Angiogenically active vascular endothelial growth factor is over-expressed in malignant human and rat prostate carcinoma cells

Vascular endothelial growth factor (VEGF) is one of the most potent factors for stimulating angiogenesis, an essential process required for expansion of primary tumour and dissemination of malignant cells. To investigate the possible role of VEGF in facilitating metastasis of prostate cancer via stimulating angiogenesis, we have used Northern and slot blotting, reverse transcription polymerase chain reaction, nucleotide sequence analysis and enzyme-linked immunosorbent assay to compare the VEGF expression in series of human and rat cell lines with either benign or malignant characteristics. We have also employed the chick chorioallantoic membrane (CAM) assay to measure the angiogenic activity of the VEGF derived from both benign and malignant cells. The level of VEGF mRNA expressed in the seven malignant human and rat cell lines is 3.5- to 10-fold higher than that expressed in the benign cell lines. The three metastatic variants, generated by transfection of a benign cell line with DNA extracted from prostate carcinoma cells, expressed 2.5 to 5 times more VEGF mRNA than their parental benign cells. While VEGF 121 and 165 were predominantly expressed by both the benign and malignant cells, the transcript representing VEGF 189 isoform was only detected in the malignant cells. At protein level, three human malignant cell lines produced more VEGF (2.7–7.9 ng ml−1) than the benign cell line (1.3 ng ml−1). CAM assay detected a VEGF-dependent angiogenic activity in the medium from malignant cells, but only a relatively weak VEGF-independent activity in the medium from benign cells. These results demonstrated that malignant cells did over-express VEGF and only the VEGF derived from malignant cells was angiogenically active. Thus, we suggest that the VEGF produced by malignant cells might play an important role in facilitating metastasis of prostatic cancer. © 2000 Cancer Research Campaig

Shell model description of Ge isotopes

A shell model study of the low energy region of the spectra in Ge isotopes for $38\leq N\leq 50$ is presented, analyzing the excitation energies, quadrupole moments, $B(E2)$ values and occupation numbers. The theoretical results have been compared with the available experimental data. The shell model calculations have been performed employing three different effective interactions and valence spaces.We have used two effective shell model interactions, JUN45 and jj44b, for the valence space $f_{5/2} \, p \,g_{9/2}$ without truncation. To include the proton subshell $f_{7/2}$ in valence space we have employed the $fpg$ effective interaction due to Sorlin {\it et al.}, with $^{48}$Ca as a core and a truncation in the number of excited particles.Comment: 10 pages, 10 figures, Proc. of the XXXV Nuclear Physics Symposium, January 3-6 2012, Cocoyoc, Morelos, Mexico. IOP Journal of Physics: Conference Series (in press

