' for comparison. Several quantitative methods were applied to objectively evaluate the performance of the segmentation algorithm. The algorithm received a mean overlap, overestimation, and underestimation ratios of 83.2%, 13.5%, and 5.5%, respectively. The mean average boundary distance and Hausdorff boundary distance were 0.7 and 3.7 mm. Preliminary results have shown the potential of this computer algorithm to allow reliable segmentation and quantification of lymphomas on sequential CT images

Healthy Lung Vessel Morphology Derived From Thoracic Computed Tomography

Directory of Open Access Journals (Sweden)

Michael Pienn

2018-04-01

Full Text Available Knowledge of the lung vessel morphology in healthy subjects is necessary to improve our understanding about the functional network of the lung and to recognize pathologic deviations beyond the normal inter-subject variation. Established values of normal lung morphology have been derived from necropsy material of only very few subjects. In order to determine morphologic readouts from a large number of healthy subjects, computed tomography pulmonary angiography (CTPA datasets, negative for pulmonary embolism, and other thoracic pathologies, were analyzed using a fully-automatic, in-house developed artery/vein separation algorithm. The number, volume, and tortuosity of the vessels in a diameter range between 2 and 10 mm were determined. Visual inspection of all datasets was used to exclude subjects with poor image quality or inadequate artery/vein separation from the analysis. Validation of the algorithm was performed manually by a radiologist on randomly selected subjects. In 123 subjects (men/women: 55/68, aged 59 ± 17 years, the median overlap between visual inspection and fully-automatic segmentation was 94.6% (69.2–99.9%. The median number of vessel segments in the ranges of 8–10, 6–8, 4–6, and 2–4 mm diameter was 9, 34, 134, and 797, respectively. Number of vessel segments divided by the subject's lung volume was 206 vessels/L with arteries and veins contributing almost equally. In women this vessel density was about 15% higher than in men. Median arterial and venous volumes were 1.52 and 1.54% of the lung volume, respectively. Tortuosity was best described with the sum-of-angles metric and was 142.1 rad/m (138.3–144.5 rad/m. In conclusion, our fully-automatic artery/vein separation algorithm provided reliable measures of pulmonary arteries and veins with respect to age and gender. There was a large variation between subjects in all readouts. No relevant dependence on age, gender, or vessel type was observed. These data may

Semi-automated segmentation of a glioblastoma multiforme on brain MR images for radiotherapy planning.

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Hori, Daisuke; Katsuragawa, Shigehiko; Murakami, Ryuuji; Hirai, Toshinori

2010-04-20

We propose a computerized method for semi-automated segmentation of the gross tumor volume (GTV) of a glioblastoma multiforme (GBM) on brain MR images for radiotherapy planning (RTP). Three-dimensional (3D) MR images of 28 cases with a GBM were used in this study. First, a sphere volume of interest (VOI) including the GBM was selected by clicking a part of the GBM region in the 3D image. Then, the sphere VOI was transformed to a two-dimensional (2D) image by use of a spiral-scanning technique. We employed active contour models (ACM) to delineate an optimal outline of the GBM in the transformed 2D image. After inverse transform of the optimal outline to the 3D space, a morphological filter was applied to smooth the shape of the 3D segmented region. For evaluation of our computerized method, we compared the computer output with manually segmented regions, which were obtained by a therapeutic radiologist using a manual tracking method. In evaluating our segmentation method, we employed the Jaccard similarity coefficient (JSC) and the true segmentation coefficient (TSC) in volumes between the computer output and the manually segmented region. The mean and standard deviation of JSC and TSC were 74.2+/-9.8% and 84.1+/-7.1%, respectively. Our segmentation method provided a relatively accurate outline for GBM and would be useful for radiotherapy planning.

Semiautomated Segmentation and Measurement of Cytoplasmic Vacuoles in a Neutrophil With General-Purpose Image Analysis Software.

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Mizukami, Maki; Yamada, Misaki; Fukui, Sayaka; Fujimoto, Nao; Yoshida, Shigeru; Kaga, Sanae; Obata, Keiko; Jin, Shigeki; Miwa, Keiko; Masauzi, Nobuo

2016-11-01

Morphological observation of blood or marrow film is still described nonquantitatively. We developed a semiautomatic method for segmenting vacuoles from the cytoplasm using Photoshop (PS) and Image-J (IJ), called PS-IJ, and measured the relative entire cell area (rECA) and relative areas of vacuoles (rAV) in the cytoplasm of neutrophil with PS-IJ. Whole-blood samples were stored at 4°C with ethylenediaminetetraacetate and in two different preserving manners (P1 and P2). Color-tone intensity levels of neutrophil images were semiautomatically compensated using PS, and then vacuole portions were automatically segmented by IJ. The rAV and rECA were measured by counting pixels by IJ. For evaluating the accuracy in segmentations of vacuoles with PS-IJ, the rAV/rECA ratios calculated with results from PS-IJ were compared with those calculated with human eye and IJ (HE-IJ). The rECA and rAV/ in P1 significantly (P < 0.05, P < 0.05) were enlarged and increased, but did not significantly (P = 0.46, P = 0.21) change in P2. The rAV/rECA ratios by PS-IJ were significantly correlated (r = 0.90, P < 0.01) with those by HE-IJ. PS-IJ method can successfully segment vacuoles and measure the rAV and rECA, becoming a useful tool for quantitative description of morphological observation of blood and marrow film. © 2016 Wiley Periodicals, Inc.

Breast tumor segmentation in high resolution x-ray phase contrast analyzer based computed tomography.

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Brun, E; Grandl, S; Sztrókay-Gaul, A; Barbone, G; Mittone, A; Gasilov, S; Bravin, A; Coan, P

2014-11-01

Phase contrast computed tomography has emerged as an imaging method, which is able to outperform present day clinical mammography in breast tumor visualization while maintaining an equivalent average dose. To this day, no segmentation technique takes into account the specificity of the phase contrast signal. In this study, the authors propose a new mathematical framework for human-guided breast tumor segmentation. This method has been applied to high-resolution images of excised human organs, each of several gigabytes. The authors present a segmentation procedure based on the viscous watershed transform and demonstrate the efficacy of this method on analyzer based phase contrast images. The segmentation of tumors inside two full human breasts is then shown as an example of this procedure's possible applications. A correct and precise identification of the tumor boundaries was obtained and confirmed by manual contouring performed independently by four experienced radiologists. The authors demonstrate that applying the watershed viscous transform allows them to perform the segmentation of tumors in high-resolution x-ray analyzer based phase contrast breast computed tomography images. Combining the additional information provided by the segmentation procedure with the already high definition of morphological details and tissue boundaries offered by phase contrast imaging techniques, will represent a valuable multistep procedure to be used in future medical diagnostic applications.

Segmentation of lung fields using Chan-Vese active contour model in chest radiographs

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Sohn, Kiwon

2011-03-01

A CAD tool for chest radiographs consists of several procedures and the very first step is segmentation of lung fields. We develop a novel methodology for segmentation of lung fields in chest radiographs that can satisfy the following two requirements. First, we aim to develop a segmentation method that does not need a training stage with manual estimation of anatomical features in a large training dataset of images. Secondly, for the ease of implementation, it is desirable to apply a well established model that is widely used for various image-partitioning practices. The Chan-Vese active contour model, which is based on Mumford-Shah functional in the level set framework, is applied for segmentation of lung fields. With the use of this model, segmentation of lung fields can be carried out without detailed prior knowledge on the radiographic anatomy of the chest, yet in some chest radiographs, the trachea regions are unfavorably segmented out in addition to the lung field contours. To eliminate artifacts from the trachea, we locate the upper end of the trachea, find a vertical center line of the trachea and delineate it, and then brighten the trachea region to make it less distinctive. The segmentation process is finalized by subsequent morphological operations. We randomly select 30 images from the Japanese Society of Radiological Technology image database to test the proposed methodology and the results are shown. We hope our segmentation technique can help to promote of CAD tools, especially for emerging chest radiographic imaging techniques such as dual energy radiography and chest tomosynthesis.

MITK-based segmentation of co-registered MRI for subject-related regional anesthesia simulation

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Teich, Christian; Liao, Wei; Ullrich, Sebastian; Kuhlen, Torsten; Ntouba, Alexandre; Rossaint, Rolf; Ullisch, Marcus; Deserno, Thomas M.

2008-03-01

With a steadily increasing indication, regional anesthesia is still trained directly on the patient. To develop a virtual reality (VR)-based simulation, a patient model is needed containing several tissues, which have to be extracted from individual magnet resonance imaging (MRI) volume datasets. Due to the given modality and the different characteristics of the single tissues, an adequate segmentation can only be achieved by using a combination of segmentation algorithms. In this paper, we present a framework for creating an individual model from MRI scans of the patient. Our work splits in two parts. At first, an easy-to-use and extensible tool for handling the segmentation task on arbitrary datasets is provided. The key idea is to let the user create a segmentation for the given subject by running different processing steps in a purposive order and store them in a segmentation script for reuse on new datasets. For data handling and visualization, we utilize the Medical Imaging Interaction Toolkit (MITK), which is based on the Visualization Toolkit (VTK) and the Insight Segmentation and Registration Toolkit (ITK). The second part is to find suitable segmentation algorithms and respectively parameters for differentiating the tissues required by the RA simulation. For this purpose, a fuzzy c-means clustering algorithm combined with mathematical morphology operators and a geometric active contour-based approach is chosen. The segmentation process itself aims at operating with minimal user interaction, and the gained model fits the requirements of the simulation. First results are shown for both, male and female MRI of the pelvis.

Morphological analysis of enlarged ventricle on CT image, using multivariate analysis

International Nuclear Information System (INIS)

Iwasaki, Satoru; Kichikawa, Kimihiko; Otsuji, Hideyuki; Fukusumi, Akio; Kobayashi, Yasuo.

1983-01-01

Multivariate analysis of enlarged cerebral ventricle on CT was undertaken to study the characteristics of ventricular morphology. Several ventricular segments of enlarged ventricle, defined on the basis of the study of normal group, were linearly measured on CT image. Then the discriminant analysis with the increase and decrease of variable was applied. The following are the results obtained. The error ratio of discrimination between pressure hydrocephalus and cerebral atrophy was 8.4 %, and between obstructive hydrocephalus and communicating hydrocephalus was 11.3 %. Ventricular segments were divided into three groups according to their character of enlargement: (1) the temporal horn and trigone are large in pressure hydrocephalus; (2) the hypothalamic segment of the third ventricle and the body of lateral ventricle are larger in obstructive hydrocephalus than in communicating hydrocephalus; (3) the anterior horn, cellae mediae at the level of the head of caudate nuclei and thalamic segment of the third ventricle are relatively large in cerebral atrophy and communicating hydrocephalus. The hypothalamic segment of the third ventricle assumes a round or oval shape in pressure hydrocephalus but a rectangular or teardrop shape in cerebral atrophy. These findings are contributory to pathological evaluation of ventricular enlargement. (author)

White blood cell counting analysis of blood smear images using various segmentation strategies

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Safuan, Syadia Nabilah Mohd; Tomari, Razali; Zakaria, Wan Nurshazwani Wan; Othman, Nurmiza

2017-09-01

In white blood cell (WBC) diagnosis, the most crucial measurement parameter is the WBC counting. Such information is widely used to evaluate the effectiveness of cancer therapy and to diagnose several hidden infection within human body. The current practice of manual WBC counting is laborious and a very subjective assessment which leads to the invention of computer aided system (CAS) with rigorous image processing solution. In the CAS counting work, segmentation is the crucial step to ensure the accuracy of the counted cell. The optimal segmentation strategy that can work under various blood smeared image acquisition conditions is remain a great challenge. In this paper, a comparison between different segmentation methods based on color space analysis to get the best counting outcome is elaborated. Initially, color space correction is applied to the original blood smeared image to standardize the image color intensity level. Next, white blood cell segmentation is performed by using combination of several color analysis subtraction which are RGB, CMYK and HSV, and Otsu thresholding. Noises and unwanted regions that present after the segmentation process is eliminated by applying a combination of morphological and Connected Component Labelling (CCL) filter. Eventually, Circle Hough Transform (CHT) method is applied to the segmented image to estimate the number of WBC including the one under the clump region. From the experiment, it is found that G-S yields the best performance.

Alligators and Crocodiles Have High Paracellular Absorption of Nutrients, But Differ in Digestive Morphology and Physiology.

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Tracy, Christopher R; McWhorter, Todd J; Gienger, C M; Starck, J Matthias; Medley, Peter; Manolis, S Charlie; Webb, Grahame J W; Christian, Keith A

2015-12-01

Much of what is known about crocodilian nutrition and growth has come from animals propagated in captivity, but captive animals from the families Crocodilidae and Alligatoridae respond differently to similar diets. Since there are few comparative studies of crocodilian digestive physiology to help explain these differences, we investigated young Alligator mississippiensis and Crocodylus porosus in terms of (1) gross and microscopic morphology of the intestine, (2) activity of the membrane-bound digestive enzymes aminopeptidase-N, maltase, and sucrase, and (3) nutrient absorption by carrier-mediated and paracellular pathways. We also measured gut morphology of animals over a larger range of body sizes. The two species showed different allometry of length and mass of the gut, with A. mississippiensis having a steeper increase in intestinal mass with body size, and C. porosus having a steeper increase in intestinal length with body size. Both species showed similar patterns of magnification of the intestinal surface area, with decreasing magnification from the proximal to distal ends of the intestine. Although A. mississippiensis had significantly greater surface-area magnification overall, a compensating significant difference in gut length between species meant that total surface area of the intestine was not significantly different from that of C. porosus. The species differed in enzyme activities, with A. mississippiensis having significantly greater ability to digest carbohydrates relative to protein than did C. porosus. These differences in enzyme activity may help explain the differences in performance between the crocodilian families when on artificial diets. Both A. mississippiensis and C. porosus showed high absorption of 3-O methyl d-glucose (absorbed via both carrier-mediated and paracellular transport), as expected. Both species also showed surprisingly high levels of l-glucose-uptake (absorbed paracellularly), with fractional absorptions as high as those

An optimized process flow for rapid segmentation of cortical bones of the craniofacial skeleton using the level-set method.

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Szwedowski, T D; Fialkov, J; Pakdel, A; Whyne, C M

2013-01-01

Accurate representation of skeletal structures is essential for quantifying structural integrity, for developing accurate models, for improving patient-specific implant design and in image-guided surgery applications. The complex morphology of thin cortical structures of the craniofacial skeleton (CFS) represents a significant challenge with respect to accurate bony segmentation. This technical study presents optimized processing steps to segment the three-dimensional (3D) geometry of thin cortical bone structures from CT images. In this procedure, anoisotropic filtering and a connected components scheme were utilized to isolate and enhance the internal boundaries between craniofacial cortical and trabecular bone. Subsequently, the shell-like nature of cortical bone was exploited using boundary-tracking level-set methods with optimized parameters determined from large-scale sensitivity analysis. The process was applied to clinical CT images acquired from two cadaveric CFSs. The accuracy of the automated segmentations was determined based on their volumetric concurrencies with visually optimized manual segmentations, without statistical appraisal. The full CFSs demonstrated volumetric concurrencies of 0.904 and 0.719; accuracy increased to concurrencies of 0.936 and 0.846 when considering only the maxillary region. The highly automated approach presented here is able to segment the cortical shell and trabecular boundaries of the CFS in clinical CT images. The results indicate that initial scan resolution and cortical-trabecular bone contrast may impact performance. Future application of these steps to larger data sets will enable the determination of the method's sensitivity to differences in image quality and CFS morphology.

Bike and run pacing on downhill segments predict Ironman triathlon relative success.

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Johnson, Evan C; Pryor, J Luke; Casa, Douglas J; Belval, Luke N; Vance, James S; DeMartini, Julie K; Maresh, Carl M; Armstrong, Lawrence E

2015-01-01

Determine if performance and physiological based pacing characteristics over the varied terrain of a triathlon predicted relative bike, run, and/or overall success. Poor self-regulation of intensity during long distance (Full Iron) triathlon can manifest in adverse discontinuities in performance. Observational study of a random sample of Ironman World Championship athletes. High performing and low performing groups were established upon race completion. Participants wore global positioning system and heart rate enabled watches during the race. Percentage difference from pre-race disclosed goal pace (%off) and mean HR were calculated for nine segments of the bike and 11 segments of the run. Normalized graded running pace (accounting for changes in elevation) was computed via analysis software. Step-wise regression analyses identified segments predictive of relative success and HP and LP were compared at these segments to confirm importance. %Off of goal velocity during two downhill segments of the bike (HP: -6.8±3.2%, -14.2±2.6% versus LP: -1.2±4.2%, -5.1±11.5%; p<0.020) and %off from NGP during one downhill segment of the run (HP: 4.8±5.2% versus LP: 33.3±38.7%; p=0.033) significantly predicted relative performance. Also, HP displayed more consistency in mean HR (141±12 to 138±11 bpm) compared to LP (139±17 to 131±16 bpm; p=0.019) over the climb and descent from the turn-around point during the bike component. Athletes who maintained faster relative speeds on downhill segments, and who had smaller changes in HR between consecutive up and downhill segments were more successful relative to their goal times. Copyright © 2013 Sports Medicine Australia. Published by Elsevier Ltd. All rights reserved.

Human liver segments: role of cryptic liver lobes and vascular physiology in the development of liver veins and left-right asymmetry

NARCIS (Netherlands)

Hikspoors, Jill P. J. M.; Peeters, Mathijs M. J. P.; Kruepunga, Nutmethee; Mekonen, Hayelom K.; Mommen, Greet M. C.; Köhler, S. Eleonore; Lamers, Wouter H.

2017-01-01

Couinaud based his well-known subdivision of the liver into (surgical) segments on the branching order of portal veins and the location of hepatic veins. However, both segment boundaries and number remain controversial due to an incomplete understanding of the role of liver lobes and vascular

Bioinformatic and Biometric Methods in Plant Morphology

Directory of Open Access Journals (Sweden)

Surangi W. Punyasena

2014-08-01

Full Text Available Recent advances in microscopy, imaging, and data analyses have permitted both the greater application of quantitative methods and the collection of large data sets that can be used to investigate plant morphology. This special issue, the first for Applications in Plant Sciences, presents a collection of papers highlighting recent methods in the quantitative study of plant form. These emerging biometric and bioinformatic approaches to plant sciences are critical for better understanding how morphology relates to ecology, physiology, genotype, and evolutionary and phylogenetic history. From microscopic pollen grains and charcoal particles, to macroscopic leaves and whole root systems, the methods presented include automated classification and identification, geometric morphometrics, and skeleton networks, as well as tests of the limits of human assessment. All demonstrate a clear need for these computational and morphometric approaches in order to increase the consistency, objectivity, and throughput of plant morphological studies.

SU-E-J-168: Automated Pancreas Segmentation Based On Dynamic MRI

International Nuclear Information System (INIS)

Gou, S; Rapacchi, S; Hu, P; Sheng, K

2014-01-01

Purpose: MRI guided radiotherapy is particularly attractive for abdominal targets with low CT contrast. To fully utilize this modality for pancreas tracking, automated segmentation tools are needed. A hybrid gradient, region growth and shape constraint (hGReS) method to segment 2D upper abdominal dynamic MRI is developed for this purpose. Methods: 2D coronal dynamic MR images of 2 healthy volunteers were acquired with a frame rate of 5 f/second. The regions of interest (ROIs) included the liver, pancreas and stomach. The first frame was used as the source where the centers of the ROIs were annotated. These center locations were propagated to the next dynamic MRI frame. 4-neighborhood region transfer growth was performed from these initial seeds for rough segmentation. To improve the results, gradient, edge and shape constraints were applied to the ROIs before final refinement using morphological operations. Results from hGReS and 3 other automated segmentation methods using edge detection, region growth and level set were compared to manual contouring. Results: For the first patient, hGReS resulted in the organ segmentation accuracy as measure by the Dices index (0.77) for the pancreas. The accuracy was slightly superior to the level set method (0.72), and both are significantly more accurate than the edge detection (0.53) and region growth methods (0.42). For the second healthy volunteer, hGReS reliably segmented the pancreatic region, achieving a Dices index of 0.82, 0.92 and 0.93 for the pancreas, stomach and liver, respectively, comparing to manual segmentation. Motion trajectories derived from the hGReS, level set and manual segmentation methods showed high correlation to respiratory motion calculated using a lung blood vessel as the reference while the other two methods showed substantial motion tracking errors. hGReS was 10 times faster than level set. Conclusion: We have shown the feasibility of automated segmentation of the pancreas anatomy based on

The mechanical properties and morphology of a graphite oxide nanoplatelet/polyurethane composite

International Nuclear Information System (INIS)

Cai Dongyu; Yusoh, Kamal; Song Mo

2009-01-01

Significant reinforcement of polyurethane (PU) using graphite oxide nanoplatelets (GONPs) is reported. Morphologic study shows that, due to the formation of chemical bonding, there is a strong interaction between the GONPs and the hard segment of the PU, which allows effective load transfer. The GONPs can prevent the formation of crystalline hard segments due to their two-dimensional structure. With the incorporation of 4.4 wt% of GONPs, the Young's modulus and hardness of the PU are significantly increased by ∼900% and ∼327%, respectively. The resultant high resistance to scratching indicates promise for application of these composite materials in surface coating.

Brookhaven segment interconnect

International Nuclear Information System (INIS)

Morse, W.M.; Benenson, G.; Leipuner, L.B.

1983-01-01

We have performed a high energy physics experiment using a multisegment Brookhaven FASTBUS system. The system was composed of three crate segments and two cable segments. We discuss the segment interconnect module which permits communication between the various segments

Active Segmentation.

Science.gov (United States)

Mishra, Ajay; Aloimonos, Yiannis

2009-01-01

The human visual system observes and understands a scene/image by making a series of fixations. Every fixation point lies inside a particular region of arbitrary shape and size in the scene which can either be an object or just a part of it. We define as a basic segmentation problem the task of segmenting that region containing the fixation point. Segmenting the region containing the fixation is equivalent to finding the enclosing contour- a connected set of boundary edge fragments in the edge map of the scene - around the fixation. This enclosing contour should be a depth boundary.We present here a novel algorithm that finds this bounding contour and achieves the segmentation of one object, given the fixation. The proposed segmentation framework combines monocular cues (color/intensity/texture) with stereo and/or motion, in a cue independent manner. The semantic robots of the immediate future will be able to use this algorithm to automatically find objects in any environment. The capability of automatically segmenting objects in their visual field can bring the visual processing to the next level. Our approach is different from current approaches. While existing work attempts to segment the whole scene at once into many areas, we segment only one image region, specifically the one containing the fixation point. Experiments with real imagery collected by our active robot and from the known databases 1 demonstrate the promise of the approach.

The disadvantages of being a hybrid during drought: A combined analysis of plant morphology, physiology and leaf proteome in maize

Science.gov (United States)

Benešová, Monika; Fischer, Lukáš; Haisel, Daniel; Hnilička, František; Hniličková, Helena; Jedelský, Petr L.; Kočová, Marie; Rothová, Olga; Tůmová, Lenka; Wilhelmová, Naďa

2017-01-01

A comparative analysis of various parameters that characterize plant morphology, growth, water status, photosynthesis, cell damage, and antioxidative and osmoprotective systems together with an iTRAQ analysis of the leaf proteome was performed in two inbred lines of maize (Zea mays L.) differing in drought susceptibility and their reciprocal F1 hybrids. The aim of this study was to dissect the parent-hybrid relationships to better understand the mechanisms of the heterotic effect and its potential association with the stress response. The results clearly showed that the four examined genotypes have completely different strategies for coping with limited water availability and that the inherent properties of the F1 hybrids, i.e. positive heterosis in morphological parameters (or, more generally, a larger plant body) becomes a distinct disadvantage when the water supply is limited. However, although a greater loss of photosynthetic efficiency was an inherent disadvantage, the precise causes and consequences of the original predisposition towards faster growth and biomass accumulation differed even between reciprocal hybrids. Both maternal and paternal parents could be imitated by their progeny in some aspects of the drought response (e.g., the absence of general protein down-regulation, changes in the levels of some carbon fixation or other photosynthetic proteins). Nevertheless, other features (e.g., dehydrin or light-harvesting protein contents, reduced chloroplast proteosynthesis) were quite unique to a particular hybrid. Our study also confirmed that the strategy for leaving stomata open even when the water supply is limited (coupled to a smaller body size and some other physiological properties), observed in one of our inbred lines, is associated with drought-resistance not only during mild drought (as we showed previously) but also during more severe drought conditions. PMID:28419152

Integration of functional and morphological MR data for preoperative 3D visualisation of tumours. Cervical carcinoma

International Nuclear Information System (INIS)

Evers, H.; Meinzer, H.P.; Hawighorst, H.; Kaick, G. van; Knapstein, P.G.

