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R Finotello, J M Monné Rodriguez, M Vilafranca, J Altimira, G A Ramirez, A Haines, L Ressel
Canine melanoma (CMM) more commonly affects the oral mucosa and the cutis. CMM shares several features with human melanomas (HMM), included resistance to a broad variety of antineoplastic chemotherapy agents. P-glycoprotein 1 (Pgp) expression is a well-recognized feature of multi-drug resistance and the purpose of this study was to investigate its expression in treatment naïve CMM. We also investigated Pgp association with tumour location and histological features. Histology records of CMM were retrieved, including patients from 2012-2014...
October 25, 2016: Veterinary and Comparative Oncology
Jin Woo Huh, Dong Kyu Lee, Hwan-Jin Jeon, Chi Won Ahn
In this study, hybrid-structured metal mesh (HMM) films as potential flexible transparent electrodes, composed of aligned micro-sized metal fibers integrated into random network of metal nanofibers, were fabricated by the combination of electrospinning and metal deposition. These naturally fiber-bridged HMMs, with a gold layer thickness of 85 nm, exhibited a high transmittance of around 90% and a sheet resistance of approximately 10 Ω sq(-1), as well as favorable mechanical stability under bending stress. These results demonstrate that the approach employed herein is a simple, highly efficient, and facile process for fabricating, uniform, interconnected fiber networks with potential for producing high-performance flexible transparent electrodes...
November 25, 2016: Nanotechnology
Fuming Fang, Takahiro Shinozaki, Yasuo Horiuchi, Shingo Kuroiwa, Sadaoki Furui, Toshimitsu Musha
Eye motion-based human-machine interfaces are used to provide a means of communication for those who can move nothing but their eyes because of injury or disease. To detect eye motions, electrooculography (EOG) is used. For efficient communication, the input speed is critical. However, it is difficult for conventional EOG recognition methods to accurately recognize fast, sequentially input eye motions because adjacent eye motions influence each other. In this paper, we propose a context-dependent hidden Markov model- (HMM-) based EOG modeling approach that uses separate models for identical eye motions with different contexts...
2016: Computational Intelligence and Neuroscience
Ishita Mukherjee, Abhijit Chakraborty, Saikat Chakrabarti
BACKGROUND: An active immune surveillance and a range of barriers to infection allow the host to effectively eliminate microbial pathogens. However, pathogens may use diverse strategies to subdue such host defences. For instance, one such mechanism is the use of leucine-rich repeat (LRR) proteins by pathogens (microbial) to cause infection. In this study, we aimed at identifying novel virulence factor(s) in Leishmania donovani, based on the possibility of lateral gene transfers of bacterial virulence factor(s) to L...
October 21, 2016: Parasites & Vectors
Kien Xuan Ngo, Nobuhisa Umeki, Saku T Kijima, Noriyuki Kodera, Hiroaki Ueno, Nozomi Furutani-Umezu, Jun Nakajima, Taro Q P Noguchi, Akira Nagasaki, Kiyotaka Tokuraku, Taro Q P Uyeda
Heavy meromyosin (HMM) of myosin II and cofilin each binds to actin filaments cooperatively and forms clusters along the filaments, but it is unknown whether the two cooperative bindings are correlated and what physiological roles they have. Fluorescence microscopy demonstrated that HMM-GFP and cofilin-mCherry each bound cooperatively to different parts of actin filaments when they were added simultaneously in 0.2 μM ATP, indicating that the two cooperative bindings are mutually exclusive. In 0.1 mM ATP, the motor domain of myosin (S1) strongly inhibited the formation of cofilin clusters along actin filaments...
October 20, 2016: Scientific Reports
Antonio López-Orenes, María C Bueso, Héctor M Conesa, Antonio A Calderón, María A Ferrer
Soil pollution by heavy metals/metalloids (HMMs) is a problem worldwide. To prevent dispersion of contaminated particles by erosion, the maintenance of a vegetative cover is needed. Successful plant establishment in multi-polluted soils can be hampered not only by HMM toxicities, but also by soil nutrient deficiencies and the co-occurrence of abiotic stresses. Some plant species are able to thrive under these multi-stress scenarios often linked to marked fluctuations in environmental factors. This study aimed to investigate the metabolic adjustments involved in Zygophyllum fabago acclimative responses to conditions prevailing in HMM-enriched mine-tailings piles, during Mediterranean spring and summer...