Score Fusion by Maximizing the Area under the ROC Curve

The final publication is available at Springer via http://dx.doi.org/10.1007/978-3-642-02172-5_61Information fusion is currently a very active research topic aimed at improving the performance of biometric systems. This paper proposes a novel method for optimizing the parameters of a score fusion model based on maximizing an index related to the Area Under the ROC Curve. This approach has the convenience that the fusion parameters are learned without having to specify the client and impostor priors or the costs for the different errors. Empirical results on several datasets show the effectiveness of the proposed approach.Work supported by the Spanish projects DPI2006-15542-C04 and TIN2008-04571 and the Generalitat Valenciana - Consellería d’Educació under an FPI scholarship.Villegas Santamaría, M.; Paredes Palacios, R. (2009). Score Fusion by Maximizing the Area under the ROC Curve. En Pattern Recognition and Image Analysis: 4th Iberian Conference, IbPRIA 2009 Póvoa de Varzim, Portugal, June 10-12, 2009 Proceedings. Springer Verlag (Germany). 473-480. https://doi.org/10.1007/978-3-642-02172-5_61S473480Toh, K.A., Kim, J., Lee, S.: Biometric scores fusion based on total error rate minimization. Pattern Recognition 41(3), 1066–1082 (2008)Jain, A., Nandakumar, K., Ross, A.: Score normalization in multimodal biometric systems. Pattern Recognition 38(12), 2270–2285 (2005)Gutschoven, B., Verlinde, P.: Multi-modal identity verification using support vector machines (svm). In: Proceedings of the Third International Conference on Information Fusion. FUSION 2000, vol. 2, pp. THB3/3–THB3/8 (July 2000)Ma, Y., Cukic, B., Singh, H.: A classification approach to multi-biometric score fusion. In: Kanade, T., Jain, A., Ratha, N.K. (eds.) AVBPA 2005. LNCS, vol. 3546, pp. 484–493. Springer, Heidelberg (2005)Maurer, D.E., Baker, J.P.: Fusing multimodal biometrics with quality estimates via a bayesian belief network. Pattern Recogn. 41(3), 821–832 (2008)Ling, C.X., Huang, J., Zhang, H.: Auc: a statistically consistent and more discriminating measure than accuracy. In: Proc. of IJCAI 2003, pp. 519–524 (2003)Yan, L., Dodier, R.H., Mozer, M., Wolniewicz, R.H.: Optimizing classifier performance via an approximation to the wilcoxon-mann-whitney statistic. In: Machine Learning, Proceedings of the Twentieth International Conference (ICML 2003), Washington, DC, USA, pp. 848–855. AAAI Press, Menlo Park (2003)Marrocco, C., Molinara, M., Tortorella, F.: Exploiting auc for optimal linear combinations of dichotomizers. Pattern Recogn. Lett. 27(8), 900–907 (2006)Marrocco, C., Duin, R.P.W., Tortorella, F.: Maximizing the area under the roc curve by pairwise feature combination. Pattern Recogn. 41(6), 1961–1974 (2008)Paredes, R., Vidal, E.: Learning prototypes and distances: a prototype reduction technique based on nearest neighbor error minimization. Pattern Recognition 39(2), 180–188 (2006)Villegas, M., Paredes, R.: Simultaneous learning of a discriminative projection and prototypes for nearest-neighbor classification. In: IEEE Conference on Computer Vision and Pattern Recognition. CVPR 2008, pp. 1–8 (2008)Nandakumar, K., Chen, Y., Dass, S.C., Jain, A.: Likelihood ratio-based biometric score fusion. IEEE Transactions on Pattern Analysis and Machine Intelligence 30(2), 342–347 (2008)Poh, N., Bengio, S.: A score-level fusion benchmark database for biometric authentication. In: Kanade, T., Jain, A., Ratha, N.K. (eds.) AVBPA 2005. LNCS, vol. 3546, pp. 1059–1070. Springer, Heidelberg (2005)National Institute of Standards and Technology: NIST Biometric Scores Set - Release 1 (BSSR1) (2004), http://www.itl.nist.gov/iad/894.03/biometricscores/Bengio, S., Mariéthoz, J., Keller, M.: The expected performance curve. In: Proceedings of the Second Workshop on ROC Analysis in ML, pp. 9–16 (2005

GPU-based Iterative Cone Beam CT Reconstruction Using Tight Frame Regularization

X-ray imaging dose from serial cone-beam CT (CBCT) scans raises a clinical concern in most image guided radiation therapy procedures. It is the goal of this paper to develop a fast GPU-based algorithm to reconstruct high quality CBCT images from undersampled and noisy projection data so as to lower the imaging dose. For this purpose, we have developed an iterative tight frame (TF) based CBCT reconstruction algorithm. A condition that a real CBCT image has a sparse representation under a TF basis is imposed in the iteration process as regularization to the solution. To speed up the computation, a multi-grid method is employed. Our GPU implementation has achieved high computational efficiency and a CBCT image of resolution 512\times512\times70 can be reconstructed in ~5 min. We have tested our algorithm on a digital NCAT phantom and a physical Catphan phantom. It is found that our TF-based algorithm is able to reconstrct CBCT in the context of undersampling and low mAs levels. We have also quantitatively analyzed the reconstructed CBCT image quality in terms of modulation-transfer-function and contrast-to-noise ratio under various scanning conditions. The results confirm the high CBCT image quality obtained from our TF algorithm. Moreover, our algorithm has also been validated in a real clinical context using a head-and-neck patient case. Comparisons of the developed TF algorithm and the current state-of-the-art TV algorithm have also been made in various cases studied in terms of reconstructed image quality and computation efficiency.Comment: 24 pages, 8 figures, accepted by Phys. Med. Bio

Stable two-dimensional solitary pulses in linearly coupled dissipative Kadomtsev-Petviashvili equations

A two-dimensional (2D) generalization of the stabilized Kuramoto - Sivashinsky (KS) system is presented. It is based on the Kadomtsev-Petviashvili (KP) equation including dissipation of the generic (Newell -- Whitehead -- Segel, NWS) type and gain. The system directly applies to the description of gravity-capillary waves on the surface of a liquid layer flowing down an inclined plane, with a surfactant diffusing along the layer's surface. Actually, the model is quite general, offering a simple way to stabilize nonlinear waves in media combining the weakly-2D dispersion of the KP type with gain and NWS dissipation. Parallel to this, another model is introduced, whose dissipative terms are isotropic, rather than of the NWS type. Both models include an additional linear equation of the advection-diffusion type, linearly coupled to the main KP-NWS equation. The extra equation provides for stability of the zero background in the system, opening a way to the existence of stable localized pulses. The consideration is focused on the case when the dispersive part of the system of the KP-I type, admitting the existence of 2D localized pulses. Treating the dissipation and gain as small perturbations and making use of the balance equation for the field momentum, we find that the equilibrium between the gain and losses may select two 2D solitons, from their continuous family existing in the conservative counterpart of the model (the latter family is found in an exact analytical form). The selected soliton with the larger amplitude is expected to be stable. Direct simulations completely corroborate the analytical predictions.Comment: a latex text file and 16 eps files with figures; Physical Review E, in pres