1998-01-01

Purpose: The goal of this exemplary study was to integrate morphological and functional MRI to establish computer-based, preoperative therapy planning for tumors, instancing cervical carcinoma. Results: Segmentation of organs and vessels as well as tissue differentiation yielded a morphological visualisation of anatomical structures that were overlaid with pharmacokinetic parameters derived from dynamic MRI, subsequently. Thereby, three-dimensional, arbitrary views on the functional data were displayed. Conclusions: Image analysis and visualisation of the acquired MR data establishes both a morphologic and functional evaluation of suspect lesions and adjacent organs. By integrating morphologic and functional MRI additional information can be gathered that possibly impinge on preoperative planning. (orig./AJ) [de

Automatic nuclei segmentation in H&E stained breast cancer histopathology images.

Directory of Open Access Journals (Sweden)

Mitko Veta

Full Text Available The introduction of fast digital slide scanners that provide whole slide images has led to a revival of interest in image analysis applications in pathology. Segmentation of cells and nuclei is an important first step towards automatic analysis of digitized microscopy images. We therefore developed an automated nuclei segmentation method that works with hematoxylin and eosin (H&E stained breast cancer histopathology images, which represent regions of whole digital slides. The procedure can be divided into four main steps: 1 pre-processing with color unmixing and morphological operators, 2 marker-controlled watershed segmentation at multiple scales and with different markers, 3 post-processing for rejection of false regions and 4 merging of the results from multiple scales. The procedure was developed on a set of 21 breast cancer cases (subset A and tested on a separate validation set of 18 cases (subset B. The evaluation was done in terms of both detection accuracy (sensitivity and positive predictive value and segmentation accuracy (Dice coefficient. The mean estimated sensitivity for subset A was 0.875 (±0.092 and for subset B 0.853 (±0.077. The mean estimated positive predictive value was 0.904 (±0.075 and 0.886 (±0.069 for subsets A and B, respectively. For both subsets, the distribution of the Dice coefficients had a high peak around 0.9, with the vast majority of segmentations having values larger than 0.8.

Automatic nuclei segmentation in H&E stained breast cancer histopathology images.

Science.gov (United States)

Veta, Mitko; van Diest, Paul J; Kornegoor, Robert; Huisman, André; Viergever, Max A; Pluim, Josien P W

2013-01-01

The introduction of fast digital slide scanners that provide whole slide images has led to a revival of interest in image analysis applications in pathology. Segmentation of cells and nuclei is an important first step towards automatic analysis of digitized microscopy images. We therefore developed an automated nuclei segmentation method that works with hematoxylin and eosin (H&E) stained breast cancer histopathology images, which represent regions of whole digital slides. The procedure can be divided into four main steps: 1) pre-processing with color unmixing and morphological operators, 2) marker-controlled watershed segmentation at multiple scales and with different markers, 3) post-processing for rejection of false regions and 4) merging of the results from multiple scales. The procedure was developed on a set of 21 breast cancer cases (subset A) and tested on a separate validation set of 18 cases (subset B). The evaluation was done in terms of both detection accuracy (sensitivity and positive predictive value) and segmentation accuracy (Dice coefficient). The mean estimated sensitivity for subset A was 0.875 (±0.092) and for subset B 0.853 (±0.077). The mean estimated positive predictive value was 0.904 (±0.075) and 0.886 (±0.069) for subsets A and B, respectively. For both subsets, the distribution of the Dice coefficients had a high peak around 0.9, with the vast majority of segmentations having values larger than 0.8.

Application of morphological bit planes in retinal blood vessel extraction.

Science.gov (United States)

Fraz, M M; Basit, A; Barman, S A

2013-04-01

The appearance of the retinal blood vessels is an important diagnostic indicator of various clinical disorders of the eye and the body. Retinal blood vessels have been shown to provide evidence in terms of change in diameter, branching angles, or tortuosity, as a result of ophthalmic disease. This paper reports the development for an automated method for segmentation of blood vessels in retinal images. A unique combination of methods for retinal blood vessel skeleton detection and multidirectional morphological bit plane slicing is presented to extract the blood vessels from the color retinal images. The skeleton of main vessels is extracted by the application of directional differential operators and then evaluation of combination of derivative signs and average derivative values. Mathematical morphology has been materialized as a proficient technique for quantifying the retinal vasculature in ocular fundus images. A multidirectional top-hat operator with rotating structuring elements is used to emphasize the vessels in a particular direction, and information is extracted using bit plane slicing. An iterative region growing method is applied to integrate the main skeleton and the images resulting from bit plane slicing of vessel direction-dependent morphological filters. The approach is tested on two publicly available databases DRIVE and STARE. Average accuracy achieved by the proposed method is 0.9423 for both the databases with significant values of sensitivity and specificity also; the algorithm outperforms the second human observer in terms of precision of segmented vessel tree.

PHYSIOLOGIC PATTERNS OF SLEEP ON EEG, MASKING OF EPILEPTIFORM ACTIVITY

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L. Yu. Glukhova

2013-01-01

Full Text Available Physiologic patterns of sleep on EEG can sometimes be similar to epileptiform activity and even to the EEG pattern of epileptic seizures, but they have no connection to epilepsy and their incorrect interpretation may lead to overdiagnosis of epilepsy. These sleep patterns include vertex transients, K-complexes, hypnagogic hypersynchrony, 14 and 6 Hz positive bursts, wicket-potentials, etc. The main distinctive features of acute physiological phenomena of sleep unlike epileptiform activity are stereotyped, monomorphic morphology of waves, which frequently has rhythmic, arcuate pattern, often with change of lateralization, mainly dominated in the first stages of sleep (N1-N2, with their reduction in the deeper stages and transition to delta sleep (N3. The correct interpretation of physiological sharp-wave phenomena of sleep on EEG requires considerable training and experience of the physician. Our review includes a variety of physiological sleep patterns, which can mimic epileptiform activity on EEG, their criteria of diagnostic with demonstration of own illustrations of EEG.

Properties of deproteinized bone for reparation of big segmental defect in long bone

Institute of Scientific and Technical Information of China (English)

JIAN Yue-kui; TIAN Xiao-bin; LI Bo; QIU Bing; ZHOU Zuo-jia; YANG Zheng; LI Qi-hong

2008-01-01

Objective: To explore suitable scaffold material for big segmental long bone defect by studying the properties of the prepared deproteinized bone. Methods: Cancellated bone were made as 30 mm ×3 mm ×3 mm bone blocks from inferior extremity of pig femur along bone trabecula. The deproteinized bone was prepared with an improved method. Their morphological features, components, cell compatibility, mechanical and immunological properties were investigated respectively. Results: Deproteinized bone maintained natural re ticular pore system. The main organic material is collagen Ⅰand inorganic composition is hydroxyapatite. It has good mechanical properties, cell adhesion rate and histocompatibility. Conlusion: This deproteinized bone can be applicable as scaffold for reparation of big segmental defect in long bone.

Volumetric quantification of bone-implant contact using micro-computed tomography analysis based on region-based segmentation

Energy Technology Data Exchange (ETDEWEB)

Kang, Sung Won; Lee, Woo Jin; Choi, Soon Chul; Lee, Sam Sun; Heo, Min Suk; Huh, Kyung Hoe; Kim, Tae Il; Yi, Won Ji [Dental Research Institute, School of Dentistry, Seoul National University, Seoul (Korea, Republic of)

2015-03-15

We have developed a new method of segmenting the areas of absorbable implants and bone using region-based segmentation of micro-computed tomography (micro-CT) images, which allowed us to quantify volumetric bone-implant contact (VBIC) and volumetric absorption (VA). The simple threshold technique generally used in micro-CT analysis cannot be used to segment the areas of absorbable implants and bone. Instead, a region-based segmentation method, a region-labeling method, and subsequent morphological operations were successively applied to micro-CT images. The three-dimensional VBIC and VA of the absorbable implant were then calculated over the entire volume of the implant. Two-dimensional (2D) bone-implant contact (BIC) and bone area (BA) were also measured based on the conventional histomorphometric method. VA and VBIC increased significantly with as the healing period increased (p<0.05). VBIC values were significantly correlated with VA values (p<0.05) and with 2D BIC values (p<0.05). It is possible to quantify VBIC and VA for absorbable implants using micro-CT analysis using a region-based segmentation method.

Volumetric quantification of bone-implant contact using micro-computed tomography analysis based on region-based segmentation

International Nuclear Information System (INIS)

Kang, Sung Won; Lee, Woo Jin; Choi, Soon Chul; Lee, Sam Sun; Heo, Min Suk; Huh, Kyung Hoe; Kim, Tae Il; Yi, Won Ji

2015-01-01

We have developed a new method of segmenting the areas of absorbable implants and bone using region-based segmentation of micro-computed tomography (micro-CT) images, which allowed us to quantify volumetric bone-implant contact (VBIC) and volumetric absorption (VA). The simple threshold technique generally used in micro-CT analysis cannot be used to segment the areas of absorbable implants and bone. Instead, a region-based segmentation method, a region-labeling method, and subsequent morphological operations were successively applied to micro-CT images. The three-dimensional VBIC and VA of the absorbable implant were then calculated over the entire volume of the implant. Two-dimensional (2D) bone-implant contact (BIC) and bone area (BA) were also measured based on the conventional histomorphometric method. VA and VBIC increased significantly with as the healing period increased (p<0.05). VBIC values were significantly correlated with VA values (p<0.05) and with 2D BIC values (p<0.05). It is possible to quantify VBIC and VA for absorbable implants using micro-CT analysis using a region-based segmentation method.

GeoSegmenter: A statistically learned Chinese word segmenter for the geoscience domain

Science.gov (United States)

Huang, Lan; Du, Youfu; Chen, Gongyang

2015-03-01

Unlike English, the Chinese language has no space between words. Segmenting texts into words, known as the Chinese word segmentation (CWS) problem, thus becomes a fundamental issue for processing Chinese documents and the first step in many text mining applications, including information retrieval, machine translation and knowledge acquisition. However, for the geoscience subject domain, the CWS problem remains unsolved. Although a generic segmenter can be applied to process geoscience documents, they lack the domain specific knowledge and consequently their segmentation accuracy drops dramatically. This motivated us to develop a segmenter specifically for the geoscience subject domain: the GeoSegmenter. We first proposed a generic two-step framework for domain specific CWS. Following this framework, we built GeoSegmenter using conditional random fields, a principled statistical framework for sequence learning. Specifically, GeoSegmenter first identifies general terms by using a generic baseline segmenter. Then it recognises geoscience terms by learning and applying a model that can transform the initial segmentation into the goal segmentation. Empirical experimental results on geoscience documents and benchmark datasets showed that GeoSegmenter could effectively recognise both geoscience terms and general terms.

Impact of body mass index on adjacent segment disease after lumbar fusion for degenerative spine disease.

Science.gov (United States)

Ou, Chien-Yu; Lee, Tao-Chen; Lee, Tsung-Han; Huang, Yu-Hua

2015-04-01

Adjacent segment disease is an important complication after fusion of degenerative lumbar spines. However, the role of body mass index (BMI) in adjacent segment disease has been addressed less. To examine the relationship between BMI and adjacent segment disease after lumbar fusion for degenerative spine diseases. For this retrospective study, we enrolled 190 patients undergoing lumbar fusion surgery for degeneration. BMI at admission was documented. Adjacent segment disease was defined by integration of the clinical presentations and radiographic criteria based on the morphology of the dural sac on magnetic resonance images. Adjacent segment disease was identified in 13 of the 190 patients, accounting for 6.8%. The interval between surgery and diagnosis as adjacent segment disease ranged from 21 to 66 months. Five of the 13 patients required subsequent surgical intervention for clinically relevant adjacent segment disease. In the logistic regression model, BMI was a risk factor for adjacent segment disease after lumbar fusion for degenerative spine diseases (odds ratio, 1.68; 95% confidence interval, 1.27-2.21; P disease rate by 67.6%. The patients were subdivided into 2 groups based on BMI, and up to 11.9% of patients with BMI ≥ 25 kg/m were diagnosed as having adjacent segment disease at the last follow-up. BMI is a risk factor for adjacent segment disease in patients undergoing lumbar fusion for degenerative spine diseases. Because BMI is clinically objective and modifiable, controlling body weight before or after surgery may provide opportunities to reduce the rate of adjacent segment disease and to improve the outcome of fusion surgery.

The effect of particle size on the morphology and thermodynamics of diblock copolymer/tethered-particle membranes

International Nuclear Information System (INIS)

Zhang, Bo; Edwards, Brian J.

2015-01-01

A combination of self-consistent field theory and density functional theory was used to examine the effect of particle size on the stable, 3-dimensional equilibrium morphologies formed by diblock copolymers with a tethered nanoparticle attached either between the two blocks or at the end of one of the blocks. Particle size was varied between one and four tenths of the radius of gyration of the diblock polymer chain for neutral particles as well as those either favoring or disfavoring segments of the copolymer blocks. Phase diagrams were constructed and analyzed in terms of thermodynamic diagrams to understand the physics associated with the molecular-level self-assembly processes. Typical morphologies were observed, such as lamellar, spheroidal, cylindrical, gyroidal, and perforated lamellar, with the primary concentration region of the tethered particles being influenced heavily by particle size and tethering location, strength of the particle-segment energetic interactions, chain length, and copolymer radius of gyration. The effect of the simulation box size on the observed morphology and system thermodynamics was also investigated, indicating possible effects of confinement upon the system self-assembly processes

The effect of particle size on the morphology and thermodynamics of diblock copolymer/tethered-particle membranes.

Science.gov (United States)

Zhang, Bo; Edwards, Brian J

2015-06-07

A combination of self-consistent field theory and density functional theory was used to examine the effect of particle size on the stable, 3-dimensional equilibrium morphologies formed by diblock copolymers with a tethered nanoparticle attached either between the two blocks or at the end of one of the blocks. Particle size was varied between one and four tenths of the radius of gyration of the diblock polymer chain for neutral particles as well as those either favoring or disfavoring segments of the copolymer blocks. Phase diagrams were constructed and analyzed in terms of thermodynamic diagrams to understand the physics associated with the molecular-level self-assembly processes. Typical morphologies were observed, such as lamellar, spheroidal, cylindrical, gyroidal, and perforated lamellar, with the primary concentration region of the tethered particles being influenced heavily by particle size and tethering location, strength of the particle-segment energetic interactions, chain length, and copolymer radius of gyration. The effect of the simulation box size on the observed morphology and system thermodynamics was also investigated, indicating possible effects of confinement upon the system self-assembly processes.

Single-segment and double-segment INTACS for post-LASIK ectasia.

Directory of Open Access Journals (Sweden)

Hassan Hashemi

2014-09-01

Full Text Available The objective of the present study was to compare single segment and double segment INTACS rings in the treatment of post-LASIK ectasia. In this interventional study, 26 eyes with post-LASIK ectasia were assessed. Ectasia was defined as progressive myopia regardless of astigmatism, along with topographic evidence of inferior steepening of the cornea after LASIK. We excluded those with a history of intraocular surgery, certain eye conditions, and immune disorders, as well as monocular, pregnant and lactating patients. A total of 11 eyes had double ring and 15 eyes had single ring implantation. Visual and refractive outcomes were compared with preoperative values based on the number of implanted INTACS rings. Pre and postoperative spherical equivalent were -3.92 and -2.29 diopter (P=0.007. The spherical equivalent decreased by 1 ± 3.2 diopter in the single-segment group and 2.56 ± 1.58 diopter in the double-segment group (P=0.165. Mean preoperative astigmatism was 2.38 ± 1.93 diopter which decreased to 2.14 ± 1.1 diopter after surgery (P=0.508; 0.87 ± 1.98 diopter decrease in the single-segment group and 0.67 ± 1.2 diopter increase in the double-segment group (P=0.025. Nineteen patients (75% gained one or two lines, and only three, who were all in the double-segment group, lost one or two lines of best corrected visual acuity. The spherical equivalent and vision significantly decreased in all patients. In these post-LASIK ectasia patients, the spherical equivalent was corrected better with two segments compared to single segment implantation; nonetheless, the level of astigmatism in the single-segment group was significantly better than that in the double-segment group.

NONINVASIVE METHODS ASSESSMENT BLOOD FLOW IN ANTERIOR SEGMENT AND CLINICAL APPLICATION PERSPECTIVE

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T. N. Kiseleva

2017-01-01

Full Text Available The literature review contains information on the anatomical and physiological features of the vessels of the conjunctiva, iris, ciliary body. There are data on the development and application of new non-invasive methods for the study of hemodynamics in the microvessels of anterior eye segment. To study the blood flow of the anterior segment of the eye, biomycroscopy, photography and videobiomicroscopy, television biomicroscopy of vessels, darkfield visualization, application fluorescence angiography, photoacoustic angiography, orthogonal polarization spectroscopy, laser Doppler flowmetry and OCT-angiography were used in recent years. These methods allow to determine the qualitative and quantitative characteristics of conjunctiva, iris, ciliary body microcirculation. They are highly informative for assess of various drugs effect on the vascular eye system. Investigation of hemodynamics in the eye microvessels is necessary for a fundamental approach to the study of the pathophysiology of systemic circulatory pathologies (with arterial hypertension, diabetes, etc. and changes in regional blood flow in organ of vision disease. Monitoring of anterior segment microcirculation in clinical practice makes possible to monitor the effectiveness of drug and surgical treatment.

Physiological and morphological characterization of organotypic cocultures of the chick forebrain area MNH and its main input area DMA/DMP.

Science.gov (United States)

Endepols, H; Jungnickel, J; Braun, K

2001-01-01

Cocultures of the learning-relevant forebrain region mediorostral neostriatum and hyperstriatum ventrale (MNH) and its main glutamatergic input area nucleus dorsomedialis anterior thalami/posterior thalami were morphologically and physiologically characterized. Synaptic contacts of thalamic fibers were light- and electron-microscopically detected on MNH neurons by applying the fluorescence tracer DiI-C18(3) into the thalamus part of the coculture. Most thalamic synapses on MNH neurons were symmetric and located on dendritic shafts, but no correlation between Gray-type ultrastructure and dendritic localization was found. Using intracellular current clamp recordings, we found that the electrophysiological properties, such as input resistance, time constant, action potential threshold, amplitude, and duration of MNH neurons, remain stable for over 30 days in vitro. Pharmacological blockade experiments revealed glutamate as the main neurotransmitter of thalamic synapses on MNH neurons, which were also found on inhibitory neurons. High frequency stimulation of thalamic inputs evoked synaptic potentiation in 22% of MNH neurons. The results indicate that DMA/DMP-MNH cocultures, which can be maintained under stable conditions for at least 4 weeks, provide an attractive in vitro model for investigating synaptic plasticity in the avian brain.

Human mini-guts: new insights into intestinal physiology and host-pathogen interactions.

Science.gov (United States)

In, Julie G; Foulke-Abel, Jennifer; Estes, Mary K; Zachos, Nicholas C; Kovbasnjuk, Olga; Donowitz, Mark

2016-11-01

The development of indefinitely propagating human 'mini-guts' has led to a rapid advance in gastrointestinal research related to transport physiology, developmental biology, pharmacology, and pathophysiology. These mini-guts, also called enteroids or colonoids, are derived from LGR5 + intestinal stem cells isolated from the small intestine or colon. Addition of WNT3A and other growth factors promotes stemness and results in viable, physiologically functional human intestinal or colonic cultures that develop a crypt-villus axis and can be differentiated into all intestinal epithelial cell types. The success of research using human enteroids has highlighted the limitations of using animals or in vitro, cancer-derived cell lines to model transport physiology and pathophysiology. For example, curative or preventive therapies for acute enteric infections have been limited, mostly due to the lack of a physiological human intestinal model. However, the human enteroid model enables specific functional studies of secretion and absorption in each intestinal segment as well as observations of the earliest molecular events that occur during enteric infections. This Review describes studies characterizing these human mini-guts as a physiological model to investigate intestinal transport and host-pathogen interactions.

Morphological rational operator for contrast enhancement.

Science.gov (United States)

Peregrina-Barreto, Hayde; Herrera-Navarro, Ana M; Morales-Hernández, Luis A; Terol-Villalobos, Iván R

2011-03-01

Contrast enhancement is an important task in image processing that is commonly used as a preprocessing step to improve the images for other tasks such as segmentation. However, some methods for contrast improvement that work well in low-contrast regions affect good contrast regions as well. This occurs due to the fact that some elements may vanish. A method focused on images with different luminance conditions is introduced in the present work. The proposed method is based on morphological transformations by reconstruction and rational operations, which, altogether, allow a more accurate contrast enhancement resulting in regions that are in harmony with their environment. Furthermore, due to the properties of these morphological transformations, the creation of new elements on the image is avoided. The processing is carried out on luminance values in the u'v'Y color space, which avoids the creation of new colors. As a result of the previous considerations, the proposed method keeps the natural color appearance of the image.

Breast tumor segmentation in high resolution x-ray phase contrast analyzer based computed tomography

Energy Technology Data Exchange (ETDEWEB)

Brun, E., E-mail: emmanuel.brun@esrf.fr [European Synchrotron Radiation Facility (ESRF), Grenoble 380000, France and Department of Physics, Ludwig-Maximilians University, Garching 85748 (Germany); Grandl, S.; Sztrókay-Gaul, A.; Gasilov, S. [Institute for Clinical Radiology, Ludwig-Maximilians-University Hospital Munich, 81377 Munich (Germany); Barbone, G. [Department of Physics, Harvard University, Cambridge, Massachusetts 02138 (United States); Mittone, A.; Coan, P. [Department of Physics, Ludwig-Maximilians University, Garching 85748, Germany and Institute for Clinical Radiology, Ludwig-Maximilians-University Hospital Munich, 81377 Munich (Germany); Bravin, A. [European Synchrotron Radiation Facility (ESRF), Grenoble 380000 (France)

2014-11-01

Purpose: Phase contrast computed tomography has emerged as an imaging method, which is able to outperform present day clinical mammography in breast tumor visualization while maintaining an equivalent average dose. To this day, no segmentation technique takes into account the specificity of the phase contrast signal. In this study, the authors propose a new mathematical framework for human-guided breast tumor segmentation. This method has been applied to high-resolution images of excised human organs, each of several gigabytes. Methods: The authors present a segmentation procedure based on the viscous watershed transform and demonstrate the efficacy of this method on analyzer based phase contrast images. The segmentation of tumors inside two full human breasts is then shown as an example of this procedure’s possible applications. Results: A correct and precise identification of the tumor boundaries was obtained and confirmed by manual contouring performed independently by four experienced radiologists. Conclusions: The authors demonstrate that applying the watershed viscous transform allows them to perform the segmentation of tumors in high-resolution x-ray analyzer based phase contrast breast computed tomography images. Combining the additional information provided by the segmentation procedure with the already high definition of morphological details and tissue boundaries offered by phase contrast imaging techniques, will represent a valuable multistep procedure to be used in future medical diagnostic applications.