October 14, 2016: Science of the Total Environment
Duncan K Ralph, Frederick A Matsen
The human immune system depends on a highly diverse collection of antibody-making B cells. B cell receptor sequence diversity is generated by a random recombination process called "rearrangement" forming progenitor B cells, then a Darwinian process of lineage diversification and selection called "affinity maturation." The resulting receptors can be sequenced in high throughput for research and diagnostics. Such a collection of sequences contains a mixture of various lineages, each of which may be quite numerous, or may consist of only a single member...
October 2016: PLoS Computational Biology
Mahsa Akhbari, Mohammad B Shamsollahi, Omid Sayadi, Antonis A Armoundas, Christian Jutten
In this paper, we propose a novel method for extracting fiducial points (FPs) of electrocardiogram (ECG) signals. We propose the use of multi hidden Markov model (MultiHMM) as opposed to the traditional use of Classic HMM. In the MultiHMM method, each segment of an ECG beat is represented by a separate ergodic continuous density HMM. Each HMM has different state number and is trained separately. In the test step, the log-likelihood of two consecutive HMMs is compared and a path is estimated, which shows the correspondence of each part of the ECG signal to the HMM with the maximum log-likelihood...
September 28, 2016: Computers in Biology and Medicine
Weijie Kong, Wenjuan Du, Kaipeng Liu, Changtao Wang, Ling Liu, Zeyu Zhao, Xiangang Luo
Hyperbolic metamaterials (HMMs) composed of multiple nanometal-dielectric films are proposed for launching deep subwavelength bulk plasmon polaritons (BPPs) as uniform, large area surface imaging illumination sources with a skin depth even beyond 10 nm. Benefiting from the coupled plasmon modes over a wide wavevector range in HMMs, the illumination depth could be continually tuned, simply by adjusting the incidence angle of light impinged on a grating structure for BPP excitation. As an example, the illumination depths of 19-63 nm at a light wavelength of 532 nm are demonstrated with SiO2-Ag multifilms...
September 29, 2016: Nanoscale
Elina Bengtsson, Malin Persson, Mohammad A Rahman, Saroj Kumar, Hideyo Takatsuki, Alf Månsson
Actin filaments have key roles in cell motility but are generally claimed to be passive interaction partners in actin-myosin-based motion generation. Here, we present evidence against this static view based on an altered myosin-induced actin filament gliding pattern in an in vitro motility assay at varied [MgATP]. The statistics that characterize the degree of meandering of the actin filament paths suggest that for [MgATP] ≥ 0.25 mM, the flexural rigidity of heavy meromyosin (HMM)-propelled actin filaments is similar (without phalloidin) or slightly lower (with phalloidin) than that of HMM-free filaments observed in solution without surface tethering...
October 4, 2016: Biophysical Journal
Myung-Chul Kim, Na-Yon Kim, Yu-Ri Seo, Yongbaek Kim
Intratumoral heterogeneity is a hallmark of all cancers and functions as the major barrier against effective cancer therapy. In contrast to genetic mutations, the role of epigenetic modifications in the generation and maintenance of heterogeneous cancer cells remains largely undetermined. This study was performed to evaluate the epigenetic mechanisms involved in the tumor cell heterogeneity using side population (SP) and non-SP cells isolated from a human malignant mesothelioma (HMM) cell line. The subpopulations of cancer cells were analyzed by methylated DNA immunoprecipitation combined with high-throughput sequencing (MeDIP-seq) and RNA-seq methodology...
2016: Journal of Cancer
Xiong Liu, Shi Shu, Neil Billington, Chad D Williamson, Shuhua Yu, Hanna Brzeska, Julie G Donaldson, James R Sellers, Edward D Korn
Mammalian cells express three Class II nonmuscle myosins (NM): NM2A, NM2B and NM2C. The three NM2s have well-established essential roles in cell motility, adhesion and cytokinesis, and less well defined roles in vesicle transport and other processes that would require association of NM2s with cell membranes. Previous evidence for the mechanism of NM2-membrane association includes direct interaction of NM2s with membrane lipids and indirect interaction by association of NM2s with membrane-bound F-actin or peripheral membrane proteins...
October 3, 2016: Journal of Biological Chemistry
A Seara Vieira, L Borrajo, E L Iglesias
In text classification problems, the representation of a document has a strong impact on the performance of learning systems. The high dimensionality of the classical structured representations can lead to burdensome computations due to the great size of real-world data. Consequently, there is a need for reducing the quantity of handled information to improve the classification process. In this paper, we propose a method to reduce the dimensionality of a classical text representation based on a clustering technique to group documents, and a previously developed Hidden Markov Model to represent them...