Unsupervised multimodal modeling of cognitive and brain health trajectories for early dementia prediction

Predicting the course of neurodegenerative disorders early has potential to greatly improve clinical management and patient outcomes. A key challenge for early prediction in real-world clinical settings is the lack of labeled data (i.e., clinical diagnosis). In contrast to supervised classification approaches that require labeled data, we propose an unsupervised multimodal trajectory modeling (MTM) approach based on a mixture of state space models that captures changes in longitudinal data (i.e., trajectories) and stratifies individuals without using clinical diagnosis for model training. MTM learns the relationship between states comprising expensive, invasive biomarkers (β-amyloid, grey matter density) and readily obtainable cognitive observations. MTM training on trajectories stratifies individuals into clinically meaningful clusters more reliably than MTM training on baseline data alone and is robust to missing data (i.e., cognitive data alone or single assessments). Extracting an individualized cognitive health index (i.e., MTM-derived cluster membership index) allows us to predict progression to AD more precisely than standard clinical assessments (i.e., cognitive tests or MRI scans alone). Importantly, MTM generalizes successfully from research cohort to real-world clinical data from memory clinic patients with missing data, enhancing the clinical utility of our approach. Thus, our multimodal trajectory modeling approach provides a cost-effective and non-invasive tool for early dementia prediction without labeled data (i.e., clinical diagnosis) with strong potential for translation to clinical practice

Determining the representative factors affecting warning message dissemination in VANETs

In this paper, we present a statistical analysis based on the 2k factorial methodology to determine the representative factors affecting traffic safety applications in Vehicular ad hoc networks (VANETs). Our purpose is to determine what are the key factors affecting Warning Message Dissemination (WMD) in order to concentrate on such parameters, thus reducing the amount of required simulation time when evaluating VANETs. Simulation results show that the key factors affecting warning messages delivery are: (i) the transmission range, (ii) the radio propagation model used, and (iii) the density of vehicles. Based on this statistical analysis, we evaluate a compound key factor: neighbor density. This factor combines the above-mentioned factors into a single entity, reducing the number of factors that must be taken into account for VANET researchers to evaluate the benefits of their proposals.This work was partially supported by the Ministerio de Educacion y Ciencia, Spain, under Grant TIN2008-06441-C02-01, and by the Fundacion Antonio Gargallo, under Grant 2009/B001.Martínez Domínguez, FJ.; Toh, CK.; Cano Escribá, JC.; Tavares De Araujo Cesariny Calafate, CM.; Manzoni, P. (2012). Determining the representative factors affecting warning message dissemination in VANETs. Wireless Personal Communications. 67(2):295-314. https://doi.org/10.1007/s11277-010-9989-4S295314672Eichler, S. (2007). Performance evaluation of the IEEE 802.11p WAVE communication standard. In Proceedings of the vehicular technology conference (VTC-2007 Fall), USA.Fall, K., & Varadhan, K. (2000). ns notes and documents. The VINT Project. UC Berkeley, LBL, USC/ISI, and Xerox PARC. Available at http://www.isi.edu/nsnam/ns/ns-documentation.html .Fasolo, E., Zanella, A., & Zorzi, M. (2006). An effective broadcast scheme for alert message propagation in vehicular ad hoc networks. In Proceedings of the IEEE International Conference on Communications, Istambul, Turkey.Korkmaz, G., Ekici, E., Ozguner, F., & Ozguner, U. (2004). Urban multi-hop broadcast protocols for inter-vehicle communication systems. In Proceedings of First ACM Workshop on Vehicular Ad Hoc Networks (VANET 2004).Martinez, F. J., Toh, C.-K., Cano, J.-C., Calafate, C. T., & Manzoni, P. (2009). Realistic radio propagation models (RPMs) for VANET simulations. In IEEE wireless communications and networking conference (WCNC), Budapest, Hungary.Martinez, F. J., Cano, J.-C., Calafate, C. T., & Manzoni, P. (2008). CityMob: A mobility model pattern generator for VANETs. In IEEE vehicular networks and applications workshop (Vehi-Mobi, held with ICC), Beijing, China.Martinez, F. J., Cano, J.-C., Calafate, C. T., & Manzoni, P. (2009). A performance evaluation of warning message dissemination in 802.11p based VANETs. In IEEE local computer networks conference (LCN 2009), Zürich, Switzerland.Torrent-Moreno, M., Santi, P., & Hartenstein, H. (2005). Fair sharing of bandwidth in VANETs. In Proceedings of the 2nd ACM international workshop on vehicular ad hoc networks, Germany.Tseng Y.-C., Ni S.-Y., Chen Y.-S., Sheu J.-P. (2002) The broadcast storm problem in a mobile ad hoc network. Wireless Networks 8: 153–167Wisitpongphan N., Tonguz O., Parikh J., Mudalige P., Bai F., Sadekar V. (2007) Broadcast storm mitigation techniques in vehicular ad hoc networks. Wireless Communications IEEE 14(6): 84–94. doi: 10.1109/MWC.2007.4407231Yang, X., Liu, J., Zhao, F., & Vaidya, N. H. (2004). A vehicle-to-vehicle communication protocol for cooperative collision warning. In Proceedings of the first annual international conference on mobile and ubiquitous systems: Networking and services (MobiQuitous’04).Yoon, J., Liu, M., & Noble, B. (2003). Random waypoint considered harmful. Proceedings of IEEE INFOCOMM 2003, San Francisco, California, USA.Zang, Y., Stibor, L., Cheng, X., Reumerman, H.-J., Paruzel, A., & Barroso, A. (2007). Congestion control in wireless networks for vehicular safety applications. In Proceedings of the 8th European Wireless Conference, Paris, France