An image processing pipeline to detect and segment nuclei in muscle fiber microscopic images.

Science.gov (United States)

Guo, Yanen; Xu, Xiaoyin; Wang, Yuanyuan; Wang, Yaming; Xia, Shunren; Yang, Zhong

2014-08-01

Muscle fiber images play an important role in the medical diagnosis and treatment of many muscular diseases. The number of nuclei in skeletal muscle fiber images is a key bio-marker of the diagnosis of muscular dystrophy. In nuclei segmentation one primary challenge is to correctly separate the clustered nuclei. In this article, we developed an image processing pipeline to automatically detect, segment, and analyze nuclei in microscopic image of muscle fibers. The pipeline consists of image pre-processing, identification of isolated nuclei, identification and segmentation of clustered nuclei, and quantitative analysis. Nuclei are initially extracted from background by using local Otsu's threshold. Based on analysis of morphological features of the isolated nuclei, including their areas, compactness, and major axis lengths, a Bayesian network is trained and applied to identify isolated nuclei from clustered nuclei and artifacts in all the images. Then a two-step refined watershed algorithm is applied to segment clustered nuclei. After segmentation, the nuclei can be quantified for statistical analysis. Comparing the segmented results with those of manual analysis and an existing technique, we find that our proposed image processing pipeline achieves good performance with high accuracy and precision. The presented image processing pipeline can therefore help biologists increase their throughput and objectivity in analyzing large numbers of nuclei in muscle fiber images. © 2014 Wiley Periodicals, Inc.

Recent Advances of Malaria Parasites Detection Systems Based on Mathematical Morphology

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Andrea Loddo

2018-02-01

Full Text Available Malaria is an epidemic health disease and a rapid, accurate diagnosis is necessary for proper intervention. Generally, pathologists visually examine blood stained slides for malaria diagnosis. Nevertheless, this kind of visual inspection is subjective, error-prone and time-consuming. In order to overcome the issues, numerous methods of automatic malaria diagnosis have been proposed so far. In particular, many researchers have used mathematical morphology as a powerful tool for computer aided malaria detection and classification. Mathematical morphology is not only a theory for the analysis of spatial structures, but also a very powerful technique widely used for image processing purposes and employed successfully in biomedical image analysis, especially in preprocessing and segmentation tasks. Microscopic image analysis and particularly malaria detection and classification can greatly benefit from the use of morphological operators. The aim of this paper is to present a review of recent mathematical morphology based methods for malaria parasite detection and identification in stained blood smears images.

Recent Advances of Malaria Parasites Detection Systems Based on Mathematical Morphology.

Science.gov (United States)

Loddo, Andrea; Di Ruberto, Cecilia; Kocher, Michel

2018-02-08

Malaria is an epidemic health disease and a rapid, accurate diagnosis is necessary for proper intervention. Generally, pathologists visually examine blood stained slides for malaria diagnosis. Nevertheless, this kind of visual inspection is subjective, error-prone and time-consuming. In order to overcome the issues, numerous methods of automatic malaria diagnosis have been proposed so far. In particular, many researchers have used mathematical morphology as a powerful tool for computer aided malaria detection and classification. Mathematical morphology is not only a theory for the analysis of spatial structures, but also a very powerful technique widely used for image processing purposes and employed successfully in biomedical image analysis, especially in preprocessing and segmentation tasks. Microscopic image analysis and particularly malaria detection and classification can greatly benefit from the use of morphological operators. The aim of this paper is to present a review of recent mathematical morphology based methods for malaria parasite detection and identification in stained blood smears images.

Manipulating the physiological quality of in vitro plantlets and transplants of potato

NARCIS (Netherlands)

Mehari, T.

2000-01-01

In vitro techniques have been introduced in potato seed production systems in recent years. This research project aimed at studying the morphological and physiological changes in plants and crops in the last three phases of a seed production system that included an

Lumbar segmental instability: a criterion-related validity study of manual therapy assessment

Directory of Open Access Journals (Sweden)

Chapple Cathy

2005-11-01

Full Text Available Abstract Background Musculoskeletal physiotherapists routinely assess lumbar segmental motion during the clinical examination of a patient with low back pain. The validity of manual assessment of segmental motion has not, however, been adequately investigated. Methods In this prospective, multi-centre, pragmatic, diagnostic validity study, 138 consecutive patients with recurrent or chronic low back pain (R/CLBP were recruited. Physiotherapists with post-graduate training in manual therapy performed passive accessory intervertebral motion tests (PAIVMs and passive physiological intervertebral motion tests (PPIVMs. Consenting patients were referred for flexion-extension radiographs. Sagittal angular rotation and sagittal translation of each lumbar spinal motion segment was measured from these radiographs, and compared to a reference range derived from a study of 30 asymptomatic volunteers. Motion beyond two standard deviations from the reference mean was considered diagnostic of rotational lumbar segmental instability (LSI and translational LSI. Accuracy and validity of the clinical assessments were expressed using sensitivity, specificity, and likelihood ratio statistics with 95% confidence intervals (CI. Results Only translation LSI was found to be significantly associated with R/CLBP (p Conclusion This study provides the first evidence reporting the concurrent validity of manual tests for the detection of abnormal sagittal planar motion. PAIVMs and PPIVMs are highly specific, but not sensitive, for the detection of translation LSI. Likelihood ratios resulting from positive test results were only moderate. This research indicates that manual clinical examination procedures have moderate validity for detecting segmental motion abnormality.

Automated classification of bone marrow cells in microscopic images for diagnosis of leukemia: a comparison of two classification schemes with respect to the segmentation quality

Science.gov (United States)

Krappe, Sebastian; Benz, Michaela; Wittenberg, Thomas; Haferlach, Torsten; Münzenmayer, Christian

2015-03-01

The morphological analysis of bone marrow smears is fundamental for the diagnosis of leukemia. Currently, the counting and classification of the different types of bone marrow cells is done manually with the use of bright field microscope. This is a time consuming, partly subjective and tedious process. Furthermore, repeated examinations of a slide yield intra- and inter-observer variances. For this reason an automation of morphological bone marrow analysis is pursued. This analysis comprises several steps: image acquisition and smear detection, cell localization and segmentation, feature extraction and cell classification. The automated classification of bone marrow cells is depending on the automated cell segmentation and the choice of adequate features extracted from different parts of the cell. In this work we focus on the evaluation of support vector machines (SVMs) and random forests (RFs) for the differentiation of bone marrow cells in 16 different classes, including immature and abnormal cell classes. Data sets of different segmentation quality are used to test the two approaches. Automated solutions for the morphological analysis for bone marrow smears could use such a classifier to pre-classify bone marrow cells and thereby shortening the examination duration.

Growth physiology and dimorphism of Mucor circinelloides (syn. racemosus) during submerged batch cultivation

DEFF Research Database (Denmark)

Mcintyre, Mhairi; Breum, J.; Arnau, J.

2002-01-01

Mucor circinelloides is being investigated as a possible host for the production of heterologous proteins. Thus, the environmental conditions defining the physiology and morphology of this dimorphic fungus have been investigated in submerged batch cultivation. The optimal conditions for growth...

Atlas selection for hippocampus segmentation: Relevance evaluation of three meta-information parameters.

Science.gov (United States)

Dill, Vanderson; Klein, Pedro Costa; Franco, Alexandre Rosa; Pinho, Márcio Sarroglia

2018-04-01

Current state-of-the-art methods for whole and subfield hippocampus segmentation use pre-segmented templates, also known as atlases, in the pre-processing stages. Typically, the input image is registered to the template, which provides prior information for the segmentation process. Using a single standard atlas increases the difficulty in dealing with individuals who have a brain anatomy that is morphologically different from the atlas, especially in older brains. To increase the segmentation precision in these cases, without any manual intervention, multiple atlases can be used. However, registration to many templates leads to a high computational cost. Researchers have proposed to use an atlas pre-selection technique based on meta-information followed by the selection of an atlas based on image similarity. Unfortunately, this method also presents a high computational cost due to the image-similarity process. Thus, it is desirable to pre-select a smaller number of atlases as long as this does not impact on the segmentation quality. To pick out an atlas that provides the best registration, we evaluate the use of three meta-information parameters (medical condition, age range, and gender) to choose the atlas. In this work, 24 atlases were defined and each is based on the combination of the three meta-information parameters. These atlases were used to segment 352 vol from the Alzheimer's Disease Neuroimaging Initiative (ADNI) database. Hippocampus segmentation with each of these atlases was evaluated and compared to reference segmentations of the hippocampus, which are available from ADNI. The use of atlas selection by meta-information led to a significant gain in the Dice similarity coefficient, which reached 0.68 ± 0.11, compared to 0.62 ± 0.12 when using only the standard MNI152 atlas. Statistical analysis showed that the three meta-information parameters provided a significant improvement in the segmentation accuracy. Copyright © 2018 Elsevier Ltd

Morphological changes during the life cycle of Aureobasidium pullulans (de Bary) Arnaud.

Science.gov (United States)

Kocková-Kratochvílová, A; Cernáková, M; Sláviková, E

1980-01-01

Aureobasidium pullulans (de Bary) Arnaud was isolated from different natural materials plant blossoms in particular. Elements of vegetative multiplication, structure of colonies and cultures in liquid media were analyzed in detail, leading to construction of the life cycle of this organism. Morphological polymorphism was found to be combined with the production of melanin and the polysaccharide pullulan. Morphological analysis served for a directed selection for studies of physiological properties of this organism and its practical application.

Spectral embedding based active contour (SEAC): application to breast lesion segmentation on DCE-MRI

Science.gov (United States)

Agner, Shannon C.; Xu, Jun; Rosen, Mark; Karthigeyan, Sudha; Englander, Sarah; Madabhushi, Anant

2011-03-01

Spectral embedding (SE), a graph-based manifold learning method, has previously been shown to be useful in high dimensional data classification. In this work, we present a novel SE based active contour (SEAC) segmentation scheme and demonstrate its applications in lesion segmentation on breast dynamic contrast enhance magnetic resonance imaging (DCE-MRI). In this work, we employ SE on DCE-MRI on a per voxel basis to embed the high dimensional time series intensity vector into a reduced dimensional space, where the reduced embedding space is characterized by the principal eigenvectors. The orthogonal eigenvector-based data representation allows for computation of strong tensor gradients in the spectrally embedded space and also yields improved region statistics that serve as optimal stopping criteria for SEAC. We demonstrate both analytically and empirically that the tensor gradients in the spectrally embedded space are stronger than the corresponding gradients in the original grayscale intensity space. On a total of 50 breast DCE-MRI studies, SEAC yielded a mean absolute difference (MAD) of 3.2+/-2.1 pixels and mean Dice similarity coefficient (DSC) of 0.74+/-0.13 compared to manual ground truth segmentation. An active contour in conjunction with fuzzy c-means (FCM+AC), a commonly used segmentation method for breast DCE-MRI, produced a corresponding MAD of 7.2+/-7.4 pixels and mean DSC of 0.58+/-0.32. In conjunction with a set of 6 quantitative morphological features automatically extracted from the SEAC derived lesion boundary, a support vector machine (SVM) classifier yielded an area under the curve (AUC) of 0.73, for discriminating between 10 benign and 30 malignant lesions; the corresponding SVM classifier with the FCM+AC derived morphological features yielded an AUC of 0.65.

The Effect of Paclobutrazol on Morphological, Physiological and Gas Exchange Charactersitics of Pear (Pyrus communus cv. Shah Mive under Different Irrigation Regimes

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Taimoor Javadi

2017-02-01

Full Text Available Introduction: Drought is a major environmental stress that affects agricultural systems and induces several physiological, biochemical and molecular responses in plants. Drought inhibits the plant photosynthesis causing changes of chlorophyll contents, damage the photosynthetic apparatus and decreases plant growth and development. Generally, the environmental stresses, especially drought stress, give rise to accumulation of soluble carbohydrates, proline and free amino acids as well as antioxidant compounds. Triazoles are the active ingredient of fungicides (propoconazole, penconazole, epixiconazole and some growth regulators. The fungicidal properties of triazoles depend on inhibition of the C4-demethylase reactions in sterol biosynthesis of fungi. However, triazole-based fungicides induce a suite of morphological and physiological adaptations and allow plants to tolerate a broad range of environmental stresses including drought, herbicide treatment and elevated temperatures. The growth inhibitor paclobutrazol (PBZ is a triazole and has been reported to protect plants against several environmental stresses, i.e. drought, low and high temperature. The purpose of this study was to evaluate the effect of palobutrazol on vegetative, physiological and gas exchange characteristics of pear (Pyrus communis cv. ShahMive under different irrigation regimes. Materials and Methods: In March, 2011, 1-year-old pear (Pyrus communis cv. ShahMive saplings 80±2 cm high were planted in 20-l plastic pots filled with loamy sand soil (8% clay, 15% silt, 77% Sand in experimental greenhouse. Paclobutrazol was added to soil at the same time with sapling cultivation at rates of 0, 0.15 and 0.3 g active ingredient per pot. PBZ was diluted in 500 ml distilled water and solution applied to the soil at the base of the saplings on pots. The control saplings were treated with distilled water of equal volume. Vegetative (stem growth, stem diameter, leaf number, shoot dry

The Significance of Epidermal Lipid Metabolism in Whole-Body Physiology

DEFF Research Database (Denmark)

Kruse, Vibeke; Neess, Ditte; Færgeman, Nils J

2017-01-01

The skin is the largest sensory organ of the human body. The skin not only prevents loss of water and other components of the body, but also is involved in regulation of body temperature and serves as an essential barrier, protecting mammals from both routine and extreme environments. Given...... the importance of the skin in temperature regulation, it is surprising that adaptive alterations in skin functions and morphology only vaguely have been associated with systemic physiological responses. Despite that impaired lipid metabolism in the skin often impairs the epidermal permeability barrier...... and insulation properties of the skin, its role in regulating systemic physiology and metabolism is yet to be recognized....

Influence of Maturation, Pathology and Functional Lateralization on 3D Sulcal Morphology using MRI

DEFF Research Database (Denmark)

Jensen, Betina Vase

unknown. The shape of cortical sulci and gyri are determined in part by forces exerted by white matter fiber connections between various cortical regions. Studying the shape of the cortical sulci hence contributes to the understanding of the variation in the folding. This thesis concerns sulcal...... condition, anosmia, in the olfactory sulcus. This thesis describes and uses methods for sulci segmentation, sulci registration, sulci representation, and statistics for modeling sulci shape and testing sulcal morphology. This thesis describes methods to analyze sulcal morphology and show how sulci...

Accounting for segment correlations in segmented gamma-ray scans

International Nuclear Information System (INIS)

Sheppard, G.A.; Prettyman, T.H.; Piquette, E.C.

1994-01-01

In a typical segmented gamma-ray scanner (SGS), the detector's field of view is collimated so that a complete horizontal slice or segment of the desired thickness is visible. Ordinarily, the collimator is not deep enough to exclude gamma rays emitted from sample volumes above and below the segment aligned with the collimator. This can lead to assay biases, particularly for certain radioactive-material distributions. Another consequence of the collimator's low aspect ratio is that segment assays at the top and bottom of the sample are biased low because the detector's field of view is not filled. This effect is ordinarily countered by placing the sample on a low-Z pedestal and scanning one or more segment thicknesses below and above the sample. This takes extra time, however, We have investigated a number of techniques that both account for correlated segments and correct for end effects in SGS assays. Also, we have developed an algorithm that facilitates estimates of assay precision. Six calculation methods have been compared by evaluating the results of thousands of simulated, assays for three types of gamma-ray source distribution and ten masses. We will report on these computational studies and their experimental verification

Rapid Automated Target Segmentation and Tracking on 4D Data without Initial Contours

International Nuclear Information System (INIS)

Chebrolu, V.V.; Chebrolu, V.V.; Saenz, D.; Tewatia, D.; Paliwal, B.R.; Chebrolu, V.V.; Saenz, D.; Paliwal, B.R.; Sethares, W.A.; Cannon, G.

2014-01-01

To achieve rapid automated delineation of gross target volume (GTV) and to quantify changes in volume/position of the target for radiotherapy planning using four-dimensional (4D) CT. Methods and Materials. Novel morphological processing and successive localization (MPSL) algorithms were designed and implemented for achieving auto segmentation. Contours automatically generated using MPSL method were compared with contours generated using state-of-the-art deformable registration methods (using Elastix © and MIMV ista software). Metrics such as the Dice similarity coefficient, sensitivity, and positive predictive value (PPV) were analyzed. The target motion tracked using the centroid of the GTV estimated using MPSL method was compared with motion tracked using deformable registration methods. Results. MPSL algorithm segmented the GTV in 4DCT images in 27.0 ±11.1 seconds per phase ( 512 ×512 resolution) as compared to 142.3±11.3 seconds per phase for deformable registration based methods in 9 cases. Dice coefficients between MPSL generated GTV contours and manual contours (considered as ground-truth) were 0.865 ± 0.037. In comparison, the Dice coefficients between ground-truth and contours generated using deformable registration based methods were 0.909 ± 0.051. Conclusions. The MPSL method achieved similar segmentation accuracy as compared to state-of-the-art deformable registration based segmentation methods, but with significant reduction in time required for GTV segmentation.

A novel region-growing based semi-automatic segmentation protocol for three-dimensional condylar reconstruction using cone beam computed tomography (CBCT.

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Tong Xi

Full Text Available OBJECTIVE: To present and validate a semi-automatic segmentation protocol to enable an accurate 3D reconstruction of the mandibular condyles using cone beam computed tomography (CBCT. MATERIALS AND METHODS: Approval from the regional medical ethics review board was obtained for this study. Bilateral mandibular condyles in ten CBCT datasets of patients were segmented using the currently proposed semi-automatic segmentation protocol. This segmentation protocol combined 3D region-growing and local thresholding algorithms. The segmentation of a total of twenty condyles was performed by two observers. The Dice-coefficient and distance map calculations were used to evaluate the accuracy and reproducibility of the segmented and 3D rendered condyles. RESULTS: The mean inter-observer Dice-coefficient was 0.98 (range [0.95-0.99]. An average 90th percentile distance of 0.32 mm was found, indicating an excellent inter-observer similarity of the segmented and 3D rendered condyles. No systematic errors were observed in the currently proposed segmentation protocol. CONCLUSION: The novel semi-automated segmentation protocol is an accurate and reproducible tool to segment and render condyles in 3D. The implementation of this protocol in the clinical practice allows the CBCT to be used as an imaging modality for the quantitative analysis of condylar morphology.

Automatic segmentation of tumor-laden lung volumes from the LIDC database

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O'Dell, Walter G.

2012-03-01

The segmentation of the lung parenchyma is often a critical pre-processing step prior to application of computer-aided detection of lung nodules. Segmentation of the lung volume can dramatically decrease computation time and reduce the number of false positive detections by excluding from consideration extra-pulmonary tissue. However, while many algorithms are capable of adequately segmenting the healthy lung, none have been demonstrated to work reliably well on tumor-laden lungs. Of particular challenge is to preserve tumorous masses attached to the chest wall, mediastinum or major vessels. In this role, lung volume segmentation comprises an important computational step that can adversely affect the performance of the overall CAD algorithm. An automated lung volume segmentation algorithm has been developed with the goals to maximally exclude extra-pulmonary tissue while retaining all true nodules. The algorithm comprises a series of tasks including intensity thresholding, 2-D and 3-D morphological operations, 2-D and 3-D floodfilling, and snake-based clipping of nodules attached to the chest wall. It features the ability to (1) exclude trachea and bowels, (2) snip large attached nodules using snakes, (3) snip small attached nodules using dilation, (4) preserve large masses fully internal to lung volume, (5) account for basal aspects of the lung where in a 2-D slice the lower sections appear to be disconnected from main lung, and (6) achieve separation of the right and left hemi-lungs. The algorithm was developed and trained to on the first 100 datasets of the LIDC image database.

Multidimensional segmentation of coronary intravascular ultrasound images using knowledge-based methods

Science.gov (United States)

Olszewski, Mark E.; Wahle, Andreas; Vigmostad, Sarah C.; Sonka, Milan

2005-04-01

In vivo studies of the relationships that exist among vascular geometry, plaque morphology, and hemodynamics have recently been made possible through the development of a system that accurately reconstructs coronary arteries imaged by x-ray angiography and intravascular ultrasound (IVUS) in three dimensions. Currently, the bottleneck of the system is the segmentation of the IVUS images. It is well known that IVUS images contain numerous artifacts from various sources. Previous attempts to create automated IVUS segmentation systems have suffered from either a cost function that does not include enough information, or from a non-optimal segmentation algorithm. The approach presented in this paper seeks to strengthen both of those weaknesses -- first by building a robust, knowledge-based cost function, and then by using a fully optimal, three-dimensional segmentation algorithm. The cost function contains three categories of information: a compendium of learned border patterns, information theoretic and statistical properties related to the imaging physics, and local image features. By combining these criteria in an optimal way, weaknesses associated with cost functions that only try to optimize a single criterion are minimized. This cost function is then used as the input to a fully optimal, three-dimensional, graph search-based segmentation algorithm. The resulting system has been validated against a set of manually traced IVUS image sets. Results did not show any bias, with a mean unsigned luminal border positioning error of 0.180 +/- 0.027 mm and an adventitial border positioning error of 0.200 +/- 0.069 mm.

A multi-cell, multi-scale model of vertebrate segmentation and somite formation.

Directory of Open Access Journals (Sweden)

Susan D Hester

2011-10-01

Full Text Available Somitogenesis, the formation of the body's primary segmental structure common to all vertebrate development, requires coordination between biological mechanisms at several scales. Explaining how these mechanisms interact across scales and how events are coordinated in space and time is necessary for a complete understanding of somitogenesis and its evolutionary flexibility. So far, mechanisms of somitogenesis have been studied independently. To test the consistency, integrability and combined explanatory power of current prevailing hypotheses, we built an integrated clock-and-wavefront model including submodels of the intracellular segmentation clock, intercellular segmentation-clock coupling via Delta/Notch signaling, an FGF8 determination front, delayed differentiation, clock-wavefront readout, and differential-cell-cell-adhesion-driven cell sorting. We identify inconsistencies between existing submodels and gaps in the current understanding of somitogenesis mechanisms, and propose novel submodels and extensions of existing submodels where necessary. For reasonable initial conditions, 2D simulations of our model robustly generate spatially and temporally regular somites, realistic dynamic morphologies and spontaneous emergence of anterior-traveling stripes of Lfng. We show that these traveling stripes are pseudo-waves rather than true propagating waves. Our model is flexible enough to generate interspecies-like variation in somite size in response to changes in the PSM growth rate and segmentation-clock period, and in the number and width of Lfng stripes in response to changes in the PSM growth rate, segmentation-clock period and PSM length.

Non-Mendelian determinants of morphology in fungi.

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Malagnac, Fabienne; Silar, Philippe

2003-12-01

Morphological plasticity is a hallmark of eumycetes. In addition to genes and environment, epigenetic factors control cell, colony and thallus forms in many species, by creating reversible switches. Current knowledge indicates that the different shapes are due to structural or regulatory heritable states of cytoplasmic components. Cellular physiology differs in the various forms, permitting adaptation to fluctuation in the environment. These switches are part of the adaptation repertoire that fungi exhibit to colonize most niches.

Relationship between foveal cone specialization and pit morphology in albinism.