November 2016: Computer Methods and Programs in Biomedicine
Chenran Xu, Jingping Xu, Ge Song, Chengjie Zhu, Yaping Yang, Girish S Agarwal
We examine the Goos-Hänchen (G-H) shift of a Gaussian beam reflected on a thin slab of Ag/TiO<sub>2</sub> hyperbolic multilayer metamaterial (HMM). The HMM is modeled using the effective medium theory which yields the anisotropic dielectric functions of the HMM. The G-H shifts can be very large on the surface of the HMM. It can be about 40 µm which are far bigger than the G-H shifts on the usual materials like metals and dielectrics. The enhancement is due to the excitation of the Brewster modes in HMM...
September 19, 2016: Optics Express
Kiyoshi Ezawa
BACKGROUND: Insertions and deletions (indels) account for more nucleotide differences between two related DNA sequences than substitutions do, and thus it is imperative to develop a stochastic evolutionary model that enables us to reliably calculate the probability of the sequence evolution through indel processes. Recently, indel probabilistic models are mostly based on either hidden Markov models (HMMs) or transducer theories, both of which give the indel component of the probability of a given sequence alignment as a product of either probabilities of column-to-column transitions or block-wise contributions along the alignment...
August 11, 2016: BMC Bioinformatics
Haitao Guo, Hongwei Huo, Qiang Yu
The discovery of cis-regulatory modules (CRMs) is a challenging problem in computational biology. Limited by the difficulty of using an HMM to model dependent features in transcriptional regulatory sequences (TRSs), the probabilistic modeling methods based on HMMs cannot accurately represent the distance between regulatory elements in TRSs and are cumbersome to model the prevailing dependencies between motifs within CRMs. We propose a probabilistic modeling algorithm called SMCis, which builds a more powerful CRM discovery model based on a hidden semi-Markov model...
2016: PloS One
Shunsuke Shigemitsu, Wei Cao, Tohru Terada, Kentaro Shimizu
BACKGROUND: "Tail-anchored (TA) proteins" is a collective term for transmembrane proteins with a C-terminal transmembrane domain (TMD) and without an N-terminal signal sequence. TA proteins account for approximately 3-5 % of all transmembrane proteins that mediate membrane fusion, regulation of apoptosis, and vesicular transport. The combined use of TMD and signal sequence prediction tools is typically required to predict TA proteins. RESULTS: Here we developed a prediction system named TAPPM that predicted TA proteins solely from target amino acid sequences according to the knowledge of the sequence features of TMDs and the peripheral regions of TA proteins...
2016: BMC Bioinformatics
Y Tang, Z Xi, M Xu, S Bäumer, A J L Adam, H P Urbach
Hyperbolic metamaterials (HMMs) are anisotropic materials with a permittivity tensor that has both positive and negative eigenvalues. Here we report that by using a type II HMM as a cladding material, a waveguide that only supports higher-order modes can be achieved, while the lower-order modes become leaky and are absorbed in the HMM cladding. This counter-intuitive property can lead to novel application in optical communications and photonic integrated circuits. The loss in our HMM insulator-HMM (HIH) waveguide is smaller than that of similar guided modes in a metal-insulator-metal (MIM) waveguide...
September 15, 2016: Optics Letters
Yepeng Ni, Jianbo Liu, Shan Liu, Yaxin Bai
With the rapid development of smartphones and wireless networks, indoor location-based services have become more and more prevalent. Due to the sophisticated propagation of radio signals, the Received Signal Strength Indicator (RSSI) shows a significant variation during pedestrian walking, which introduces critical errors in deterministic indoor positioning. To solve this problem, we present a novel method to improve the indoor pedestrian positioning accuracy by embedding a fuzzy pattern recognition algorithm into a Hidden Markov Model...
2016: Sensors
Md Golam Rabiul Alam, Sarder Fakhrul Abedin, Moshaddique Al Ameen, Choong Seon Hong
Ambient assisted living can facilitate optimum health and wellness by aiding physical, mental and social well-being. In this paper, patients' psychiatric symptoms are collected through lightweight biosensors and web-based psychiatric screening scales in a smart home environment and then analyzed through machine learning algorithms to provide ambient intelligence in a psychiatric emergency. The psychiatric states are modeled through a Hidden Markov Model (HMM), and the model parameters are estimated using a Viterbi path counting and scalable Stochastic Variational Inference (SVI)-based training algorithm...
2016: Sensors
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