Deep CNN for IIF Images Classification in Autoimmune Diagnostics

The diagnosis and monitoring of autoimmune diseases are very important problem in medicine. The most used test for this purpose is the antinuclear antibody (ANA) test. An indirect immunofluorescence (IIF) test performed by Human Epithelial type 2 (HEp-2) cells as substrate antigen is the most common methods to determine ANA. In this paper we present an automatic HEp-2 specimen system based on a convolutional neural network method able to classify IIF images. The system consists of a module for features extraction based on a pre-trained AlexNet network and a classification phase for the cell-pattern association using six support vector machines and a k-nearest neighbors classifier. The classification at the image-level was obtained by analyzing the pattern prevalence at cell-level. The layers of the pre-trained network and various system parameters were evaluated in order to optimize the process. This system has been developed and tested on the HEp-2 images indirect immunofluorescence images analysis (I3A) public database. To test the generalisation performance of the method, the leave-one-specimen-out procedure was used in this work. The performance analysis showed an accuracy of 96.4% and a mean class accuracy equal to 93.8%. The results have been evaluated comparing them with some of the most representative works using the same database

Sedimentation of halloysite nanotubes from different deposits in aqueous media at variable ionic strengths

Halloysite clay is a natural nanomaterial that is attracting a growing interest in colloidal science. The halloysite aqueous dispersion stability is a key aspect for the configuration of a purification protocol as well as to establish the durability of a formulation. A physico-chemical study demonstrated the role of ionic strength and nanotube characteristic sizes on the sedimentation behavior. We highlighted the importance of the electrostatic repulsions exercised between the particles in the settling process. A protocol for image analysis has been proposed to provide robust information from time resolved optical images on the suspensions. In conclusion, we managed to correlate microscopic aspect to the peculiar sedimentation process of halloysite nanotubes

Superconformal Algebras and Mock Theta Functions

It is known that characters of BPS representations of extended superconformal algebras do not have good modular properties due to extra singular vectors coming from the BPS condition. In order to improve their modular properties we apply the method of Zwegers which has recently been developed to analyze modular properties of mock theta functions. We consider the case of N=4 superconformal algebra at general levels and obtain the decomposition of characters of BPS representations into a sum of simple Jacobi forms and an infinite series of non-BPS representations. We apply our method to study elliptic genera of hyper-Kahler manifolds in higher dimensions. In particular we determine the elliptic genera in the case of complex 4 dimensions of the Hilbert scheme of points on K3 surfaces K^{[2]} and complex tori A^{[[3]]}.Comment: 28 page

A Quadrupole/Time-of-Flight Mass Spectrometry Study of Trp-Cage’s Conformation

Trp-cage is a synthetic 20-residue miniprotein that uses tertiary contacts to stabilize its native conformation. NMR, circular dichroism (CD), and UV-resonance Raman spectroscopy were used to probe its energy landscape. In this quadrupole/time-of-flight study, electrospray ionization charge state distribution (CSD) and solution-phase H/D exchange are used to probe Trp-cage’s tertiary structure. The CSDs of Trp-cage and its mutant provide spectra showing a pH-dependent conformation change. Solution-phase H/D exchange in 30% deuterated trifluoroethanol solution of the wild type shows increased protection of one labile hydrogen in the native state. Together, CSDs and solution-phase H/D exchange are demonstrated to constitute a simple but effective means to follow conformation changes in a small tertiary protein

Cascading Failures in Interconnected Power-to-Water Networks

The manageability and resilience of critical infrastructures, such as power and water networks, is challenged by their increasing interdependence and interconnectivity. Power networks often experience cascading failures, i.e. blackouts, that have unprecedented economic and social impact. Al- though knowledge exists about how to control such complex non-linear phenomena within a single power network, little is known about how such failures can spread and coevolve in the water network when failing power components energize the water distribution infrastructure, i.e. pumps and valves. This paper studies such a scenario and specifically the impact of power cascading failures on shortages of water supply. A realistic exemplary of an interconnected power-to-water network is experimentally evaluated using a modular simulation approach. Power and waterflow dynamics are simulated separately by taking into account different maximum powerlines capacities and water demand requirements. Results showcase the strong dependency of urban water sup- ply systems on the reliability of power networks, with severe shortages of water supply being caused by failures originating indistant power lines, especially for heavily loaded power networks

Serine- and threonine/valine-dependent activation of PDK and Tor orthologs converge on Sch9 to promote aging

Dietary restriction extends longevity in organisms ranging from bacteria to mice and protects primates from a variety of diseases, but the contribution of each dietary component to aging is poorly understood. Here we demonstrate that glucose and specific amino acids promote stress sensitization and aging through the differential activation of the Ras/cAMP/PKA,PKH1/2 and Tor/S6K pathways. Whereas glucose sensitized cells through a Ras-dependent mechanism, threonine and valine promoted cellular sensitization and aging primarily by activating the Tor/S6K pathway and serine promoted sensitization via PDK1 orthologs Pkh1/2. Serine, threonine and valine activated a signaling network in which Sch9 integrates TORC1 and Pkh signaling via phosphorylation of threonines 570 and 737 and promoted intracellular relocalization and transcriptional inhibition of the stress resistance protein kinase Rim15. Because of the conserved pro-aging role of nutrient and growth signaling pathways in higher eukaryotes, these results raise the possibility that similar mechanisms contribute to aging in mammals

HEp-2 Cell Classification with heterogeneous classes-processes based on K-Nearest Neighbours

We present a scheme for the feature extraction and classification of the fluorescence staining patterns of HEp-2 cells in IIF images. We propose a set of complementary processes specific to each class of patterns to search. Our set of processes consists of preprocessing,features extraction and classification. The choice of methods, features and parameters was performed automatically, using the Mean Class Accuracy (MCA) as a figure of merit. We extract a large number (108) of features able to fully characterize the staining pattern of HEp-2 cells. We propose a classification approach based on two steps: the first step follows the one-against-all(OAA) scheme, while the second step follows the one-against-one (OAO) scheme. To do this, we needed to implement 21 KNN classifiers: 6 OAA and 15 OAO. Leave-one-out image cross validation method was used for the evaluation of the results

First Evidence of Tris(catecholato)silicate Formation from Hydrolysis of an Alkyl Bis(catecholato)silicate

The hydrolysis of 3-ammoniumpropylbis(catecholato)silicate 1, giving two different silica-based materials containing different amounts of tris(catecholato)silicate, is reported. The latter species can be formed through an attack of catechol to the silicon atom in the pentacoordinate complex, in which the silicon-carbon bond is further activated toward electrophilic proton cleavage. The Knoevenagel reaction was used as a probe in order to test the availability of functional groups on the surface of such materials

A REST-based framework to support non-invasive and early coeliac disease diagnosis

The health sector has traditionally been one of the early adopters of databases, from the most simple Electronic Health Record (formerly Computer-Based Patient Record) systems in use in general practice, hospitals and intensive care units to big data, multidata based systems used to support diagnosis and care decisions. In this paper we present a framework to support non-invasive and early diagnosis of coeliac disease. The proposed framework makes use of well-known technologies and techniques, both hardware and software, put together in a novel way. The main goals of our framework are: (1) providing users with a reliable and fast repository of a large amount of data; (2) to make such repository accessible by means of a suitable API in multiple modes, such as intuitive web-based or mobile visual interfaces; (3) to allow for data processing and analysis, as a basis for decision support systems