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Wilk, Melissa A; McAllister, John T; Cooper, Robert F; Dubis, Adam M; Patitucci, Teresa N; Summerfelt, Phyllis; Anderson, Jennifer L; Stepien, Kimberly E; Costakos, Deborah M; Connor, Thomas B; Wirostko, William J; Chiang, Pei-Wen; Dubra, Alfredo; Curcio, Christine A; Brilliant, Murray H; Summers, C Gail; Carroll, Joseph

2014-05-20

Albinism is associated with disrupted foveal development, though intersubject variability is becoming appreciated. We sought to quantify this variability, and examine the relationship between foveal cone specialization and pit morphology in patients with a clinical diagnosis of albinism. We recruited 32 subjects with a clinical diagnosis of albinism. DNA was obtained from 25 subjects, and known albinism genes were analyzed for mutations. Relative inner and outer segment (IS and OS) lengthening (fovea-to-perifovea ratio) was determined from manually segmented spectral domain-optical coherence tomography (SD-OCT) B-scans. Foveal pit morphology was quantified for eight subjects from macular SD-OCT volumes. Ten subjects underwent imaging with adaptive optics scanning light ophthalmoscopy (AOSLO), and cone density was measured. We found mutations in 22 of 25 subjects, including five novel mutations. All subjects lacked complete excavation of inner retinal layers at the fovea, though four subjects had foveal pits with normal diameter and/or volume. Peak cone density and OS lengthening were variable and overlapped with that observed in normal controls. A fifth hyper-reflective band was observed in the outer retina on SD-OCT in the majority of the subjects with albinism. Foveal cone specialization and pit morphology vary greatly in albinism. Normal cone packing was observed in the absence of a foveal pit, suggesting a pit is not required for packing to occur. The degree to which retinal anatomy correlates with genotype or visual function remains unclear, and future examination of larger patient groups will provide important insight on this issue. Copyright 2014 The Association for Research in Vision and Ophthalmology, Inc.

Lung physiology and how aerosol deposits in the lungs

International Nuclear Information System (INIS)

Isawa, Toyoharu

1994-01-01

Weibel's morphologic data has been referred to not only for predicting aerosol deposition in the lungs but also lung physiology. During breathing the volume of air passes all through the mouth, the larynx, the trachea and the conductive airways into the alveolar space. When the airflow is not laminar and disturbed at the bifurcation or the irregular airway surface, eddies and turbulence occur there to result in deposition of aerosol by impaction or sedimentation. At high flow rates, there are more chances for turbulence to occur at these sites. Because the cross-section and volume of the subsequent airways increase, the flow rate decreases. It is worthwhile to remember that the pressure drop and resistance do not necessarily follow Poiseuille's law even in the large airways, and that with the turbulent flow the density of a gas plays an important role. If Poiseuille's law is applied, the resistance becomes sixteenfold when the radius of the airway segment is halved. When we breathe quietly, the flow in the trachea and the intermediate conductive airways is laminar and in very small conductive airways including the terminal bronchioles the airflow becomes so slow in velocity that the axial diffusion becomes more prominent, especially distal to the terminal bronchioles the cross-sectional area increases so much that molecular diffusion becomes more important. For gas transfer to occur, molecules of oxygen should pass through the surfactant layer, the alveolar epithelium, the basement membrane, the endothelium of the capillaries, and the plasma to get to the red blood cell to combine with hemoglobin

Morphological and biochemical characterization of the aetiological agents of white piedra.

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Magalhães, Alba Regina; Mondino, Silvia Susana Bona de; Silva, Manuela da; Nishikawa, Marilia Martins

2008-12-01

The Trichosporon genus is constituted by many species, of which Trichosporon ovoides and Trichosporon inkin are the causative agents of white piedra. They can cause nodules in genital hair or on the scalp. At present, Brazilian laboratory routines generally do not include the identification of the species of Trichosporon genus, which, although morphologically and physiologically distinct, present many similarities, making the identification difficult. The aim of this study was to identify the aetiological agents at the species level of white piedra from clinical specimens. Therefore, both the macro and micro morphology were studied, and physiological tests were performed. Trichosporon spp. was isolated from 10 clinical samples; T. ovoides was predominant, as it was found in seven samples, while T. inkin was identified just in two samples. One isolate could not be identified at the species level. T. inkin was identified for the first time as a white piedra agent in the hair shaft on child under the age of 10.

A three-dimensional image processing program for accurate, rapid, and semi-automated segmentation of neuronal somata with dense neurite outgrowth

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Ross, James D.; Cullen, D. Kacy; Harris, James P.; LaPlaca, Michelle C.; DeWeerth, Stephen P.

2015-01-01

Three-dimensional (3-D) image analysis techniques provide a powerful means to rapidly and accurately assess complex morphological and functional interactions between neural cells. Current software-based identification methods of neural cells generally fall into two applications: (1) segmentation of cell nuclei in high-density constructs or (2) tracing of cell neurites in single cell investigations. We have developed novel methodologies to permit the systematic identification of populations of neuronal somata possessing rich morphological detail and dense neurite arborization throughout thick tissue or 3-D in vitro constructs. The image analysis incorporates several novel automated features for the discrimination of neurites and somata by initially classifying features in 2-D and merging these classifications into 3-D objects; the 3-D reconstructions automatically identify and adjust for over and under segmentation errors. Additionally, the platform provides for software-assisted error corrections to further minimize error. These features attain very accurate cell boundary identifications to handle a wide range of morphological complexities. We validated these tools using confocal z-stacks from thick 3-D neural constructs where neuronal somata had varying degrees of neurite arborization and complexity, achieving an accuracy of ≥95%. We demonstrated the robustness of these algorithms in a more complex arena through the automated segmentation of neural cells in ex vivo brain slices. These novel methods surpass previous techniques by improving the robustness and accuracy by: (1) the ability to process neurites and somata, (2) bidirectional segmentation correction, and (3) validation via software-assisted user input. This 3-D image analysis platform provides valuable tools for the unbiased analysis of neural tissue or tissue surrogates within a 3-D context, appropriate for the study of multi-dimensional cell-cell and cell-extracellular matrix interactions. PMID

Hydrophilic segmented block copolymers based on poly(ethylene oxide) and monodisperse amide segments

NARCIS (Netherlands)

Husken, D.; Feijen, Jan; Gaymans, R.J.

2007-01-01

Segmented block copolymers based on poly(ethylene oxide) (PEO) flexible segments and monodisperse crystallizable bisester tetra-amide segments were made via a polycondensation reaction. The molecular weight of the PEO segments varied from 600 to 4600 g/mol and a bisester tetra-amide segment (T6T6T)

Deep convolutional neural network for mammographic density segmentation

Science.gov (United States)

Wei, Jun; Li, Songfeng; Chan, Heang-Ping; Helvie, Mark A.; Roubidoux, Marilyn A.; Lu, Yao; Zhou, Chuan; Hadjiiski, Lubomir; Samala, Ravi K.

2018-02-01

Breast density is one of the most significant factors for cancer risk. In this study, we proposed a supervised deep learning approach for automated estimation of percentage density (PD) on digital mammography (DM). The deep convolutional neural network (DCNN) was trained to estimate a probability map of breast density (PMD). PD was calculated as the ratio of the dense area to the breast area based on the probability of each pixel belonging to dense region or fatty region at a decision threshold of 0.5. The DCNN estimate was compared to a feature-based statistical learning approach, in which gray level, texture and morphological features were extracted from each ROI and the least absolute shrinkage and selection operator (LASSO) was used to select and combine the useful features to generate the PMD. The reference PD of each image was provided by two experienced MQSA radiologists. With IRB approval, we retrospectively collected 347 DMs from patient files at our institution. The 10-fold cross-validation results showed a strong correlation r=0.96 between the DCNN estimation and interactive segmentation by radiologists while that of the feature-based statistical learning approach vs radiologists' segmentation had a correlation r=0.78. The difference between the segmentation by DCNN and by radiologists was significantly smaller than that between the feature-based learning approach and radiologists (p approach has the potential to replace radiologists' interactive thresholding in PD estimation on DMs.

A phylogenetic framework for root lesion nematodes of the genus Pratylenchus (Nematoda): Evidence from 18S and D2-D3 expansion segments of 28S ribosomal RNA genes and morphological characters.

Science.gov (United States)

Subbotin, Sergei A; Ragsdale, Erik J; Mullens, Teresa; Roberts, Philip A; Mundo-Ocampo, Manuel; Baldwin, James G

2008-08-01

The root lesion nematodes of the genus Pratylenchus Filipjev, 1936 are migratory endoparasites of plant roots, considered among the most widespread and important nematode parasites in a variety of crops. We obtained gene sequences from the D2 and D3 expansion segments of 28S rRNA partial and 18S rRNA from 31 populations belonging to 11 valid and two unidentified species of root lesion nematodes and five outgroup taxa. These datasets were analyzed using maximum parsimony and Bayesian inference. The alignments were generated using the secondary structure models for these molecules and analyzed with Bayesian inference under the standard models and the complex model, considering helices under the doublet model and loops and bulges under the general time reversible model. The phylogenetic informativeness of morphological characters is tested by reconstruction of their histories on rRNA based trees using parallel parsimony and Bayesian approaches. Phylogenetic and sequence analyses of the 28S D2-D3 dataset with 145 accessions for 28 species and 18S dataset with 68 accessions for 15 species confirmed among large numbers of geographical diverse isolates that most classical morphospecies are monophyletic. Phylogenetic analyses revealed at least six distinct major clades of examined Pratylenchus species and these clades are generally congruent with those defined by characters derived from lip patterns, numbers of lip annules, and spermatheca shape. Morphological results suggest the need for sophisticated character discovery and analysis for morphology based phylogenetics in nematodes.

Chameleons: Electrocardiogram Imitators of ST-Segment Elevation Myocardial Infarction.

Science.gov (United States)

Nable, Jose V; Lawner, Benjamin J

2015-08-01

The imperative for timely reperfusion therapy for patients presenting with ST-segment elevation myocardial infarction (STEMI) underscores the need for clinicians to have an understanding of how to distinguish patterns of STEMI from its imitators. These imitating diagnoses may confound an evaluation, potentially delaying necessary therapy. Although numerous diagnoses may mimic STEMI, several morphologic clues may allow the physician to determine if the pattern is concerning for either STEMI or a mimicking diagnosis. Furthermore, obtaining a satisfactory history, comparing previous electrocardiograms, and assessing serial tests may provide valuable clues. Copyright © 2015 Elsevier Inc. All rights reserved.

Spinal segmental dysgenesis

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N Mahomed

2009-06-01

Full Text Available Spinal segmental dysgenesis is a rare congenital spinal abnormality , seen in neonates and infants in which a segment of the spine and spinal cord fails to develop normally . The condition is segmental with normal vertebrae above and below the malformation. This condition is commonly associated with various abnormalities that affect the heart, genitourinary, gastrointestinal tract and skeletal system. We report two cases of spinal segmental dysgenesis and the associated abnormalities.

Fouling release nanostructured coatings based on PDMS-polyurea segmented copolymers

KAUST Repository

Fang, Jason

2010-05-01

The bulk and surface characteristics of a series of coatings based on PDMS-polyurea segmented copolymers were correlated to their fouling release performance. Incorporation of polyurea segments to PDMS backbone gives rise to phase separation with the extensively hydrogen bonded hard domains creating an interconnected network that imparts mechanical rigidity. Increasing the compositional complexity of the system by including fluorinated or POSS-functionalized chain extenders or through nanoclay intercalation, confers further thermomechanical improvements. In analogy to the bulk morphology, the surface topography also reflects the compositional complexity of the materials, displaying a wide range of motifs. Investigations on settlement and subsequent removal of Ulva sporelings on those nanostructured surfaces indicate that the work required to remove the microorganisms is significantly lower compared to coatings based on standard PDMS homopolymer. All in all, the series of materials considered in this study demonstrate advanced fouling release properties, while exhibiting superior mechanical properties and, thus, long term durability. © 2010 Elsevier Ltd.

Transitions in axial morphology along the Southeast Indian Ridge

Science.gov (United States)

Ma, Ying; Cochran, James R.

1996-07-01

a distance of 800 km. In addition, the ridge continues to become shallower away from Amsterdam Island toward the transition to an axial high at 82°E, 350 km to the east of the ASP. The Kerguelen hotspot appears to exert a major influence on the morphology of the SEIR by feeding asthenospheric material to the ridge axis. A long, narrow finger-like gravity high extends ENE away from the Kerguelen Plateau for a distance of 500 km. Shipboard data show that the gravity high results from a large volcanic ridge. The ridge appears analogous to the Rodriguez Ridge extending from the Reunion hotspot toward the Central Indian Ridge. A series of lower and broader lineated gravity highs extend from the volcanic ridge toward the SEIR in the ridge segment between the 81°E and 85°E transforms, which is the westernmost segment with an axial high. The only region of significant off-ridge seismicity on the Antarctic flank of the SEIR is a diffuse band of epicenters extending from Kerguelen to the SEIR within the segment between the 81°E and 85°E fracture zones. The along-axis gradient in depth from 86°E to the AAD and the transitions in axial morphology at 104°E and 114°E most likely reflect along-axis variations in mantle temperature and melt production rate due to distance from the Kerguelen hotspot and the influence of the AAD.

Evidence for ontogenetically and morphologically distinct alternative reproductive tactics in the invasive Round Goby Neogobius melanostomus.

Science.gov (United States)

Bleeker, Katinka; de Jong, Karen; van Kessel, Nils; Hinde, Camilla A; Nagelkerke, Leopold A J

2017-01-01

Alternative reproductive tactics are characterized by the occurrence of discrete alternative morphs that differ in behavioural, morphological and physiological traits within the same sex. Although much effort has been made to describe the behaviour, morphology and physiology of such alternative morphs, less effort has been invested investigating how much overlap there is in the characteristics of such morphs in natural populations. We studied random population samples of the invasive Round Goby Neogobius melanostomus from five different localities in the river Rhine system in the Netherlands. We found two morphologically and physiologically distinct male morphs which likely represent alternative reproductive tactics. Almost all mature males under 9.35 cm total length had a gonadosomatic index > 3%, suggestive of a sneaker tactic, while nearly all males above 9.35 cm has a gonadosomatic index of sneaker morphs would be ca. 7.5 times as high as the gonad mass of parental morphs of the same total length after extrapolation. Few (9%) intermediates were found, suggesting that the expression of alternative reproductive tactics is determined before the first breeding season. This contrasts with studies on other goby species, which show evidence of plastic tactics that can be affected by social circumstances. We conclude that it is possible to distinguish two alternative male morphs in the Dutch Round Goby population using morphological measurements alone. Although behavioural observations are needed to provide conclusive evidence, the difference in GSI between these morphs indicates that these morphs reflect alternative reproductive tactics.

Segmentation of hepatic artery in multi-phase liver CT using directional dilation and connectivity analysis

Science.gov (United States)

Wang, Lei; Schnurr, Alena-Kathrin; Zidowitz, Stephan; Georgii, Joachim; Zhao, Yue; Razavi, Mohammad; Schwier, Michael; Hahn, Horst K.; Hansen, Christian

2016-03-01

Segmentation of hepatic arteries in multi-phase computed tomography (CT) images is indispensable in liver surgery planning. During image acquisition, the hepatic artery is enhanced by the injection of contrast agent. The enhanced signals are often not stably acquired due to non-optimal contrast timing. Other vascular structure, such as hepatic vein or portal vein, can be enhanced as well in the arterial phase, which can adversely affect the segmentation results. Furthermore, the arteries might suffer from partial volume effects due to their small diameter. To overcome these difficulties, we propose a framework for robust hepatic artery segmentation requiring a minimal amount of user interaction. First, an efficient multi-scale Hessian-based vesselness filter is applied on the artery phase CT image, aiming to enhance vessel structures with specified diameter range. Second, the vesselness response is processed using a Bayesian classifier to identify the most probable vessel structures. Considering the vesselness filter normally performs not ideally on the vessel bifurcations or the segments corrupted by noise, two vessel-reconnection techniques are proposed. The first technique uses a directional morphological operator to dilate vessel segments along their centerline directions, attempting to fill the gap between broken vascular segments. The second technique analyzes the connectivity of vessel segments and reconnects disconnected segments and branches. Finally, a 3D vessel tree is reconstructed. The algorithm has been evaluated using 18 CT images of the liver. To quantitatively measure the similarities between segmented and reference vessel trees, the skeleton coverage and mean symmetric distance are calculated to quantify the agreement between reference and segmented vessel skeletons, resulting in an average of 0:55+/-0:27 and 12:7+/-7:9 mm (mean standard deviation), respectively.

GEODESIC RECONSTRUCTION, SADDLE ZONES & HIERARCHICAL SEGMENTATION

Directory of Open Access Journals (Sweden)

Serge Beucher

2011-05-01

Full Text Available The morphological reconstruction based on geodesic operators, is a powerful tool in mathematical morphology. The general definition of this reconstruction supposes the use of a marker function f which is not necessarily related to the function g to be built. However, this paper deals with operations where the marker function is defined from given characteristic regions of the initial function f, as it is the case, for instance, for the extrema (maxima or minima but also for the saddle zones. Firstly, we show that the intuitive definition of a saddle zone is not easy to handle, especially when digitised images are involved. However, some of these saddle zones (regional ones also called overflow zones can be defined, this definition providing a simple algorithm to extract them. The second part of the paper is devoted to the use of these overflow zones as markers in image reconstruction. This reconstruction provides a new function which exhibits a new hierarchy of extrema. This hierarchy is equivalent to the hierarchy produced by the so-called waterfall algorithm. We explain why the waterfall algorithm can be achieved by performing a watershed transform of the function reconstructed by its initial watershed lines. Finally, some examples of use of this hierarchical segmentation are described.

Effect of the fungus Piriformospora indica on physiological characteristics and root morphology of wheat under combined drought and mechanical stresses.

Science.gov (United States)

Hosseini, Fatemeh; Mosaddeghi, Mohammad Reza; Dexter, Anthony Roger

2017-09-01

This study was done to evaluate the effects of the root-colonizing endophytic fungus Piriformospora indica on wheat growth under combined drought and mechanical stresses. Inoculated (colonized) and non-inoculated (uncolonized) wheat (Triticum aestivum L. cv. Chamran) seedlings were planted in growth chambers filled with moist sand (at a matric suction of 20 hPa). Slight, moderate and severe mechanical stresses (i.e., penetration resistance, Q p , of 1.17, 4.17 and 5.96 MPa, respectively) were produced by a dead-load technique (i.e., placing a weight on the sand surface) in the root medium. Slight, moderate and severe drought stresses were induced using PEG 6000 solutions with osmotic potentials of 0, -0.3 and -0.5 MPa, respectively. After 30 days, plant physiological characteristics and root morphology were measured. An increase in Q p from 1.17 to 5.96 MPa led to greater leaf proline concentration and root diameter, and lower relative water content (RWC), leaf water potential (LWP), chlorophyll contents and root volume. Moreover, severe drought stress decreased root and shoot fresh weights, root volume, leaf area, RWC, LWP and chlorophyll content compared to control. Catalase (CAT) and ascorbate peroxidase (APX) activities under severe drought stress were about 1.5 and 2.9 times greater than control. Interaction of the stresses showed that mechanical stress primarily controls plant water status and physiological responses. However, endophyte presence mitigated the adverse effects of individual and combined stresses on plant growth. Colonized plants were better adapted and had greater root length and volume, RWC, LWP and chlorophyll contents under stressful conditions due to higher absorption sites for water and nutrients. Compared with uncolonized plants, colonized plants showed lower CAT activity implying that wheat inoculated with P. indica was more tolerant and experienced less oxidative damage induced by drought and/or mechanical stress. Copyright �

Automatic Melody Segmentation

NARCIS (Netherlands)

Rodríguez López, Marcelo

2016-01-01

The work presented in this dissertation investigates music segmentation. In the field of Musicology, segmentation refers to a score analysis technique, whereby notated pieces or passages of these pieces are divided into “units” referred to as sections, periods, phrases, and so on. Segmentation

Easy-going, rational, susceptible and struggling eaters: A segmentation study based on eating behaviour tendencies.

Science.gov (United States)

Pentikäinen, Saara; Arvola, Anne; Karhunen, Leila; Pennanen, Kyösti

2018-01-01

Eating behaviour tendencies, emotional eating (EE), uncontrolled eating (UE) and cognitive restraint (CR), are associated with various indicators of physical and mental health. Therefore, it is important to understand these tendencies in order to design interventions to improve health. Previous research has mostly examined eating behaviour tendencies individually, without considering typical combinations of these tendencies or their manifestation in well-being and food choices. This study aimed to understand the interactive occurrence of EE, UE and CR in two independent populations. Finnish (n = 1060) and German (n = 1070) samples were segmented on the basis of their responses to a modified Three-Factor Eating Questionnaire (TFEQ-R15). Well-being, coping strategies and food consumption habits of the segments were studied. Segmentation revealed four segments: "Susceptible", "Easy-going", "Rational" and "Struggling". These segments were similar in both countries with regard to well-being, coping strategies and food choices. EE and UE co-occurred, and these tendencies were mainly responsible for differentiating the segments. Members of the "Rational" and "Easy-going" segments, who had low scores for EE and UE, tended to experience vitality and positive emotions in life, and contentment with their eating. By contrast, the "Susceptible" and "Struggling" segments, with more pronounced tendencies towards EE and UE, experienced lower levels of vitality and less frequently positive emotions, applied less adaptive coping strategies and experienced more discontent with eating. The results of the current study suggest that it is possible to identify segments, with differing eating habits, coping strategies and well-being on the basis of the eating behaviour tendencies EE, UE and CR. We discuss possible viewpoints for the design of interventions and food products to help people towards psychologically and physiologically healthier eating styles. Copyright © 2017 Elsevier

Integrating multiscale polar active contours and region growing for microcalcifications segmentation in mammography

International Nuclear Information System (INIS)

Arikidis, N S; Karahaliou, A; Skiadopoulos, S; Panagiotakis, G; Costaridou, L; Likaki, E

2009-01-01

Morphology of individual microcalcifications is an important clinical factor in microcalcification clusters diagnosis. Accurate segmentation remains a difficult task due to microcalcifications small size, low contrast, fuzzy nature and low distinguishability from surrounding tissue. A novel application of active rays (polar transformed active contours) on B-spline wavelet representation is employed, to provide initial estimates of microcalcification boundary. Then, a region growing method is used with pixel aggregation constrained by the microcalcification boundary estimates, to obtain the final microcalcification boundary. The method was tested on dataset of 49 microcalcification clusters (30 benign, 19 malignant), originating from the DDSM database. An observer study was conducted to evaluate segmentation accuracy of the proposed method, on a 5-point rating scale (from 5:excellent to 1:very poor). The average accuracy rating was 3.98±0.81 when multiscale active rays were combined to region growing and 2.93±0.92 when combined to linear polynomial fitting, while the difference in rating of segmentation accuracy was statistically significant (p < 0.05).

Segmented trapped vortex cavity

Science.gov (United States)

Grammel, Jr., Leonard Paul (Inventor); Pennekamp, David Lance (Inventor); Winslow, Jr., Ralph Henry (Inventor)

2010-01-01

An annular trapped vortex cavity assembly segment comprising includes a cavity forward wall, a cavity aft wall, and a cavity radially outer wall there between defining a cavity segment therein. A cavity opening extends between the forward and aft walls at a radially inner end of the assembly segment. Radially spaced apart pluralities of air injection first and second holes extend through the forward and aft walls respectively. The segment may include first and second expansion joint features at distal first and second ends respectively of the segment. The segment may include a forward subcomponent including the cavity forward wall attached to an aft subcomponent including the cavity aft wall. The forward and aft subcomponents include forward and aft portions of the cavity radially outer wall respectively. A ring of the segments may be circumferentially disposed about an axis to form an annular segmented vortex cavity assembly.