A Simple Model for Anisotropic Step Growth

We consider a simple model for the growth of isolated steps on a vicinal crystal surface. It incorporates diffusion and drift of adatoms on the terrace, and strong step and kink edge barriers. Using a combination of analytic methods and Monte Carlo simulations, we study the morphology of growing steps in detail. In particular, under typical Molecular Beam Epitaxy conditions the step morphology is linearly unstable in the model and develops fingers separated by deep cracks. The vertical roughness of the step grows linearly in time, while horizontally the fingers coarsen proportional to $t^{0.33}$. We develop scaling arguments to study the saturation of the ledge morphology for a finite width and length of the terrace.Comment: 20 pages, 12 figures; [email protected]

Stable periodic waves in coupled Kuramoto-Sivashinsky - Korteweg-de Vries equations

Periodic waves are investigated in a system composed of a Kuramoto-Sivashinsky - Korteweg-de Vries (KS-KdV) equation, which is linearly coupled to an extra linear dissipative equation. The model describes, e.g., a two-layer liquid film flowing down an inclined plane. It has been recently shown that the system supports stable solitary pulses. We demonstrate that a perturbation analysis, based on the balance equation for the field momentum, predicts the existence of stable cnoidal waves (CnWs) in the same system. It is found that the mean value U of the wave field u in the main subsystem, but not the mean value of the extra field, affects the stability of the periodic waves. Three different areas can be distinguished inside the stability region in the parameter plane (L,U), where L is the wave's period. In these areas, stable are, respectively, CnWs with positive velocity, constant solutions, and CnWs with negative velocity. Multistability, i.e., the coexistence of several attractors, including the waves with several maxima per period, appears at large value of L. The analytical predictions are completely confirmed by direct simulations. Stable waves are also found numerically in the limit of vanishing dispersion, when the KS-KdV equation goes over into the KS one.Comment: a latex text file and 16 eps files with figures. Journal of the Physical Society of Japan, in pres

Studies of Phase Turbulence in the One Dimensional Complex Ginzburg-Landau Equation

The phase-turbulent (PT) regime for the one dimensional complex Ginzburg-Landau equation (CGLE) is carefully studied, in the limit of large systems and long integration times, using an efficient new integration scheme. Particular attention is paid to solutions with a non-zero phase gradient. For fixed control parameters, solutions with conserved average phase gradient $\nu$ exist only for $|\nu|$ less than some upper limit. The transition from phase to defect-turbulence happens when this limit becomes zero. A Lyapunov analysis shows that the system becomes less and less chaotic for increasing values of the phase gradient. For high values of the phase gradient a family of non-chaotic solutions of the CGLE is found. These solutions consist of spatially periodic or aperiodic waves travelling with constant velocity. They typically have incommensurate velocities for phase and amplitude propagation, showing thereby a novel type of quasiperiodic behavior. The main features of these travelling wave solutions can be explained through a modified Kuramoto-Sivashinsky equation that rules the phase dynamics of the CGLE in the PT phase. The latter explains also the behavior of the maximal Lyapunov exponents of chaotic solutions.Comment: 16 pages, LaTeX (Version 2.09), 10 Postscript-figures included, submitted to Phys. Rev.