Performance Analysis of Segmentation of Hyperspectral Images Based on Color Image Segmentation

Directory of Open Access Journals (Sweden)

Praveen Agarwal

2017-06-01

Full Text Available Image segmentation is a fundamental approach in the field of image processing and based on user’s application .This paper propose an original and simple segmentation strategy based on the EM approach that resolves many informatics problems about hyperspectral images which are observed by airborne sensors. In a first step, to simplify the input color textured image into a color image without texture. The final segmentation is simply achieved by a spatially color segmentation using feature vector with the set of color values contained around the pixel to be classified with some mathematical equations. The spatial constraint allows taking into account the inherent spatial relationships of any image and its color. This approach provides effective PSNR for the segmented image. These results have the better performance as the segmented images are compared with Watershed & Region Growing Algorithm and provide effective segmentation for the Spectral Images & Medical Images.

Wavelet-space correlation imaging for high-speed MRI without motion monitoring or data segmentation.

Science.gov (United States)

Li, Yu; Wang, Hui; Tkach, Jean; Roach, David; Woods, Jason; Dumoulin, Charles

2015-12-01

This study aims to (i) develop a new high-speed MRI approach by implementing correlation imaging in wavelet-space, and (ii) demonstrate the ability of wavelet-space correlation imaging to image human anatomy with involuntary or physiological motion. Correlation imaging is a high-speed MRI framework in which image reconstruction relies on quantification of data correlation. The presented work integrates correlation imaging with a wavelet transform technique developed originally in the field of signal and image processing. This provides a new high-speed MRI approach to motion-free data collection without motion monitoring or data segmentation. The new approach, called "wavelet-space correlation imaging", is investigated in brain imaging with involuntary motion and chest imaging with free-breathing. Wavelet-space correlation imaging can exceed the speed limit of conventional parallel imaging methods. Using this approach with high acceleration factors (6 for brain MRI, 16 for cardiac MRI, and 8 for lung MRI), motion-free images can be generated in static brain MRI with involuntary motion and nonsegmented dynamic cardiac/lung MRI with free-breathing. Wavelet-space correlation imaging enables high-speed MRI in the presence of involuntary motion or physiological dynamics without motion monitoring or data segmentation. © 2014 Wiley Periodicals, Inc.

Structural modifications in the arterial wall during physiological aging and as a result of diabetes mellitus in a mouse model: are the changes comparable?

Science.gov (United States)

Prévost, G; Bulckaen, H; Gaxatte, C; Boulanger, E; Béraud, G; Creusy, C; Puisieux, F; Fontaine, P

2011-04-01

Vascular accelerated aging represents the major cause of morbidity and mortality in subjects with diabetes mellitus. In the present study, our aim was to compare premature functional and morphological changes in the arterial wall resulting from streptozotocin (STZ)-induced diabetes mellitus in mice over a short-term period with those that develop during physiological aging. The effect of aminoguanidine (AG) on the prevention of these alterations in the diabetic group was also analyzed. The vascular relaxation response to acetylcholine (ACh) in the mouse was tested in isolated segments of phenylephrine (Phe)-precontracted aorta at 2, 4 and 8 weeks (wk) of STZ-induced diabetes and compare to 12- and 84-wk-old mice. Aortic structural changes were investigated, and receptor for AGE (RAGE) aortic expression was quantified by western blot. Compared to the 12-wk control group (76 ± 5%), significant endothelium-dependant relaxation (EDR) impairment was found in the group of 12-wk-old mice, which underwent a 4-wk diabetes-inducing STZ treatment (12wk-4WD) (52 ± 4%; P aging preventive effect on the structural changes of the arterial wall. Our study compared EDR linked to physiological aging with that observed in the case of STZ-induced diabetes over a short-term period, and demonstrated the beneficial effect of AG. Copyright © 2010 Elsevier Masson SAS. All rights reserved.

Growth and physiological responses to varied environments among populations of Pinus ponderosa

Science.gov (United States)

Jianwei Zhang; Bert M. Cregg

2005-01-01

We investigated population responses in physiology, morphology, and growth of mature Pinus ponderosa trees to an environmental gradient across Nebraska, USA. Ten populations from western Nebraska and eastern Wyoming were grown in three 26-year-old provenance tests from the warmest and wettest site in the east (Plattsmouth) to the intermediate site in...

Segmentation of Drosophila Heart in Optical Coherence Microscopy Images Using Convolutional Neural Networks

OpenAIRE

Duan, Lian; Qin, Xi; He, Yuanhao; Sang, Xialin; Pan, Jinda; Xu, Tao; Men, Jing; Tanzi, Rudolph E.; Li, Airong; Ma, Yutao; Zhou, Chao

2018-01-01

Convolutional neural networks are powerful tools for image segmentation and classification. Here, we use this method to identify and mark the heart region of Drosophila at different developmental stages in the cross-sectional images acquired by a custom optical coherence microscopy (OCM) system. With our well-trained convolutional neural network model, the heart regions through multiple heartbeat cycles can be marked with an intersection over union (IOU) of ~86%. Various morphological and dyn...

Segmental Vitiligo.

Science.gov (United States)

van Geel, Nanja; Speeckaert, Reinhart

2017-04-01

Segmental vitiligo is characterized by its early onset, rapid stabilization, and unilateral distribution. Recent evidence suggests that segmental and nonsegmental vitiligo could represent variants of the same disease spectrum. Observational studies with respect to its distribution pattern point to a possible role of cutaneous mosaicism, whereas the original stated dermatomal distribution seems to be a misnomer. Although the exact pathogenic mechanism behind the melanocyte destruction is still unknown, increasing evidence has been published on the autoimmune/inflammatory theory of segmental vitiligo. Copyright © 2016 Elsevier Inc. All rights reserved.

F response and H reflex analysis of physiological unity of gravity and antigravity muscles in man.

Science.gov (United States)

García, H A; Fisher, M A

1977-01-01

Observational differences between reflex (H reflex) and antidromic (F response) activation of segmental motoneurons by a peripheral electrical stimulus are described. In contrast to H reflexes, the percentage of F responses found after a series of stimuli is directly related to the pick-up field of the recording electrode consistent with this response being due to the variable activation of a small fraction of the available motoneuron pool. Despite the differing physiological mechanisms, both F responses and H reflexes can be used to demonstrate similar relative "central excitatory states" for antigravity muscles (i.e. extensors in the lower extremity and flexors in the upper extremity) and their antagonist gravity muscles. H reflexes were elicited not only in their usual location in certain antigravity muscles but also in unusual locations by length/tension changes in agonist and antagonist groups as well as by passive stretch. The data argue for the physiological unity of similarly acting gravity and antigravity muscles as well as supporting a meaningful role of group II afferents in normal segmental motoneuron pool excitability.

Segmental vitiligo with segmental morphea: An autoimmune link?

Directory of Open Access Journals (Sweden)

Pravesh Yadav

2014-01-01

Full Text Available An 18-year old girl with segmental vitiligo involving the left side of the trunk and left upper limb with segmental morphea involving the right side of trunk and right upper limb without any deeper involvement is illustrated. There was no history of preceding drug intake, vaccination, trauma, radiation therapy, infection, or hormonal therapy. Family history of stable vitiligo in her brother and a history of type II diabetes mellitus in the father were elicited. Screening for autoimmune diseases and antithyroid antibody was negative. An autoimmune link explaining the co-occurrence has been proposed. Cutaneous mosiacism could explain the presence of both the pathologies in a segmental distribution.

Market Segmentation in Business Technology Base: The Case of Segmentation of Sparkling

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Valéria Riscarolli

2014-08-01

Full Text Available A common market segmentation premise for products and services rules consumer behavior as the segmentation center piece. Would this be the logic for segmentation used by small technology based companies? In this article we target at determining the principles of market segmentation used by a vitiwinery company, as research object. This company is recognized by its products excellence, either in domestic as well as in the foreign market, among 13 distinct countries. The research method used is a case study, through information from the company’s CEOs and crossed by primary information from observation and formal registries and documents of the company. In this research we look at sparkling wines market segmentation. Main results indicate that the winery studied considers only technological elements as the basis to build a market segment. One may conclude that a market segmentation for this company is based upon technological dominion of sparkling wines production, aligned with a premium-price policy. In the company, directorship believes that as sparkling wines market is still incipient in the country, sparkling wine market segments will form and consolidate after the evolution of consumers tasting preferences, depending on technologies that boost sparkling wines quality. 

Deaf college students' mathematical skills relative to morphological knowledge, reading level, and language proficiency.

Science.gov (United States)

Kelly, Ronald R; Gaustad, Martha G

2007-01-01

This study of deaf college students examined specific relationships between their mathematics performance and their assessed skills in reading, language, and English morphology. Simple regression analyses showed that deaf college students' language proficiency scores, reading grade level, and morphological knowledge regarding word segmentation and meaning were all significantly correlated with both the ACT Mathematics Subtest and National Technical Institute for the Deaf (NTID) Mathematics Placement Test scores. Multiple regression analyses identified the best combination from among these potential independent predictors of students' performance on both the ACT and NTID mathematics tests. Additionally, the participating deaf students' grades in their college mathematics courses were significantly and positively associated with their reading grade level and their knowledge of morphological components of words.

Physiological basis and image processing in functional magnetic resonance imaging: Neuronal and motor activity in brain

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Sharma Rakesh

2004-05-01

Full Text Available Abstract Functional magnetic resonance imaging (fMRI is recently developing as imaging modality used for mapping hemodynamics of neuronal and motor event related tissue blood oxygen level dependence (BOLD in terms of brain activation. Image processing is performed by segmentation and registration methods. Segmentation algorithms provide brain surface-based analysis, automated anatomical labeling of cortical fields in magnetic resonance data sets based on oxygen metabolic state. Registration algorithms provide geometric features using two or more imaging modalities to assure clinically useful neuronal and motor information of brain activation. This review article summarizes the physiological basis of fMRI signal, its origin, contrast enhancement, physical factors, anatomical labeling by segmentation, registration approaches with examples of visual and motor activity in brain. Latest developments are reviewed for clinical applications of fMRI along with other different neurophysiological and imaging modalities.

Chemical and morphological segregation of Alternaria alternata, A-gaisen and A-longipes

DEFF Research Database (Denmark)

Andersen, Birgitte; Krøger, Elisabeth; Roberts, R.G.

2001-01-01

and the diameter measurements were subjected to principal component analysis. Analysis of chemical and physiological data showed that the 39 isolates segregated into the same distinct groups that are morphologically identifiable as A. alternata, A. longipes or A. gaisen. The results showed that A. longipes. A...

Separating foliar physiology from morphology reveals the relative roles of vertically structured transpiration factors within red maple crowns and limitations of larger scale models

Science.gov (United States)

Bauerle, William L.; Bowden, Joseph D.

2011-01-01

A spatially explicit mechanistic model, MAESTRA, was used to separate key parameters affecting transpiration to provide insights into the most influential parameters for accurate predictions of within-crown and within-canopy transpiration. Once validated among Acer rubrum L. genotypes, model responses to different parameterization scenarios were scaled up to stand transpiration (expressed per unit leaf area) to assess how transpiration might be affected by the spatial distribution of foliage properties. For example, when physiological differences were accounted for, differences in leaf width among A. rubrum L. genotypes resulted in a 25% difference in transpiration. An in silico within-canopy sensitivity analysis was conducted over the range of genotype parameter variation observed and under different climate forcing conditions. The analysis revealed that seven of 16 leaf traits had a ≥5% impact on transpiration predictions. Under sparse foliage conditions, comparisons of the present findings with previous studies were in agreement that parameters such as the maximum Rubisco-limited rate of photosynthesis can explain ∼20% of the variability in predicted transpiration. However, the spatial analysis shows how such parameters can decrease or change in importance below the uppermost canopy layer. Alternatively, model sensitivity to leaf width and minimum stomatal conductance was continuous along a vertical canopy depth profile. Foremost, transpiration sensitivity to an observed range of morphological and physiological parameters is examined and the spatial sensitivity of transpiration model predictions to vertical variations in microclimate and foliage density is identified to reduce the uncertainty of current transpiration predictions. PMID:21617246

Physiologic, morphologic and behavioural responses of Zabrotes subfasciatus (Boheman) (Coleoptera: Bruchidae) related to the consume of different varieties of Phaseolus vulgaris; Respostas fisiologicas, morfologicas e comportamentais de Zabrotes subfasciatus (Boheman) (Coleoptera: Bruchidae) associadas ao consumo de diferentes variedades de feijao (Phaseolus vulgaris)

Energy Technology Data Exchange (ETDEWEB)

Marteleto, Patricia B. [Universidade Federal de Uberlandia (UFU), Umuarama, Uberlandia, MG (Brazil). Inst. de Genetica e Bioquimica. Programa de Pos-Graduacao], e-mail: patriciamarteleto@gmail.com; Lomonaco, Cecilia [Universidade Federal de Uberlandia (UFU), Umuarama, Uberlandia, MG (Brazil). Inst. de Biologia], e-mail: lomonaco@ufu.br; Kerr, Warwick E. [Universidade Federal de Uberlandia (UFU), Umuarama, Uberlandia, MG (Brazil). Dept. de Ciencias Agronomicas], e-mail: kerr@ufu.br

2009-03-15

This study was developed aiming to verify physiological, morphological and behavioral responses of two different Zabrotes subfasciatus (Boheman) populations to different beans varieties (Phaseolus vulgaris) (Fabaceae). Female longevity, fertility and oviposition preference site, as well as size and levels of fluctuating asymmetry for males and females were described. Zabrotes subfasciatus displayed physiological plasticity in response to the diet, which was considered an important adaptive ability to maintain the insect generalist habit for food consumption and oviposition sites. The populations studied had different responses to the same treatments, indicating genetic, physiological and behavioral variation on their plastic potential. The Hopkins' principle, which determines the influence of previous female experience in the choice of oviposition sites, was not confirmed. The occurrence of fluctuating asymmetry in males and females was variable, probably as a consequence of genomic factors determining this trait. (author)

Fluence map segmentation

International Nuclear Information System (INIS)

Rosenwald, J.-C.

2008-01-01

The lecture addressed the following topics: 'Interpreting' the fluence map; The sequencer; Reasons for difference between desired and actual fluence map; Principle of 'Step and Shoot' segmentation; Large number of solutions for given fluence map; Optimizing 'step and shoot' segmentation; The interdigitation constraint; Main algorithms; Conclusions on segmentation algorithms (static mode); Optimizing intensity levels and monitor units; Sliding window sequencing; Synchronization to avoid the tongue-and-groove effect; Accounting for physical characteristics of MLC; Importance of corrections for leaf transmission and offset; Accounting for MLC mechanical constraints; The 'complexity' factor; Incorporating the sequencing into optimization algorithm; Data transfer to the treatment machine; Interface between R and V and accelerator; and Conclusions on fluence map segmentation (Segmentation is part of the overall inverse planning procedure; 'Step and Shoot' and 'Dynamic' options are available for most TPS (depending on accelerator model; The segmentation phase tends to come into the optimization loop; The physical characteristics of the MLC have a large influence on final dose distribution; The IMRT plans (MU and relative dose distribution) must be carefully validated). (P.A.)

Strategic market segmentation

Directory of Open Access Journals (Sweden)

Maričić Branko R.

2015-01-01

Full Text Available Strategic planning of marketing activities is the basis of business success in modern business environment. Customers are not homogenous in their preferences and expectations. Formulating an adequate marketing strategy, focused on realization of company's strategic objectives, requires segmented approach to the market that appreciates differences in expectations and preferences of customers. One of significant activities in strategic planning of marketing activities is market segmentation. Strategic planning imposes a need to plan marketing activities according to strategically important segments on the long term basis. At the same time, there is a need to revise and adapt marketing activities on the short term basis. There are number of criteria based on which market segmentation is performed. The paper will consider effectiveness and efficiency of different market segmentation criteria based on empirical research of customer expectations and preferences. The analysis will include traditional criteria and criteria based on behavioral model. The research implications will be analyzed from the perspective of selection of the most adequate market segmentation criteria in strategic planning of marketing activities.

A Quantitative Golgi Study of Dendritic Morphology in the Mice Striatal Medium Spiny Neurons

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Ana Hladnik

2017-04-01

Full Text Available In this study we have provided a detailed quantitative morphological analysis of medium spiny neurons (MSNs in the mice dorsal striatum and determined the consistency of values among three groups of animals obtained in different set of experiments. Dendritic trees of 162 Golgi Cox (FD Rapid GolgiStain Kit impregnated MSNs from 15 adult C57BL/6 mice were 3-dimensionally reconstructed using Neurolucida software, and parameters of dendritic morphology have been compared among experimental groups. The parameters of length and branching pattern did not show statistically significant difference and were highly consistent among groups. The average neuronal soma surface was between 160 μm2 and 180 μm2, and the cells had 5–6 primary dendrites with close to 40 segments per neuron. Sholl analysis confirmed regular pattern of dendritic branching. The total length of dendrites was around 2100 μm with the average length of individual branching (intermediate segment around 22 μm and for the terminal segment around 100 μm. Even though each experimental group underwent the same strictly defined protocol in tissue preparation and Golgi staining, we found inconsistency in dendritic volume and soma surface. These changes could be methodologically influenced during the Golgi procedure, although without affecting the dendritic length and tree complexity. Since the neuronal activity affects the dendritic thickness, it could not be excluded that observed volume inconsistency was related with functional states of neurons prior to animal sacrifice. Comprehensive analyses of tree complexity and dendritic length provided here could serve as an additional tool for understanding morphological variability in the most numerous neuronal population of the striatum. As reference values they could provide basic ground for comparisons with the results obtained in studies that use various models of genetically modified mice in explaining different pathological conditions that

SEGMENTAL EPIDURAL ANAESTHESIA FOR INGUINAL HERNIA REPAIR

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Sachidanand

2015-09-01

. 10% of patients had fair quality of analgesia and relaxation only. In 3% patients the epidural block failed, in whom general anaesthesia was given. Overall success rate was 97%. Intraoperative and post - operative complications were very minimal. No cases of hypotension, bradycardia, nausea vomiting, total spinal block and respiratory depres sion were seen. CONCLUSION: From the present study it can be inferred that 0.5% Bupivacaine 5 - 6 ml is effective for segmental epidural block for inguinal hernia repair. Segmental epidural block is safe anaesthesia with minimal physiological alterations. Wi th less side effects

Robust medical image segmentation for hyperthermia treatment planning

International Nuclear Information System (INIS)

Neufeld, E.; Chavannes, N.; Kuster, N.; Samaras, T.

2005-01-01

Full text: This work is part of an ongoing effort to develop a comprehensive hyperthermia treatment planning (HTP) tool. The goal is to unify all the steps necessary to perform treatment planning - from image segmentation to optimization of the energy deposition pattern - in a single tool. The bases of the HTP software are the routines and know-how developed in our TRINTY project that resulted the commercial EM platform SEMCAD-X. It incorporates the non-uniform finite-difference time-domain (FDTD) method, permitting the simulation of highly detailed models. Subsequently, in order to create highly resolved patient models, a powerful and robust segmentation tool is needed. A toolbox has been created that allows the flexible combination of various segmentation methods as well as several pre-and postprocessing functions. It works primarily with CT and MRI images, which it can read in various formats. A wide variety of segmentation methods has been implemented. This includes thresholding techniques (k-means classification, expectation maximization and modal histogram analysis for automatic threshold detection, multi-dimensional if required), region growing methods (with hysteretic behavior and simultaneous competitive growing), an interactive marker based watershed transformation, level-set methods (homogeneity and edge based, fast-marching), a flexible live-wire implementation as well as fuzzy connectedness. Due to the large number of tissues that need to be segmented for HTP, no methods that rely on prior knowledge have been implemented. Various edge extraction routines, distance transforms, smoothing techniques (convolutions, anisotropic diffusion, sigma filter...), connected component analysis, topologically flexible interpolation, image algebra and morphological operations are available. Moreover, contours or surfaces can be extracted, simplified and exported. Using these different techniques on several samples, the following conclusions have been drawn: Due to the

Early detection of lung cancer from CT images: nodule segmentation and classification using deep learning

Science.gov (United States)

Sharma, Manu; Bhatt, Jignesh S.; Joshi, Manjunath V.

2018-04-01

Lung cancer is one of the most abundant causes of the cancerous deaths worldwide. It has low survival rate mainly due to the late diagnosis. With the hardware advancements in computed tomography (CT) technology, it is now possible to capture the high resolution images of lung region. However, it needs to be augmented by efficient algorithms to detect the lung cancer in the earlier stages using the acquired CT images. To this end, we propose a two-step algorithm for early detection of lung cancer. Given the CT image, we first extract the patch from the center location of the nodule and segment the lung nodule region. We propose to use Otsu method followed by morphological operations for the segmentation. This step enables accurate segmentation due to the use of data-driven threshold. Unlike other methods, we perform the segmentation without using the complete contour information of the nodule. In the second step, a deep convolutional neural network (CNN) is used for the better classification (malignant or benign) of the nodule present in the segmented patch. Accurate segmentation of even a tiny nodule followed by better classification using deep CNN enables the early detection of lung cancer. Experiments have been conducted using 6306 CT images of LIDC-IDRI database. We achieved the test accuracy of 84.13%, with the sensitivity and specificity of 91.69% and 73.16%, respectively, clearly outperforming the state-of-the-art algorithms.

Morphological comparison between Chrysomya rufifacies (Macquart) and Chrysomya villeneuvi Patton (Diptera: Calliphoridae) puparia, forensically important blow flies.

Science.gov (United States)

Sukontason, Kabkaew L; Narongchai, Paitoon; Kanchai, Chaturong; Vichairat, Karnda; Piangjai, Somsak; Boonsriwong, Worachote; Bunchu, Nophawan; Sripakdee, Duanghatai; Chaiwong, Tarinee; Kuntalue, Budsabong; Siriwattanarungsee, Sirisuda; Sukontason, Kom

2006-12-20

In Thailand, the hairy maggots of the blow flies, Chrysomya rufifacies (Macquart) and Chrysomya villeneuvi Patton, are of forensic importance. Both flies are closely related species, not only in the morphological appearance of their larvae and puparia, but also on the aggressive feeding habit of the former. In our continuing studies of forensically important flies, identification of immature ones needs particular attention. In this study, we reported the morphological comparison between the puparia of these two blow fly species using scanning electron microscopy (SEM). Observation revealed that the cuticular sculpture of tubercles along the dorsal and lateral segments had markedly different features: with C. rufifacies having many sharp spines assembling only at the tip, while of C. villeneuvi bore stout spines throughout the tubercle. A larger number of globules at the bubble membrane on the dorsolateral border of the fifth segment was found in C. villeneuvi (average 225) than in C. rufifacies (average 35), and more papillae was observed on the anterior spiracle in C. villeneuvi (13-15) than in C. rufifacies (9-12). However, the morphology of distinct net-like patches of the integument and structure of the posterior spiracle of both species were almost identical. Morphological comparison in this study permitted identification of the puparia of both fly species, particularly in areas where they co-exist.

Qualitative and quantitative analyses of the morphological-dynamics of early cardiac pumping function using video densitometry and optical coherence tomography (OCT)

DEFF Research Database (Denmark)

Happel, C.; Männer, J.; Thommes, J.

has become a matter of dispute. Uncovering of the pumping mechanism of tubular embryonic hearts requires detailed information about the hemodynamics as well as morphological dynamics of the pump action. We have analyzed the morphological dynamics of cardiac pump action in chick embryos (HH-stage 16......) of the embryonic heart segments (common atrium, AV-canal, embryonic ventricles, outflow tract). Video densitometric M-mode curves show remarkable similarities to OCT M-mode recordings. OCT M-mode recordings can only be taken at one site at a time whereas video densitometry allows simultaneous recordings at any...... striking differences in contraction behavior of different heart segments of the tubular embryonic heart. These findings are important for the understanding of the pumping mechanism of the developing valveless embryonic heart....

Changes in cell proliferation and morphology in the large intestine of normal and DMH-treated rats following colostomy.

Science.gov (United States)

Barkla, D H; Tutton, P J

1987-04-01

Colostomies were formed in the midcolon of normal and DMH-treated rats. Changes in cell proliferation in the mucosa adjacent to the colostomy and in the defunctioned distal segment were measured at seven, 14, 30, and 72 days using a stathmokinetic technique. Animals were given intraperitoneal injections of vinblastine and sacrificed three hours later; counts of mitotic and nonmitotic cells were made in tissue sections, and three-hour accumulated mitotic indexes were estimated. The results show that, except at seven days in DMH-treated rats, cell proliferation was unchanged in the colon proximal to the colostomy. Morphologic evidence of hyperplasia was seen in some animals at seven and 14 days. The defunctioned segment showed rapid atrophy of both mucosa and muscularis and a gradual but progressive decrease in cell proliferation. The morphology of the mucosa adjacent to the suture line in both functioning and defunctioned segments in normal and DMH-treated rats was abnormal in many animals. Abnormalities that were seen included collections of dysplastic epithelial cells in the submucosa, focal adenomatous changes, and intramural carcinoma formation. Aggregates of lymphoid tissue often were associated with carcinomas.

Image segmentation and dynamic lineage analysis in single-cell fluorescence microscopy.

Science.gov (United States)

Wang, Quanli; Niemi, Jarad; Tan, Chee-Meng; You, Lingchong; West, Mike

2010-01-01

An increasingly common component of studies in synthetic and systems biology is analysis of dynamics of gene expression at the single-cell level, a context that is heavily dependent on the use of time-lapse movies. Extracting quantitative data on the single-cell temporal dynamics from such movies remains a major challenge. Here, we describe novel methods for automating key steps in the analysis of single-cell, fluorescent images-segmentation and lineage reconstruction-to recognize and track individual cells over time. The automated analysis iteratively combines a set of extended morphological methods for segmentation, and uses a neighborhood-based scoring method for frame-to-frame lineage linking. Our studies with bacteria, budding yeast and human cells, demonstrate the portability and usability of these methods, whether using phase, bright field or fluorescent images. These examples also demonstrate the utility of our integrated approach in facilitating analyses of engineered and natural cellular networks in diverse settings. The automated methods are implemented in freely available, open-source software.

Space Physiology within an Exercise Physiology Curriculum

Science.gov (United States)

Carter, Jason R.; West, John B.

2013-01-01

Compare and contrast strategies remain common pedagogical practices within physiological education. With the support of an American Physiological Society Teaching Career Enhancement Award, we have developed a junior- or senior-level undergraduate curriculum for exercise physiology that compares and contrasts the physiological adaptations of…

Notes on the ultrastructure of the setae on the fourth antennulary segment of the Balanus amphitrite cyprid (Crustacea : Cirripedia : Thoracica)

DEFF Research Database (Denmark)

Lagersson, Niklas; Garm, Anders Lydik; Høeg, Jens Thorvald

2003-01-01

This study presents electron microscopy (SEM, TEM) observations on the putative settlement receptors of the fourth antennulary segments. The TEM data from all nine setae are from the outer dendritic segment. Eight of them have morphological characteristics, indicating bimodal sensory properties...... while one seta (sE) is presumed to be a unimodal mechanoreceptor. We suggest that setae A and B are stimulated by the water flow, seta D is olfactory, seta E detects the topography of the substratum by touch, and the subterminal setae are touch chemoreceptors. No function is suggested for seta C....

Gut Melatonin in Vertebrates: Chronobiology and Physiology

Directory of Open Access Journals (Sweden)

Dr. Saumen Kumar Maitra

2015-07-01

Full Text Available Melatonin, following discovery in the bovine pineal gland, has been detected in several extra-pineal sources including gastrointestinal tract or gut. Arylalkylamine N-acetyltransferase (AANAT is the key regulator of its biosynthesis. Melatonin in pineal is rhythmically produced with a nocturnal peak in synchronization with environmental light-dark cycle. A recent study on carp reported first that melatonin levels and intensity of a ~23kDa AANAT protein in each gut segment also exhibit significant daily variations but, unlike pineal, show a peak at midday in all seasons. Extensive experimental studies ruled out direct role of light-dark conditions in determining temporal pattern of gut melatoninergic system in carp, and opened up possible role of environmental non-photic cue(s as its synchronizer. Based on mammalian findings, physiological significance of gut derived melatonin also appears unique because its actions at local levels sharing paracrine and/or autocrine functions have been emphasized. The purpose of this mini-review is to summarize existing data on the chronobiology and physiology of gut melatonin and to emphasize their relation with the same hormone derived in the pineal in vertebrates including fish.

Biometric analysis of pigment dispersion syndrome using anterior segment optical coherence tomography.

Science.gov (United States)

Aptel, Florent; Beccat, Sylvain; Fortoul, Vincent; Denis, Philippe

2011-08-01

To compare anterior chamber volume (ACV), iris volume, and iridolenticular contact (ILC) area before and after laser peripheral iridotomy (LPI) in eyes with pigment dispersion syndrome (PDS) using anterior segment optical coherence tomography (AS OCT) and image processing software. Cross-sectional study. Eighteen eyes of 18 patients with PDS; 30 eyes of 30 controls matched for age, gender, and refraction. Anterior segment OCT imaging was performed in all eyes before LPI and 1, 4, and 12 weeks after LPI. At each visit, 12 cross-sectional images of the AS were taken: 4 in bright conditions with accommodation (accommodation), 4 in bright conditions without accommodation (physiological miosis), and 4 under dark conditions (physiologic mydriasis). Biometric parameters were estimated using AS OCT radial sections and customized image-processing software. Anterior chamber volume, iris volume-to-length ratio, ILC area, AS OCT anterior chamber depth, and A-scan ultrasonography axial length. Before LPI, PDS eyes had a significantly greater ACV and ILC area than control eyes (PPigment dispersion syndrome eyes do not have an iris that is abnormally large, relative to the AS size, but have a weakly resistant iris that is stretched and pushed against the lens when there is a pressure difference across the iris. The author(s) have no proprietary or commercial interest in any materials discussed in this article. Copyright © 2011 American Academy of Ophthalmology. Published by Elsevier Inc. All rights reserved.

STUDY OF PHYSIOLOGICAL PROFILE OF INDIAN BOXERS

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Gulshan Lal Khanna

2006-07-01

Full Text Available The present study was conducted to study the morphological, physiological and biochemical characteristics of Indian National boxers as well as to assess the cardiovascular adaptation to graded exercise and actual boxing round. Two different studies were conducted. In the first study [N = 60, (junior boxers below-19 yrs, n = 30, (senior boxers-20-25 yrs, n = 30] different morphological, physiological and biochemical parameters were measured. In the second study (N = 21, Light Weight category- <54 kg, n = 7; Medium weight category <64 kg, n = 7 and Medium heavy weight category <75 kg, n = 7 cardiovascular responses were studied during graded exercise protocol and actual boxing bouts. Results showed a significantly higher (p < 0.05 stature, body mass, LBM, body fat and strength of back and grip in senior boxers compared to juniors. Moreover, the senior boxers possessed mesomorphic body conformation where as the juniors' possessed ectomorphic body conformation. Significantly lower (p < 0.05 aerobic capacity and anaerobic power were noted in junior boxers compared to seniors. Further, significantly higher (p < 0.05 maximal heart rates and recovery heart rates were observed in the seniors as compared to the juniors. Significantly higher maximum heart rates were noted during actual boxing compared to graded exercise. Blood lactate concentration was found to increase with the increase of workload during both graded exercise and actual boxing round. The senior boxers showed a significantly elevated (p < 0.05 levels of hemoblobin, blood urea, uric acid and peak lactate as compared to junior boxers. In the senior boxers significantly lower levels of total cholesterol, triglyceride and LDLC were observed as compared to junior boxers. No significant change has been noted in HDLC between the groups. The age and level of training in boxing has significant effect on Aerobic, anaerobic component. The study of physiological responses during graded exercise

Manipulation of the hypocotyl sink activity by reciprocal grafting of two Raphanus sativus varieties: its effects on morphological and physiological traits of source leaves and whole-plant growth.

Science.gov (United States)

Sugiura, Daisuke; Betsuyaku, Eriko; Terashima, Ichiro

2015-12-01

To reveal whether hypocotyl sink activities are regulated by the aboveground parts, and whether physiology and morphology of source leaves are affected by the hypocotyl sink activities, we conducted grafting experiments using two Raphanus sativus varieties with different hypocotyl sink activities. Comet (C) and Leafy (L) varieties with high and low hypocotyl sink activities were reciprocally grafted and resultant plants were called by their scion and stock such as CC, LC, CL and LL. Growth, leaf mass per area (LMA), total non-structural carbohydrates (TNCs) and photosynthetic characteristics were compared among them. Comet hypocotyls in CC and LC grew well regardless of the scions, whereas Leafy hypocotyls in CL and LL did not. Relative growth rate was highest in LL and lowest in CC. Photosynthetic capacity was correlated with Rubisco (ribulose 1·5-bisphosphate carboxylase/oxygenase) content but unaffected by TNC. High C/N ratio and accumulation of TNC led to high LMA and structural LMA. These results showed that the hypocotyl sink activity was autonomously regulated by hypocotyl and that the down-regulation of photosynthesis was not induced by TNC. We conclude that the change in the sink activity alters whole-plant growth through the changes in both biomass allocation and leaf morphological characteristics in R. sativus. © 2015 John Wiley & Sons Ltd.

Robust semi-automatic segmentation of pulmonary subsolid nodules in chest computed tomography scans

International Nuclear Information System (INIS)

Lassen, B C; Kuhnigk, J-M; Van Ginneken, B; Van Rikxoort, E M; Jacobs, C

2015-01-01

The malignancy of lung nodules is most often detected by analyzing changes of the nodule diameter in follow-up scans. A recent study showed that comparing the volume or the mass of a nodule over time is much more significant than comparing the diameter. Since the survival rate is higher when the disease is still in an early stage it is important to detect the growth rate as soon as possible. However manual segmentation of a volume is time-consuming. Whereas there are several well evaluated methods for the segmentation of solid nodules, less work is done on subsolid nodules which actually show a higher malignancy rate than solid nodules. In this work we present a fast, semi-automatic method for segmentation of subsolid nodules. As minimal user interaction the method expects a user-drawn stroke on the largest diameter of the nodule. First, a threshold-based region growing is performed based on intensity analysis of the nodule region and surrounding parenchyma. In the next step the chest wall is removed by a combination of a connected component analyses and convex hull calculation. Finally, attached vessels are detached by morphological operations. The method was evaluated on all nodules of the publicly available LIDC/IDRI database that were manually segmented and rated as non-solid or part-solid by four radiologists (Dataset 1) and three radiologists (Dataset 2). For these 59 nodules the Jaccard index for the agreement of the proposed method with the manual reference segmentations was 0.52/0.50 (Dataset 1/Dataset 2) compared to an inter-observer agreement of the manual segmentations of 0.54/0.58 (Dataset 1/Dataset 2). Furthermore, the inter-observer agreement using the proposed method (i.e. different input strokes) was analyzed and gave a Jaccard index of 0.74/0.74 (Dataset 1/Dataset 2). The presented method provides satisfactory segmentation results with minimal observer effort in minimal time and can reduce the inter-observer variability for segmentation of

Robust semi-automatic segmentation of pulmonary subsolid nodules in chest computed tomography scans

Science.gov (United States)

Lassen, B. C.; Jacobs, C.; Kuhnigk, J.-M.; van Ginneken, B.; van Rikxoort, E. M.

2015-02-01

The malignancy of lung nodules is most often detected by analyzing changes of the nodule diameter in follow-up scans. A recent study showed that comparing the volume or the mass of a nodule over time is much more significant than comparing the diameter. Since the survival rate is higher when the disease is still in an early stage it is important to detect the growth rate as soon as possible. However manual segmentation of a volume is time-consuming. Whereas there are several well evaluated methods for the segmentation of solid nodules, less work is done on subsolid nodules which actually show a higher malignancy rate than solid nodules. In this work we present a fast, semi-automatic method for segmentation of subsolid nodules. As minimal user interaction the method expects a user-drawn stroke on the largest diameter of the nodule. First, a threshold-based region growing is performed based on intensity analysis of the nodule region and surrounding parenchyma. In the next step the chest wall is removed by a combination of a connected component analyses and convex hull calculation. Finally, attached vessels are detached by morphological operations. The method was evaluated on all nodules of the publicly available LIDC/IDRI database that were manually segmented and rated as non-solid or part-solid by four radiologists (Dataset 1) and three radiologists (Dataset 2). For these 59 nodules the Jaccard index for the agreement of the proposed method with the manual reference segmentations was 0.52/0.50 (Dataset 1/Dataset 2) compared to an inter-observer agreement of the manual segmentations of 0.54/0.58 (Dataset 1/Dataset 2). Furthermore, the inter-observer agreement using the proposed method (i.e. different input strokes) was analyzed and gave a Jaccard index of 0.74/0.74 (Dataset 1/Dataset 2). The presented method provides satisfactory segmentation results with minimal observer effort in minimal time and can reduce the inter-observer variability for segmentation of

Clinical usefulness of physiological components obtained by factor analysis. Application to /sup 99m/Tc-DTPA renography

Energy Technology Data Exchange (ETDEWEB)

Ohtake, Eiji; Murata, Hajime; Matsuda, Hirofumi; Yokoyama, Masao; Toyama, Hinako; Satoh, Tomohiko.

1989-01-01

The clinical usefulness of physiological components obtained by factor analysis was assessed in /sup 99m/Tc-DTPA renography. Using definite physiological components, another dynamic data could be analyzed. In this paper, the dynamic renal function after ESWL (Extracorporeal Shock Wave Lithotripsy) treatment was examined using physiological components in the kidney before ESWL and/or a normal kidney. We could easily evaluate the change of renal functions by this method. The usefulness of a new analysis using physiological components was summarized as follows: (1) The change of a dynamic function could be assessed in quantity as that of the contribution ratio. (2) The change of a sick condition could be morphologically evaluated as that of the functional image.

Anterior Overgrowth in Primary Curves, Compensatory Curves and Junctional Segments in Adolescent Idiopathic Scoliosis.

Science.gov (United States)

Schlösser, Tom P C; van Stralen, Marijn; Chu, Winnie C W; Lam, Tsz-Ping; Ng, Bobby K W; Vincken, Koen L; Cheng, Jack C Y; Castelein, René M

2016-01-01

Although much attention has been given to the global three-dimensional aspect of adolescent idiopathic scoliosis (AIS), the accurate three-dimensional morphology of the primary and compensatory curves, as well as the intervening junctional segments, in the scoliotic spine has not been described before. A unique series of 77 AIS patients with high-resolution CT scans of the spine, acquired for surgical planning purposes, were included and compared to 22 healthy controls. Non-idiopathic curves were excluded. Endplate segmentation and local longitudinal axis in endplate plane enabled semi-automatic geometric analysis of the complete three-dimensional morphology of the spine, taking inter-vertebral rotation, intra-vertebral torsion and coronal and sagittal tilt into account. Intraclass correlation coefficients for interobserver reliability were 0.98-1.00. Coronal deviation, axial rotation and the exact length discrepancies in the reconstructed sagittal plane, as defined per vertebra and disc, were analyzed for each primary and compensatory curve as well as for the junctional segments in-between. The anterior-posterior difference of spinal length, based on "true" anterior and posterior points on endplates, was +3.8% for thoracic and +9.4% for (thoraco)lumbar curves, while the junctional segments were almost straight. This differed significantly from control group thoracic kyphosis (-4.1%; P<0.001) and lumbar lordosis (+7.8%; P<0.001). For all primary as well as compensatory curves, we observed linear correlations between the coronal Cobb angle, axial rotation and the anterior-posterior length difference (r≥0.729 for thoracic curves; r≥0.485 for (thoraco)lumbar curves). Excess anterior length of the spine in AIS has been described as a generalized growth disturbance, causing relative anterior spinal overgrowth. This study is the first to demonstrate that this anterior overgrowth is not a generalized phenomenon. It is confined to the primary as well as the

Spectral-spatial classification of hyperspectral data with mutual information based segmented stacked autoencoder approach

Science.gov (United States)

Paul, Subir; Nagesh Kumar, D.

2018-04-01

Hyperspectral (HS) data comprises of continuous spectral responses of hundreds of narrow spectral bands with very fine spectral resolution or bandwidth, which offer feature identification and classification with high accuracy. In the present study, Mutual Information (MI) based Segmented Stacked Autoencoder (S-SAE) approach for spectral-spatial classification of the HS data is proposed to reduce the complexity and computational time compared to Stacked Autoencoder (SAE) based feature extraction. A non-parametric dependency measure (MI) based spectral segmentation is proposed instead of linear and parametric dependency measure to take care of both linear and nonlinear inter-band dependency for spectral segmentation of the HS bands. Then morphological profiles are created corresponding to segmented spectral features to assimilate the spatial information in the spectral-spatial classification approach. Two non-parametric classifiers, Support Vector Machine (SVM) with Gaussian kernel and Random Forest (RF) are used for classification of the three most popularly used HS datasets. Results of the numerical experiments carried out in this study have shown that SVM with a Gaussian kernel is providing better results for the Pavia University and Botswana datasets whereas RF is performing better for Indian Pines dataset. The experiments performed with the proposed methodology provide encouraging results compared to numerous existing approaches.

Morphological and physiological responses of two varieties of a highland species (Chenopodium quinoa Willd.) growing under near-ambient and strongly reduced solar UV-B in a lowland location.

Science.gov (United States)

González, Juan A; Rosa, Mariana; Parrado, María F; Hilal, Mirna; Prado, Fernando E

2009-08-03

Morphological and physiological responses of seedlings to different solar UV-B irradiances were evaluated in two varieties of quinoa (Chenopodium quinoa Willd.), a crop species from Andean region of South America. Cristalina and Chucapaca varieties were grown at 1965m a.s.l in a glasshouse under natural light conditions for 18 days, and then transferred to outdoors under near-ambient (+UV-B) and strongly reduced (-UV-B) solar UV-B radiation. Exposition to -UV-B increased cotyledon area and seedling height in Cristalina variety whereas leaf number decreased compared to +UV-B. By contrast Chucapaca variety was not affected by UV-B treatments. Seedling fresh weight (FW), root length and leaf thickness did not show significant differences between +UV-B and -UV-B treatments. Mesophyll tissue was slightly affected by solar UV-B reduction. Chlorophyll content was differentially affected by UV-B treatments. Under +UV-B the highest value was observed in Cristalina variety, while in Chucapaca it was observed under -UV-B treatment. Chlorophyll content was slightly higher in leaves than in cotyledons, but there was no difference in the distribution pattern. Chlorophyll a/b ratio and carotenoid content did not show significant differences between UV-B treatments. Leaf UVB-absorbing compounds showed significant differences between UV-B treatments in Chucapaca only, while there were no significant differences in Cristalina variety. UVB-absorbing compounds of cotyledons did not show significant differences between +UV-B and -UV-B treatments. Sucrose, glucose and fructose showed different distribution patterns in cotyledons and leaves of the two varieties under near-ambient and strongly reduced UV-B. Results demonstrated that varieties of quinoa exhibit different morphological and physiological responses to changes in solar UV-B irradiance, but these responses cannot be used to predict the sensitivity to solar UV-B during a short-term exposition. Also, this study can be useful to

Application of physiological parameters of a sample of the Brazilian population in different levels of exercise, on the deposition model of the ICRP Publication 66

International Nuclear Information System (INIS)

Reis, Arlene A. dos; Cardoso, Joaquim C.S.; Lourenco, Maria C.

2005-01-01

The Human Respiratory Tract Model (HRTM) proposed by the ICRP Publication 66 accounts for the morphology and physiology of the respiratory tract. The characteristics of air drawn into the lungs and exhaled are greatly influenced by the morphology of the respiratory tract, which causes numerous changes in pressure, flow rate, direction and humidity as air moves into and out of the lungs. The model uses morphological and physiological parameters from the Caucasian man to establish deposition fractions in the respiratory tract regions. The ICRP recommends, for a reliable evaluation of the regional deposition, the use of parameters from a local population when information is available. The main purpose of this study is to verify the influence in using the morphology and physiology parameters representative of a sample of the Brazilian population, in different levels of exercise, on the deposition model of the ICRP Publication 66. The deposition model was implemented using software Excel for Windows (version 2000). The results suggest a significant variation in fractional deposition when Brazilian parameters are applied in the model. The variations are not the same for all regions of the respiratory tract and depend on levels of exercise. (author)

ALS/FTLD-linked TDP-43 regulates neurite morphology and cell survival in differentiated neurons

International Nuclear Information System (INIS)

Han, Jeong-Ho; Yu, Tae-Hoon; Ryu, Hyun-Hee; Jun, Mi-Hee; Ban, Byung-Kwan; Jang, Deok-Jin; Lee, Jin-A

2013-01-01

Tar-DNA binding protein of 43 kDa (TDP-43) has been characterized as a major component of protein aggregates in brains with neurodegenerative diseases such as frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS). However, physiological roles of TDP-43 and early cellular pathogenic effects caused by disease associated mutations in differentiated neurons are still largely unknown. Here, we investigated the physiological roles of TDP-43 and the effects of missense mutations associated with diseases in differentiated cortical neurons. The reduction of TDP-43 by siRNA increased abnormal neurites and decreased cell viability. ALS/FTLD-associated missense mutant proteins (A315T, Q331K, and M337V) were partially mislocalized to the cytosol and neurites when compared to wild-type and showed abnormal neurites similar to those observed in cases of loss of TDP-43. Interestingly, cytosolic expression of wild-type TDP-43 with mutated nuclear localization signals also induced abnormal neurtie morphology and reduction of cell viability. However, there was no significant difference in the effects of cytosolic expression in neuronal morphology and cell toxicity between wild-type and missense mutant proteins. Thus, our results suggest that mislocalization of missense mutant TDP-43 may contribute to loss of TDP-43 function and affect neuronal morphology, probably via dominant negative action before severe neurodegeneration in differentiated cortical neurons. Highlights: • The function of nuclear TDP-43 in neurite morphology in mature neurons. • Partial mislocalization of TDP-43 missense mutants into cytosol from nucleus. • Abnormal neurite morphology caused by missense mutants of TDP-43. • The effect of cytosolic expression of TDP-43 in neurite morphology and in cell survival

ALS/FTLD-linked TDP-43 regulates neurite morphology and cell survival in differentiated neurons

Energy Technology Data Exchange (ETDEWEB)

Han, Jeong-Ho; Yu, Tae-Hoon; Ryu, Hyun-Hee; Jun, Mi-Hee; Ban, Byung-Kwan [Department of Biotechnology, College of Life Science and Nanotechnology, Hannam University, Dajeon 305-811 (Korea, Republic of); Jang, Deok-Jin [Department of Applied Biology, College of Ecology and Environment, Kyungpook National University, 386, Gajang-dong, Sangju-si, Kyungbuk 742-711 (Korea, Republic of); Lee, Jin-A, E-mail: leeja@hnu.kr [Department of Biotechnology, College of Life Science and Nanotechnology, Hannam University, Dajeon 305-811 (Korea, Republic of)

2013-08-01

Tar-DNA binding protein of 43 kDa (TDP-43) has been characterized as a major component of protein aggregates in brains with neurodegenerative diseases such as frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS). However, physiological roles of TDP-43 and early cellular pathogenic effects caused by disease associated mutations in differentiated neurons are still largely unknown. Here, we investigated the physiological roles of TDP-43 and the effects of missense mutations associated with diseases in differentiated cortical neurons. The reduction of TDP-43 by siRNA increased abnormal neurites and decreased cell viability. ALS/FTLD-associated missense mutant proteins (A315T, Q331K, and M337V) were partially mislocalized to the cytosol and neurites when compared to wild-type and showed abnormal neurites similar to those observed in cases of loss of TDP-43. Interestingly, cytosolic expression of wild-type TDP-43 with mutated nuclear localization signals also induced abnormal neurtie morphology and reduction of cell viability. However, there was no significant difference in the effects of cytosolic expression in neuronal morphology and cell toxicity between wild-type and missense mutant proteins. Thus, our results suggest that mislocalization of missense mutant TDP-43 may contribute to loss of TDP-43 function and affect neuronal morphology, probably via dominant negative action before severe neurodegeneration in differentiated cortical neurons. Highlights: • The function of nuclear TDP-43 in neurite morphology in mature neurons. • Partial mislocalization of TDP-43 missense mutants into cytosol from nucleus. • Abnormal neurite morphology caused by missense mutants of TDP-43. • The effect of cytosolic expression of TDP-43 in neurite morphology and in cell survival.

Cell dynamic morphology classification using deep convolutional neural networks.

Science.gov (United States)

Li, Heng; Pang, Fengqian; Shi, Yonggang; Liu, Zhiwen

2018-05-15

Cell morphology is often used as a proxy measurement of cell status to understand cell physiology. Hence, interpretation of cell dynamic morphology is a meaningful task in biomedical research. Inspired by the recent success of deep learning, we here explore the application of convolutional neural networks (CNNs) to cell dynamic morphology classification. An innovative strategy for the implementation of CNNs is introduced in this study. Mouse lymphocytes were collected to observe the dynamic morphology, and two datasets were thus set up to investigate the performances of CNNs. Considering the installation of deep learning, the classification problem was simplified from video data to image data, and was then solved by CNNs in a self-taught manner with the generated image data. CNNs were separately performed in three installation scenarios and compared with existing methods. Experimental results demonstrated the potential of CNNs in cell dynamic morphology classification, and validated the effectiveness of the proposed strategy. CNNs were successfully applied to the classification problem, and outperformed the existing methods in the classification accuracy. For the installation of CNNs, transfer learning was proved to be a promising scheme. © 2018 International Society for Advancement of Cytometry. © 2018 International Society for Advancement of Cytometry.

Fast vessel segmentation in retinal images using multi-scale enhancement and second-order local entropy

Science.gov (United States)

Yu, H.; Barriga, S.; Agurto, C.; Zamora, G.; Bauman, W.; Soliz, P.

2012-03-01

Retinal vasculature is one of the most important anatomical structures in digital retinal photographs. Accurate segmentation of retinal blood vessels is an essential task in automated analysis of retinopathy. This paper presents a new and effective vessel segmentation algorithm that features computational simplicity and fast implementation. This method uses morphological pre-processing to decrease the disturbance of bright structures and lesions before vessel extraction. Next, a vessel probability map is generated by computing the eigenvalues of the second derivatives of Gaussian filtered image at multiple scales. Then, the second order local entropy thresholding is applied to segment the vessel map. Lastly, a rule-based decision step, which measures the geometric shape difference between vessels and lesions is applied to reduce false positives. The algorithm is evaluated on the low-resolution DRIVE and STARE databases and the publicly available high-resolution image database from Friedrich-Alexander University Erlangen-Nuremberg, Germany). The proposed method achieved comparable performance to state of the art unsupervised vessel segmentation methods with a competitive faster speed on the DRIVE and STARE databases. For the high resolution fundus image database, the proposed algorithm outperforms an existing approach both on performance and speed. The efficiency and robustness make the blood vessel segmentation method described here suitable for broad application in automated analysis of retinal images.

Deformable meshes for medical image segmentation accurate automatic segmentation of anatomical structures

CERN Document Server

Kainmueller, Dagmar

2014-01-01

? Segmentation of anatomical structures in medical image data is an essential task in clinical practice. Dagmar Kainmueller introduces methods for accurate fully automatic segmentation of anatomical structures in 3D medical image data. The author's core methodological contribution is a novel deformation model that overcomes limitations of state-of-the-art Deformable Surface approaches, hence allowing for accurate segmentation of tip- and ridge-shaped features of anatomical structures. As for practical contributions, she proposes application-specific segmentation pipelines for a range of anatom

Physiological interpretation of Doppler shift waveforms: the femorodistal segment in combined disease.

Science.gov (United States)

Campbell, W B; Baird, R N; Cole, S E; Evans, J M; Skidmore, R; Woodcock, J P

1983-01-01

A new method is presented for assessing the femorodistal segment in multisegmental arterial disease, using the Laplace transform technique of Doppler waveform analysis. Blood velocity/time waveforms were obtained at femoral and ankle levels in three groups of limbs--50 without arterial disease, 12 with isolated aortoiliac stenoses, and 32 with femoropopliteal occlusions, with and without proximal disease. The waveforms were analysed for Laplace transform and pulsatility index values. The omega 0 coefficients of the Laplace transform analysis at femoral and ankle levels were compared in each subject, as the omega 0 gradient (femoral/ankle omega 0): and pulsatility index damping factor (femoral/ankle P1) was also calculated. The omega 0 gradient was shown to detect femoropopliteal occlusion in the presence of multisegmental arterial disease and to give some indication of its haemodynamic significance. The diagnostic accuracy of the omega 0 gradient was superior to that of pulsatility index damping factor. When combined with its existing ability to detect aortoiliac stenosis, this new application of the Laplace transform method offers the possibility both of a system for complete localisation of significant arterial lesions, and potential for follow-up of vascular surgical procedures in the lower limb, from two simple Doppler recordings.

Cerebrovascular plaque segmentation using object class uncertainty snake in MR images

Science.gov (United States)

Das, Bipul; Saha, Punam K.; Wolf, Ronald; Song, Hee Kwon; Wright, Alexander C.; Wehrli, Felix W.

2005-04-01

Atherosclerotic cerebrovascular disease leads to formation of lipid-laden plaques that can form emboli when ruptured causing blockage to cerebral vessels. The clinical manifestation of this event sequence is stroke; a leading cause of disability and death. In vivo MR imaging provides detailed image of vascular architecture for the carotid artery making it suitable for analysis of morphological features. Assessing the status of carotid arteries that supplies blood to the brain is of primary interest to such investigations. Reproducible quantification of carotid artery dimensions in MR images is essential for plaque analysis. Manual segmentation being the only method presently makes it time consuming and sensitive to inter and intra observer variability. This paper presents a deformable model for lumen and vessel wall segmentation of carotid artery from MR images. The major challenges of carotid artery segmentation are (a) low signal-to-noise ratio, (b) background intensity inhomogeneity and (c) indistinct inner and/or outer vessel wall. We propose a new, effective object-class uncertainty based deformable model with additional features tailored toward this specific application. Object-class uncertainty optimally utilizes MR intensity characteristics of various anatomic entities that enable the snake to avert leakage through fuzzy boundaries. To strengthen the deformable model for this application, some other properties are attributed to it in the form of (1) fully arc-based deformation using a Gaussian model to maximally exploit vessel wall smoothness, (2) construction of a forbidden region for outer-wall segmentation to reduce interferences by prominent lumen features and (3) arc-based landmark for efficient user interaction. The algorithm has been tested upon T1- and PD- weighted images. Measures of lumen area and vessel wall area are computed from segmented data of 10 patient MR images and their accuracy and reproducibility are examined. These results correspond

Rapid Automated Target Segmentation and Tracking on 4D Data without Initial Contours

Directory of Open Access Journals (Sweden)

Venkata V. Chebrolu

2014-01-01

Full Text Available Purpose. To achieve rapid automated delineation of gross target volume (GTV and to quantify changes in volume/position of the target for radiotherapy planning using four-dimensional (4D CT. Methods and Materials. Novel morphological processing and successive localization (MPSL algorithms were designed and implemented for achieving autosegmentation. Contours automatically generated using MPSL method were compared with contours generated using state-of-the-art deformable registration methods (using Elastix© and MIMVista software. Metrics such as the Dice similarity coefficient, sensitivity, and positive predictive value (PPV were analyzed. The target motion tracked using the centroid of the GTV estimated using MPSL method was compared with motion tracked using deformable registration methods. Results. MPSL algorithm segmented the GTV in 4DCT images in 27.0±11.1 seconds per phase (512×512 resolution as compared to 142.3±11.3 seconds per phase for deformable registration based methods in 9 cases. Dice coefficients between MPSL generated GTV contours and manual contours (considered as ground-truth were 0.865±0.037. In comparison, the Dice coefficients between ground-truth and contours generated using deformable registration based methods were 0.909 ± 0.051. Conclusions. The MPSL method achieved similar segmentation accuracy as compared to state-of-the-art deformable registration based segmentation methods, but with significant reduction in time required for GTV segmentation.

Rapid Automated Target Segmentation and Tracking on 4D Data without Initial Contours.

Science.gov (United States)

Chebrolu, Venkata V; Saenz, Daniel; Tewatia, Dinesh; Sethares, William A; Cannon, George; Paliwal, Bhudatt R

2014-01-01

Purpose. To achieve rapid automated delineation of gross target volume (GTV) and to quantify changes in volume/position of the target for radiotherapy planning using four-dimensional (4D) CT. Methods and Materials. Novel morphological processing and successive localization (MPSL) algorithms were designed and implemented for achieving autosegmentation. Contours automatically generated using MPSL method were compared with contours generated using state-of-the-art deformable registration methods (using Elastix© and MIMVista software). Metrics such as the Dice similarity coefficient, sensitivity, and positive predictive value (PPV) were analyzed. The target motion tracked using the centroid of the GTV estimated using MPSL method was compared with motion tracked using deformable registration methods. Results. MPSL algorithm segmented the GTV in 4DCT images in 27.0 ± 11.1 seconds per phase (512 × 512 resolution) as compared to 142.3 ± 11.3 seconds per phase for deformable registration based methods in 9 cases. Dice coefficients between MPSL generated GTV contours and manual contours (considered as ground-truth) were 0.865 ± 0.037. In comparison, the Dice coefficients between ground-truth and contours generated using deformable registration based methods were 0.909 ± 0.051. Conclusions. The MPSL method achieved similar segmentation accuracy as compared to state-of-the-art deformable registration based segmentation methods, but with significant reduction in time required for GTV segmentation.

Quantitative characterization of metastatic disease in the spine. Part I. Semiautomated segmentation using atlas-based deformable registration and the level set method

International Nuclear Information System (INIS)

Hardisty, M.; Gordon, L.; Agarwal, P.; Skrinskas, T.; Whyne, C.

2007-01-01

Quantitative assessment of metastatic disease in bone is often considered immeasurable and, as such, patients with skeletal metastases are often excluded from clinical trials. In order to effectively quantify the impact of metastatic tumor involvement in the spine, accurate segmentation of the vertebra is required. Manual segmentation can be accurate but involves extensive and time-consuming user interaction. Potential solutions to automating segmentation of metastatically involved vertebrae are demons deformable image registration and level set methods. The purpose of this study was to develop a semiautomated method to accurately segment tumor-bearing vertebrae using the aforementioned techniques. By maintaining morphology of an atlas, the demons-level set composite algorithm was able to accurately differentiate between trans-cortical tumors and surrounding soft tissue of identical intensity. The algorithm successfully segmented both the vertebral body and trabecular centrum of tumor-involved and healthy vertebrae. This work validates our approach as equivalent in accuracy to an experienced user

Functional Morphology of Venom Apparatus of Euscorpius mingrelicus(Scorpiones: Euscorpiidae)

OpenAIRE

YİĞİT, Nazife; BAYRAM, Abdullah; DANIŞMAN, Tarık

2007-01-01

The objective of the present study is to describe the functional morphology of venom apparatus of Euscorpius mingrelicus (Kessler, 1874) by using light microscope and scanning electron microscope (SEM). The venom apparatus, situates in the last segment of metasoma (telson), is composed of a pair of venom glands and sting. Telson is covered by cuticular exoskeleton as well as all body, and there are cuticular setae and pits on it as serve sensory organ. The general organization of the venom ap...

Speaker segmentation and clustering

OpenAIRE

Kotti, M; Moschou, V; Kotropoulos, C

2008-01-01

07.08.13 KB. Ok to add the accepted version to Spiral, Elsevier says ok whlile mandate not enforced. This survey focuses on two challenging speech processing topics, namely: speaker segmentation and speaker clustering. Speaker segmentation aims at finding speaker change points in an audio stream, whereas speaker clustering aims at grouping speech segments based on speaker characteristics. Model-based, metric-based, and hybrid speaker segmentation algorithms are reviewed. Concerning speaker...

Ambient occlusion - A powerful algorithm to segment shell and skeletal intrapores in computed tomography data

Science.gov (United States)

Titschack, J.; Baum, D.; Matsuyama, K.; Boos, K.; Färber, C.; Kahl, W.-A.; Ehrig, K.; Meinel, D.; Soriano, C.; Stock, S. R.

2018-06-01

During the last decades, X-ray (micro-)computed tomography has gained increasing attention for the description of porous skeletal and shell structures of various organism groups. However, their quantitative analysis is often hampered by the difficulty to discriminate cavities and pores within the object from the surrounding region. Herein, we test the ambient occlusion (AO) algorithm and newly implemented optimisations for the segmentation of cavities (implemented in the software Amira). The segmentation accuracy is evaluated as a function of (i) changes in the ray length input variable, and (ii) the usage of AO (scalar) field and other AO-derived (scalar) fields. The results clearly indicate that the AO field itself outperforms all other AO-derived fields in terms of segmentation accuracy and robustness against variations in the ray length input variable. The newly implemented optimisations improved the AO field-based segmentation only slightly, while the segmentations based on the AO-derived fields improved considerably. Additionally, we evaluated the potential of the AO field and AO-derived fields for the separation and classification of cavities as well as skeletal structures by comparing them with commonly used distance-map-based segmentations. For this, we tested the zooid separation within a bryozoan colony, the stereom classification of an ophiuroid tooth, the separation of bioerosion traces within a marble block and the calice (central cavity)-pore separation within a dendrophyllid coral. The obtained results clearly indicate that the ideal input field depends on the three-dimensional morphology of the object of interest. The segmentations based on the AO-derived fields often provided cavity separations and skeleton classifications that were superior to or impossible to obtain with commonly used distance-map-based segmentations. The combined usage of various AO-derived fields by supervised or unsupervised segmentation algorithms might provide a promising

Exploring tectonomagmatic controls on mid-ocean ridge faulting and morphology with 3-D numerical models

Science.gov (United States)

Howell, S. M.; Ito, G.; Behn, M. D.; Olive, J. A. L.; Kaus, B.; Popov, A.; Mittelstaedt, E. L.; Morrow, T. A.

2016-12-01

Previous two-dimensional (2-D) modeling studies of abyssal-hill scale fault generation and evolution at mid-ocean ridges have predicted that M, the ratio of magmatic to total extension, strongly influences the total slip, spacing, and rotation of large faults, as well as the morphology of the ridge axis. Scaling relations derived from these 2-D models broadly explain the globally observed decrease in abyssal hill spacing with increasing ridge spreading rate, as well as the formation of large-offset faults close to the ends of slow-spreading ridge segments. However, these scaling relations do not explain some higher resolution observations of segment-scale variability in fault spacing along the Chile Ridge and the Mid-Atlantic Ridge, where fault spacing shows no obvious correlation with M. This discrepancy between observations and 2-D model predictions illuminates the need for three-dimensional (3-D) numerical models that incorporate the effects of along-axis variations in lithospheric structure and magmatic accretion. To this end, we use the geodynamic modeling software LaMEM to simulate 3-D tectono-magmatic interactions in a visco-elasto-plastic lithosphere under extension. We model a single ridge segment subjected to an along-axis gradient in the rate of magma injection, which is simulated by imposing a mass source in a plane of model finite volumes beneath the ridge axis. Outputs of interest include characteristic fault offset, spacing, and along-axis gradients in seafloor morphology. We also examine the effects of along-axis variations in lithospheric thickness and off-axis thickening rate. The main objectives of this study are to quantify the relative importance of the amount of magmatic extension and the local lithospheric structure at a given along-axis location, versus the importance of along-axis communication of lithospheric stresses on the 3-D fault evolution and morphology of intermediate-spreading-rate ridges.

Segmentation of the Infant Food Market

OpenAIRE

Hrůzová, Daniela

2015-01-01

The theoretical part covers general market segmentation, namely the marketing importance of differences among consumers, the essence of market segmentation, its main conditions and the process of segmentation, which consists of four consecutive phases - defining the market, determining important criteria, uncovering segments and developing segment profiles. The segmentation criteria, segmentation approaches, methods and techniques for the process of market segmentation are also described in t...

Pancreas and cyst segmentation

Science.gov (United States)

Dmitriev, Konstantin; Gutenko, Ievgeniia; Nadeem, Saad; Kaufman, Arie

2016-03-01

Accurate segmentation of abdominal organs from medical images is an essential part of surgical planning and computer-aided disease diagnosis. Many existing algorithms are specialized for the segmentation of healthy organs. Cystic pancreas segmentation is especially challenging due to its low contrast boundaries, variability in shape, location and the stage of the pancreatic cancer. We present a semi-automatic segmentation algorithm for pancreata with cysts. In contrast to existing automatic segmentation approaches for healthy pancreas segmentation which are amenable to atlas/statistical shape approaches, a pancreas with cysts can have even higher variability with respect to the shape of the pancreas due to the size and shape of the cyst(s). Hence, fine results are better attained with semi-automatic steerable approaches. We use a novel combination of random walker and region growing approaches to delineate the boundaries of the pancreas and cysts with respective best Dice coefficients of 85.1% and 86.7%, and respective best volumetric overlap errors of 26.0% and 23.5%. Results show that the proposed algorithm for pancreas and pancreatic cyst segmentation is accurate and stable.

Phasing multi-segment undulators

International Nuclear Information System (INIS)

Chavanne, J.; Elleaume, P.; Vaerenbergh, P. Van

1996-01-01

An important issue in the manufacture of multi-segment undulators as a source of synchrotron radiation or as a free-electron laser (FEL) is the phasing between successive segments. The state of the art is briefly reviewed, after which a novel pure permanent magnet phasing section that is passive and does not require any current is presented. The phasing section allows the introduction of a 6 mm longitudinal gap between each segment, resulting in complete mechanical independence and reduced magnetic interaction between segments. The tolerance of the longitudinal positioning of one segment with respect to the next is found to be 2.8 times lower than that of conventional phasing. The spectrum at all gaps and useful harmonics is almost unchanged when compared with a single-segment undulator of the same total length. (au) 3 refs

Aqueous Angiography: Real-Time and Physiologic Aqueous Humor Outflow Imaging.

Directory of Open Access Journals (Sweden)

Sindhu Saraswathy

Full Text Available Trabecular meshwork (TM bypass surgeries attempt to enhance aqueous humor outflow (AHO to lower intraocular pressure (IOP. While TM bypass results are promising, inconsistent success is seen. One hypothesis for this variability rests upon segmental (non-360 degrees uniform AHO. We describe aqueous angiography as a real-time and physiologic AHO imaging technique in model eyes as a way to simulate live AHO imaging.Pig (n = 46 and human (n = 6 enucleated eyes were obtained, orientated based upon inferior oblique insertion, and pre-perfused with balanced salt solution via a Lewicky AC maintainer through a 1mm side-port. Fluorescein (2.5% was introduced intracamerally at 10 or 30 mm Hg. With an angiographer, infrared and fluorescent (486 nm images were acquired. Image processing allowed for collection of pixel information based on intensity or location for statistical analyses. Concurrent OCT was performed, and fixable fluorescent dextrans were introduced into the eye for histological analysis of angiographically active areas.Aqueous angiography yielded high quality images with segmental patterns (p<0.0001; Kruskal-Wallis test. No single quadrant was consistently identified as the primary quadrant of angiographic signal (p = 0.06-0.86; Kruskal-Wallis test. Regions of high proximal signal did not necessarily correlate with regions of high distal signal. Angiographically positive but not negative areas demonstrated intrascleral lumens on OCT images. Aqueous angiography with fluorescent dextrans led to their trapping in AHO pathways.Aqueous angiography is a real-time and physiologic AHO imaging technique in model eyes.

FRAMEWORK FOR COMPARING SEGMENTATION ALGORITHMS

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G. Sithole

2015-05-01

Full Text Available The notion of a ‘Best’ segmentation does not exist. A segmentation algorithm is chosen based on the features it yields, the properties of the segments (point sets it generates, and the complexity of its algorithm. The segmentation is then assessed based on a variety of metrics such as homogeneity, heterogeneity, fragmentation, etc. Even after an algorithm is chosen its performance is still uncertain because the landscape/scenarios represented in a point cloud have a strong influence on the eventual segmentation. Thus selecting an appropriate segmentation algorithm is a process of trial and error. Automating the selection of segmentation algorithms and their parameters first requires methods to evaluate segmentations. Three common approaches for evaluating segmentation algorithms are ‘goodness methods’, ‘discrepancy methods’ and ‘benchmarks’. Benchmarks are considered the most comprehensive method of evaluation. This paper shortcomings in current benchmark methods are identified and a framework is proposed that permits both a visual and numerical evaluation of segmentations for different algorithms, algorithm parameters and evaluation metrics. The concept of the framework is demonstrated on a real point cloud. Current results are promising and suggest that it can be used to predict the performance of segmentation algorithms.

Segment-Tube: Spatio-Temporal Action Localization in Untrimmed Videos with Per-Frame Segmentation

OpenAIRE

Le Wang; Xuhuan Duan; Qilin Zhang; Zhenxing Niu; Gang Hua; Nanning Zheng

2018-01-01

Inspired by the recent spatio-temporal action localization efforts with tubelets (sequences of bounding boxes), we present a new spatio-temporal action localization detector Segment-tube, which consists of sequences of per-frame segmentation masks. The proposed Segment-tube detector can temporally pinpoint the starting/ending frame of each action category in the presence of preceding/subsequent interference actions in untrimmed videos. Simultaneously, the Segment-tube detector produces per-fr...

Contributions to knowledge of the continental margin of Uruguay. Uruguayan continental margin: morphology, geology and identification of the base of the slope

International Nuclear Information System (INIS)

Preciozzi, F.

2014-01-01

This work is about the morphology, geology and the identification of the base of the slope in the The Uruguayan continental margin which corresponds to the the type of divergent, volcanic and segmented margins. Morphologically is constituted by a clearly defined continental shelf, as well as a continental slope that presents configuration changes from north to south and passes directly to the abyssal plain

THE EFFECTS OF PRACTICAL TEACHING ON STUDENTS’ MORPHOLOGICAL DIMENSIONS

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Ratko Pavlović

2010-03-01

Full Text Available The anthropological space of a human being is multidimensional and as such susceptible to certain transformational processes, especially if these processes serve to accomplish a clearly defined goal. One of the features of anthropological space, rather susceptible to changes, is a morphological space and, in particular, some segments of it. The research is carried out on the sample of ninety freshmen. The effects of practical teaching on students’ morphological dimensions were studied during one semester. It was necessary to use ten different variables for this research, out of which six variables were used to define voluminousness and body mass, and five variables for defining subcutaneous fat tissue. In order to obtain relevant information we applied univariant and multivariante analysis of the variance (ANOVA/MANOVA, which confirmed positive effects of the teaching and statistically relevant transformation of a change in relation to the initial condition of a respondent.

Texture-based segmentation with Gabor filters, wavelet and pyramid decompositions for extracting individual surface features from areal surface topography maps

International Nuclear Information System (INIS)

Senin, Nicola; Leach, Richard K; Pini, Stefano; Blunt, Liam A

2015-01-01

Areal topography segmentation plays a fundamental role in those surface metrology applications concerned with the characterisation of individual topography features. Typical scenarios include the dimensional inspection and verification of micro-structured surface features, and the identification and characterisation of localised defects and other random singularities. While morphological segmentation into hills or dales is the only partitioning operation currently endorsed by the ISO specification standards on surface texture metrology, many other approaches are possible, in particular adapted from the literature on digital image segmentation. In this work an original segmentation approach is introduced and discussed, where topography partitioning is driven by information collected through the application of texture characterisation transforms popular in digital image processing. Gabor filters, wavelets and pyramid decompositions are investigated and applied to a selected set of test cases. The behaviour, performance and limitations of the proposed approach are discussed from the viewpoint of the identification and extraction of individual surface topography features. (paper)

The EADC-ADNI Harmonized Protocol for manual hippocampal segmentation on magnetic resonance: Evidence of validity

Science.gov (United States)

Frisoni, Giovanni B.; Jack, Clifford R.; Bocchetta, Martina; Bauer, Corinna; Frederiksen, Kristian S.; Liu, Yawu; Preboske, Gregory; Swihart, Tim; Blair, Melanie; Cavedo, Enrica; Grothe, Michel J.; Lanfredi, Mariangela; Martinez, Oliver; Nishikawa, Masami; Portegies, Marileen; Stoub, Travis; Ward, Chadwich; Apostolova, Liana G.; Ganzola, Rossana; Wolf, Dominik; Barkhof, Frederik; Bartzokis, George; DeCarli, Charles; Csernansky, John G.; deToledo-Morrell, Leyla; Geerlings, Mirjam I.; Kaye, Jeffrey; Killiany, Ronald J.; Lehéricy, Stephane; Matsuda, Hiroshi; O'Brien, John; Silbert, Lisa C.; Scheltens, Philip; Soininen, Hilkka; Teipel, Stefan; Waldemar, Gunhild; Fellgiebel, Andreas; Barnes, Josephine; Firbank, Michael; Gerritsen, Lotte; Henneman, Wouter; Malykhin, Nikolai; Pruessner, Jens C.; Wang, Lei; Watson, Craig; Wolf, Henrike; deLeon, Mony; Pantel, Johannes; Ferrari, Clarissa; Bosco, Paolo; Pasqualetti, Patrizio; Duchesne, Simon; Duvernoy, Henri; Boccardi, Marina

2015-01-01

Background An international Delphi panel has defined a harmonized protocol (HarP) for the manual segmentation of the hippocampus on MR. The aim of this study is to study the concurrent validity of the HarP toward local protocols, and its major sources of variance. Methods Fourteen tracers segmented 10 Alzheimer's Disease Neuroimaging Initiative (ADNI) cases scanned at 1.5 T and 3T following local protocols, qualified for segmentation based on the HarP through a standard web-platform and resegmented following the HarP. The five most accurate tracers followed the HarP to segment 15 ADNI cases acquired at three time points on both 1.5 T and 3T. Results The agreement among tracers was relatively low with the local protocols (absolute left/right ICC 0.44/0.43) and much higher with the HarP (absolute left/right ICC 0.88/0.89). On the larger set of 15 cases, the HarP agreement within (left/right ICC range: 0.94/0.95 to 0.99/0.99) and among tracers (left/right ICC range: 0.89/0.90) was very high. The volume variance due to different tracers was 0.9% of the total, comparing favorably to variance due to scanner manufacturer (1.2), atrophy rates (3.5), hemispheric asymmetry (3.7), field strength (4.4), and significantly smaller than the variance due to atrophy (33.5%, P < .001), and physiological variability (49.2%, P < .001). Conclusions The HarP has high measurement stability compared with local segmentation protocols, and good reproducibility within and among human tracers. Hippocampi segmented with the HarP can be used as a reference for the qualification of human tracers and automated segmentation algorithms. PMID:25267715

Morphological rational multi-scale algorithm for color contrast enhancement

Science.gov (United States)

Peregrina-Barreto, Hayde; Terol-Villalobos, Iván R.

2010-01-01

Contrast enhancement main goal consists on improving the image visual appearance but also it is used for providing a transformed image in order to segment it. In mathematical morphology several works have been derived from the framework theory for contrast enhancement proposed by Meyer and Serra. However, when working with images with a wide range of scene brightness, as for example when strong highlights and deep shadows appear in the same image, the proposed morphological methods do not allow the enhancement. In this work, a rational multi-scale method, which uses a class of morphological connected filters called filters by reconstruction, is proposed. Granulometry is used by finding the more accurate scales for filters and with the aim of avoiding the use of other little significant scales. The CIE-u'v'Y' space was used to introduce our results since it takes into account the Weber's Law and by avoiding the creation of new colors it permits to modify the luminance values without affecting the hue. The luminance component ('Y) is enhanced separately using the proposed method, next it is used for enhancing the chromatic components (u', v') by means of the center of gravity law of color mixing.

Segmentation of retinal blood vessels for detection of diabetic retinopathy: A review

Directory of Open Access Journals (Sweden)

Rezty Amalia Aras

2016-05-01

Full Text Available Diabetic detinopathy (DR is effect of diabetes mellitus to the human vision that is the major cause of blindness. Early diagnosis of DR is an important requirement in diabetes treatment. Retinal fundus image is commonly used to observe the diabetic retinopathy symptoms. It can present retinal features such as blood vessel and also capture the pathologies which may lead to DR. Blood vessel is one of retinal features which can show the retina pathologies. It can be extracted from retinal image by image processing with following stages: pre-processing, segmentation, and post-processing. This paper contains a review of public retinal image dataset and several methods from various conducted researches. All discussed methods are applicable to each researcher cases. There is no further analysis to conclude the best method which can be used for general cases. However, we suggest morphological and multiscale method that gives the best accuracy in segmentation.

Influence of Hard Segments on the Thermal, Phase-Separated Morphology, Mechanical, and Biological Properties of Polycarbonate Urethanes

Directory of Open Access Journals (Sweden)

Rong Zhu

2017-03-01

Full Text Available Abstract: In this study, we have fabricated a series of polycarbonate polyurethanes using a two-step bulk reaction by the melting pre-polymer solution-casting method in order to synthesize biomedical polyurethane elastomers with good mechanical behavior and biostability. The polyurethanes were prepared using dibutyltin dilaurate as the catalyst, poly(1,6-hexanediolcarbonate microdiols (PCDL as the soft segment, and the chain extender 1,4-butanediol (BDO and aliphatic 1,6-hexamethylene diisocyanate (HDI as the hard segments. The chemical structures and physical properties of the obtained films were characterized by attenuated total reflectance Fourier transform infrared (ATR-FTIR spectroscopy, gel permeation chromatography (GPC, differential scanning calorimeter (DSC, and mechanical property tests. The surface properties and degrees of microphase separation were further analyzed by water droplet contact angle measurements (CA and atomic force microscopy (AFM. The materials exhibited a moderate toxic effect on the tetrazolium (MTT assay and good hemocompatibility through hemolytic tests, indicating a good biocompatibility of the fabricated membranes. The materials could be considered as potential and beneficial suitable materials for tissue engineering, especially in the fields of artificial blood-contacting implants or other biomedical applications.

Morphological, physiological, cytological and phytochemical studies in diploid and colchicine-induced tetraploid plants of Fagopyrum tataricum (L.) Gaertn.

Science.gov (United States)

Wang, Lin-Jiao; Sheng, Mao-Yin; Wen, Pei-Cai; Du, Jia-Ying

2017-12-01

Tartary buckwheat are very popular as an important functional food material and its cultivation is very widespread in our whole world, but there obviously lack works in the researches of genetic breeding for agricultural and medicinal utilization. The aim of this study is to obtain good germplasm resources for agricultural and medicinal use of tartary buckwheat (Fagopyrum tataricum) by inducing the tetraploid plants. Four cultivars of F. tataricum, that is, Qianwei 2#, Jinku 2#, Chuanqiao 1#, and Liuqiao 1# were selected to experiment. The tips of seedlings with two true leaves were treated by 0.25% (w/v) colchicine solution for 48, 72, and 96 h, respectively. The chromosome number of treated plants was determined by metaphase chromosome counting of root tip cells and PMCs (pollen mother cells) meiosis observation. Tetraploid induction successfully occurred in all three treatments with an efficiency ranging from 12.13 to 54.55%. The chromosome number of the diploid plants was 2n = 2x = 16, and that of the induced tetraploid plants was 2n = 4x = 32. The typical morphological and physiological qualities were compared between the control diploid and corresponding induced tetraploid plants. Results showed that the induced tetraploid plants had obviously larger leaves, flowers, and seeds. Moreover, the content of seed protein and flavonoid were also increased in the tetraploid plants. The pollen diameter and capsule size of diploid plants were significantly smaller than those of tetraploid plants. Fagopyrum tataricum can be effectively induced into tetraploids by colchicines. The tetraploid induction can produce valuable germplasm resources for breeding and is a practicable breeding way in F. tataricum.

Fabrication and characterization of single segment CoNiP and multisegment CoNiP/Au nanowires

International Nuclear Information System (INIS)

Luu Van Thiem; Le Tuan Tu

2014-01-01

This paper presents the fabrication of CoNiP single segment and CoNiP/Au multisegment nanowires. We have fabricated these nanowires by electrodeposition method into polycarbonate templates with a nominal pore diameter about 100 nm. The hysteresis loops were measured with the applied magnetic field parallel and perpendicular to the wire axis using a vibrating sample magnetometer (VSM). The structure morphology was observed by Scanning Electron Microscopy (SEM) and the element composition of CoNiP/Au multisegment nanowires were analyzed by EDS. The results show that nanowires are very uniform with the diameter of 100 nm. The observed coercivity (H C ) and squareness (Mr/Ms) of CoNiP single segment nanowires are larger than the CoNiP/Au multisegment nanowires. (author)

Automatic Craniomaxillofacial Landmark Digitization via Segmentation-guided Partially-joint Regression Forest Model and Multi-scale Statistical Features

Science.gov (United States)

Zhang, Jun; Gao, Yaozong; Wang, Li; Tang, Zhen; Xia, James J.; Shen, Dinggang

2016-01-01

Objective The goal of this paper is to automatically digitize craniomaxillofacial (CMF) landmarks efficiently and accurately from cone-beam computed tomography (CBCT) images, by addressing the challenge caused by large morphological variations across patients and image artifacts of CBCT images. Methods We propose a Segmentation-guided Partially-joint Regression Forest (S-PRF) model to automatically digitize CMF landmarks. In this model, a regression voting strategy is first adopted to localize each landmark by aggregating evidences from context locations, thus potentially relieving the problem caused by image artifacts near the landmark. Second, CBCT image segmentation is utilized to remove uninformative voxels caused by morphological variations across patients. Third, a partially-joint model is further proposed to separately localize landmarks based on the coherence of landmark positions to improve the digitization reliability. In addition, we propose a fast vector quantization (VQ) method to extract high-level multi-scale statistical features to describe a voxel's appearance, which has low dimensionality, high efficiency, and is also invariant to the local inhomogeneity caused by artifacts. Results Mean digitization errors for 15 landmarks, in comparison to the ground truth, are all less than 2mm. Conclusion Our model has addressed challenges of both inter-patient morphological variations and imaging artifacts. Experiments on a CBCT dataset show that our approach achieves clinically acceptable accuracy for landmark digitalization. Significance Our automatic landmark digitization method can be used clinically to reduce the labor cost and also improve digitalization consistency. PMID:26625402

Improving left ventricular segmentation in four-dimensional flow MRI using intramodality image registration for cardiac blood flow analysis.

Science.gov (United States)

Gupta, Vikas; Bustamante, Mariana; Fredriksson, Alexandru; Carlhäll, Carl-Johan; Ebbers, Tino

2018-01-01

Assessment of blood flow in the left ventricle using four-dimensional flow MRI requires accurate left ventricle segmentation that is often hampered by the low contrast between blood and the myocardium. The purpose of this work is to improve left-ventricular segmentation in four-dimensional flow MRI for reliable blood flow analysis. The left ventricle segmentations are first obtained using morphological cine-MRI with better in-plane resolution and contrast, and then aligned to four-dimensional flow MRI data. This alignment is, however, not trivial due to inter-slice misalignment errors caused by patient motion and respiratory drift during breath-hold based cine-MRI acquisition. A robust image registration based framework is proposed to mitigate such errors automatically. Data from 20 subjects, including healthy volunteers and patients, was used to evaluate its geometric accuracy and impact on blood flow analysis. High spatial correspondence was observed between manually and automatically aligned segmentations, and the improvements in alignment compared to uncorrected segmentations were significant (P  0.05). Our results demonstrate the efficacy of the proposed approach in improving left-ventricular segmentation in four-dimensional flow MRI, and its potential for reliable blood flow analysis. Magn Reson Med 79:554-560, 2018. © 2017 International Society for Magnetic Resonance in Medicine. © 2017 International Society for Magnetic Resonance in Medicine.

Segmentation of vessels cluttered with cells using a physics based model.

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Schmugge, Stephen J; Keller, Steve; Nguyen, Nhat; Souvenir, Richard; Huynh, Toan; Clemens, Mark; Shin, Min C

2008-01-01

Segmentation of vessels in biomedical images is important as it can provide insight into analysis of vascular morphology, topology and is required for kinetic analysis of flow velocity and vessel permeability. Intravital microscopy is a powerful tool as it enables in vivo imaging of both vasculature and circulating cells. However, the analysis of vasculature in those images is difficult due to the presence of cells and their image gradient. In this paper, we provide a novel method of segmenting vessels with a high level of cell related clutter. A set of virtual point pairs ("vessel probes") are moved reacting to forces including Vessel Vector Flow (VVF) and Vessel Boundary Vector Flow (VBVF) forces. Incorporating the cell detection, the VVF force attracts the probes toward the vessel, while the VBVF force attracts the virtual points of the probes to localize the vessel boundary without being distracted by the image features of the cells. The vessel probes are moved according to Newtonian Physics reacting to the net of forces applied on them. We demonstrate the results on a set of five real in vivo images of liver vasculature cluttered by white blood cells. When compared against the ground truth prepared by the technician, the Root Mean Squared Error (RMSE) of segmentation with VVF and VBVF was 55% lower than the method without VVF and VBVF.

Stereological estimate of the total number of neurons in spinal segment D9 of the red-eared turtle

DEFF Research Database (Denmark)

Walløe, Solveig; Nissen, Ulla Vig; Berg, Rune W

2011-01-01

The red-eared turtle is an important animal model for investigating the neural activity in the spinal circuit that generates motor behavior. However, basic anatomical features, including the number of neurons in the spinal segments involved, are unknown. In the present study, we estimate the total...... number of neurons in segment D9 of the spinal cord in the red-eared turtle (Trachemys scripta elegans) using stereological cell counting methods. In transverse spinal cord sections stained with modified Giemsa, motoneurons (MNs), interneurons (INs), and non-neuronal cells were distinguished according...... to location and morphology. Each cell type was then counted separately using an optical disector with the cell nucleus as counting item. The number of cells in segment D9 was as follows (mean ± SE): MNs, 2049 ± 74; INs, 16,135 ± 316; non-neuronal cells, 47,504 ± 478 (n = 6). These results provide the first...

A 2D driven 3D vessel segmentation algorithm for 3D digital subtraction angiography data

International Nuclear Information System (INIS)

Spiegel, M; Hornegger, J; Redel, T; Struffert, T; Doerfler, A

2011-01-01

Cerebrovascular disease is among the leading causes of death in western industrial nations. 3D rotational angiography delivers indispensable information on vessel morphology and pathology. Physicians make use of this to analyze vessel geometry in detail, i.e. vessel diameters, location and size of aneurysms, to come up with a clinical decision. 3D segmentation is a crucial step in this pipeline. Although a lot of different methods are available nowadays, all of them lack a method to validate the results for the individual patient. Therefore, we propose a novel 2D digital subtraction angiography (DSA)-driven 3D vessel segmentation and validation framework. 2D DSA projections are clinically considered as gold standard when it comes to measurements of vessel diameter or the neck size of aneurysms. An ellipsoid vessel model is applied to deliver the initial 3D segmentation. To assess the accuracy of the 3D vessel segmentation, its forward projections are iteratively overlaid with the corresponding 2D DSA projections. Local vessel discrepancies are modeled by a global 2D/3D optimization function to adjust the 3D vessel segmentation toward the 2D vessel contours. Our framework has been evaluated on phantom data as well as on ten patient datasets. Three 2D DSA projections from varying viewing angles have been used for each dataset. The novel 2D driven 3D vessel segmentation approach shows superior results against state-of-the-art segmentations like region growing, i.e. an improvement of 7.2% points in precision and 5.8% points for the Dice coefficient. This method opens up future clinical applications requiring the greatest vessel accuracy, e.g. computational fluid dynamic modeling.

Automatic Semantic Segmentation of Brain Gliomas from MRI Images Using a Deep Cascaded Neural Network.

Science.gov (United States)

Cui, Shaoguo; Mao, Lei; Jiang, Jingfeng; Liu, Chang; Xiong, Shuyu

2018-01-01

Brain tumors can appear anywhere in the brain and have vastly different sizes and morphology. Additionally, these tumors are often diffused and poorly contrasted. Consequently, the segmentation of brain tumor and intratumor subregions using magnetic resonance imaging (MRI) data with minimal human interventions remains a challenging task. In this paper, we present a novel fully automatic segmentation method from MRI data containing in vivo brain gliomas. This approach can not only localize the entire tumor region but can also accurately segment the intratumor structure. The proposed work was based on a cascaded deep learning convolutional neural network consisting of two subnetworks: (1) a tumor localization network (TLN) and (2) an intratumor classification network (ITCN). The TLN, a fully convolutional network (FCN) in conjunction with the transfer learning technology, was used to first process MRI data. The goal of the first subnetwork was to define the tumor region from an MRI slice. Then, the ITCN was used to label the defined tumor region into multiple subregions. Particularly, ITCN exploited a convolutional neural network (CNN) with deeper architecture and smaller kernel. The proposed approach was validated on multimodal brain tumor segmentation (BRATS 2015) datasets, which contain 220 high-grade glioma (HGG) and 54 low-grade glioma (LGG) cases. Dice similarity coefficient (DSC), positive predictive value (PPV), and sensitivity were used as evaluation metrics. Our experimental results indicated that our method could obtain the promising segmentation results and had a faster segmentation speed. More specifically, the proposed method obtained comparable and overall better DSC values (0.89, 0.77, and 0.80) on the combined (HGG + LGG) testing set, as compared to other methods reported in the literature. Additionally, the proposed approach was able to complete a segmentation task at a rate of 1.54 seconds per slice.

Joint shape segmentation with linear programming

KAUST Repository

Huang, Qixing

2011-01-01

We present an approach to segmenting shapes in a heterogenous shape database. Our approach segments the shapes jointly, utilizing features from multiple shapes to improve the segmentation of each. The approach is entirely unsupervised and is based on an integer quadratic programming formulation of the joint segmentation problem. The program optimizes over possible segmentations of individual shapes as well as over possible correspondences between segments from multiple shapes. The integer quadratic program is solved via a linear programming relaxation, using a block coordinate descent procedure that makes the optimization feasible for large databases. We evaluate the presented approach on the Princeton segmentation benchmark and show that joint shape segmentation significantly outperforms single-shape segmentation techniques. © 2011 ACM.

Quantitative assessment of morphology, T_1_ρ, and T_2 of shoulder cartilage using MRI

International Nuclear Information System (INIS)

Nardo, Lorenzo; Carballido-Gamio, Julio; Tang, Solomon; Lai, Andrew; Krug, Roland

2016-01-01

The aim of this study was to assess the feasibility of quantifying shoulder cartilage morphology and relaxometry in a clinically feasible scan time comparing different pulse sequences and assessing their reproducibility at 3 Tesla. Three pulse sequences were compared for morphological assessments of shoulder cartilage thickness and volume (SPGR, MERGE, FIESTA), while a combined T1ρ-T2 sequence was optimized for relaxometry measurements. The shoulders of six healthy subjects were scanned twice with repositioning, and the cartilage was segmented and quantified. The degree of agreement between the three morphological sequences was assessed using Bland-Altman plots, while the morphological and relaxometry reproducibility were assessed with root-mean-square coefficients of variation (RMS-CVs) Bland-Altman plots indicated good levels of agreement between the morphological assessments of the three sequences. The reproducibility of morphological assessments yielded RMS-CVs between 4.0 and 17.7 %. All sequences correlated highly (R > 0.9) for morphologic assessments with no statistically significant differences. For relaxometry assessments of humeral cartilage, RMS-CVs of 6.4 and 10.6 % were found for T1ρ and T2, respectively. The assessment of both cartilage morphology and relaxometry is feasible in the shoulder with SPGR, humeral head, and T1ρ being the more reproducible morphological sequence, anatomic region, and quantitative sequence, respectively. (orig.)

Focal liver lesions segmentation and classification in nonenhanced T2-weighted MRI.

Science.gov (United States)

Gatos, Ilias; Tsantis, Stavros; Karamesini, Maria; Spiliopoulos, Stavros; Karnabatidis, Dimitris; Hazle, John D; Kagadis, George C

2017-07-01

To automatically segment and classify focal liver lesions (FLLs) on nonenhanced T2-weighted magnetic resonance imaging (MRI) scans using a computer-aided diagnosis (CAD) algorithm. 71 FLLs (30 benign lesions, 19 hepatocellular carcinomas, and 22 metastases) on T2-weighted MRI scans were delineated by the proposed CAD scheme. The FLL segmentation procedure involved wavelet multiscale analysis to extract accurate edge information and mean intensity values for consecutive edges computed using horizontal and vertical analysis that were fed into the subsequent fuzzy C-means algorithm for final FLL border extraction. Texture information for each extracted lesion was derived using 42 first- and second-order textural features from grayscale value histogram, co-occurrence, and run-length matrices. Twelve morphological features were also extracted to capture any shape differentiation between classes. Feature selection was performed with stepwise multilinear regression analysis that led to a reduced feature subset. A multiclass Probabilistic Neural Network (PNN) classifier was then designed and used for lesion classification. PNN model evaluation was performed using the leave-one-out (LOO) method and receiver operating characteristic (ROC) curve analysis. The mean overlap between the automatically segmented FLLs and the manual segmentations performed by radiologists was 0.91 ± 0.12. The highest classification accuracies in the PNN model for the benign, hepatocellular carcinoma, and metastatic FLLs were 94.1%, 91.4%, and 94.1%, respectively, with sensitivity/specificity values of 90%/97.3%, 89.5%/92.2%, and 90.9%/95.6% respectively. The overall classification accuracy for the proposed system was 90.1%. Our diagnostic system using sophisticated FLL segmentation and classification algorithms is a powerful tool for routine clinical MRI-based liver evaluation and can be a supplement to contrast-enhanced MRI to prevent unnecessary invasive procedures. © 2017 American

Segmentation-DrivenTomographic Reconstruction

DEFF Research Database (Denmark)

Kongskov, Rasmus Dalgas

such that the segmentation subsequently can be carried out by use of a simple segmentation method, for instance just a thresholding method. We tested the advantages of going from a two-stage reconstruction method to a one stage segmentation-driven reconstruction method for the phase contrast tomography reconstruction......The tomographic reconstruction problem is concerned with creating a model of the interior of an object from some measured data, typically projections of the object. After reconstructing an object it is often desired to segment it, either automatically or manually. For computed tomography (CT...

Morphology and physiology of the dimorphic fungus Mucor circinelloides (syn. M. racemosus) during anaerobic growth

DEFF Research Database (Denmark)

Lübbehüsen, Tina Louise; Nielsen, Jens; Mcintyre, Mhairi

2003-01-01

The dimorphic Mucor circinelloides requires an anaerobic atmosphere and the presence of 30% CO2 to grow as a multipolar budding yeast, otherwise hyphal growth predominates. Establishing other means to control the morphology would be a distinct advantage in the development of a fermentation process...

Local morphologic scale: application to segmenting tumor infiltrating lymphocytes in ovarian cancer TMAs

Science.gov (United States)

Janowczyk, Andrew; Chandran, Sharat; Feldman, Michael; Madabhushi, Anant

2011-03-01