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https://www.readbyqxmd.com/read/28335555/activity-recognition-and-semantic-description-for-indoor-mobile-localization
#1
Sheng Guo, Hanjiang Xiong, Xianwei Zheng, Yan Zhou
As a result of the rapid development of smartphone-based indoor localization technology, location-based services in indoor spaces have become a topic of interest. However, to date, the rich data resulting from indoor localization and navigation applications have not been fully exploited, which is significant for trajectory correction and advanced indoor map information extraction. In this paper, an integrated location acquisition method utilizing activity recognition and semantic information extraction is proposed for indoor mobile localization...
March 21, 2017: Sensors
https://www.readbyqxmd.com/read/28334975/apricot-an-integrated-computational-pipeline-for-the-sequence-based-identification-and-characterization-of-rna-binding-proteins
#2
Malvika Sharan, Konrad U Förstner, Ana Eulalio, Jörg Vogel
RNA-binding proteins (RBPs) have been established as core components of several post-transcriptional gene regulation mechanisms. Experimental techniques such as cross-linking and co-immunoprecipitation have enabled the identification of RBPs, RNA-binding domains (RBDs) and their regulatory roles in the eukaryotic species such as human and yeast in large-scale. In contrast, our knowledge of the number and potential diversity of RBPs in bacteria is poorer due to the technical challenges associated with the existing global screening approaches...
March 2, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334262/discriminating-the-reaction-types-of-plant-type-iii-polyketide-synthases
#3
Yugo Shimizu, Hiroyuki Ogata, Susumu Goto
Motivation: Functional prediction of paralogs is challenging in bioinformatics because of rapid functional diversification after gene duplication events combined with parallel acquisitions of similar functions by different paralogs. Plant type III polyketide synthases (PKSs), producing various secondary metabolites, represent a paralogous family that has undergone gene duplication and functional alteration. Currently, there is no computational method available for the functional prediction of type III PKSs...
March 6, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28333631/segmenting-multi-source-images-using-hidden-markov-fields-with-copula-based-multivariate-statistical-distributions
#4
Jerome Lapuyade-Lahorgue, Jing-Hao Xue, Su Ruan
Nowadays, multi-source image acquisition attracts an increasing interest in many fields such as multi-modal medical image segmentation. Such acquisition aims at considering complementary information to perform image segmentation since the same scene has been observed by various types of images. However, strong dependency often exists between multi-source images. This dependency should be taken into account when we try to extract joint information for precisely making a decision. In order to statistically model this dependency between multiple sources, we propose a novel multi-source fusion method based on the Gaussian copula...
March 21, 2017: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
https://www.readbyqxmd.com/read/28333490/harsh-parenting-child-behavior-problems-and-the-dynamic-coupling-of-parents-and-children-s-positive-behaviors
#5
Erika Lunkenheimer, Nilam Ram, Elizabeth A Skowron, Peifeng Yin
We examined self-reported maternal and paternal harsh parenting (HP) and its effect on the moment-to-moment dynamic coupling of maternal autonomy support and children's positive, autonomous behavior. This positive behavior coupling was measured via hidden Markov models as the likelihood of transitions into specific positive dyadic states in real time. We also examined whether positive behavior coupling, in turn, predicted later HP and child behavior problems. Children (N = 96; age = 3.5 years at Time 1) and mothers completed structured clean-up and puzzle tasks in the laboratory...
March 23, 2017: Journal of Family Psychology: JFP
https://www.readbyqxmd.com/read/28320669/regularized-speaker-adaptation-of-kl-hmm-for-dysarthric-speech-recognition
#6
Myungjong Kim, Younggwan Kim, Joohong Yoo, Jun Wang, Hoirin Kim
This paper addresses the problem of recognizing the speech uttered by patients with dysarthria, which is a motor speech disorder impeding the physical production of speech. Patients with dysarthria have articulatory limitation, and therefore, they often have trouble in pronouncing certain sounds, resulting in undesirable phonetic variation. Modern automatic speech recognition systems designed for regular speakers are ineffective for dysarthric sufferers due to the phonetic variation. To capture the phonetic variation, Kullback-Leibler divergence based hidden Markov model (KL-HMM) is adopted, where the emission probability of state is parametrized by a categorical distribution using phoneme posterior probabilities obtained from a deep neural network-based acoustic model...
March 13, 2017: IEEE Transactions on Neural Systems and Rehabilitation Engineering
https://www.readbyqxmd.com/read/28320661/fast-unsupervised-bayesian-image-segmentation-with-adaptive-spatial-regularisation
#7
Marcelo Pereyra, Stephen McLaughlin
This paper presents a new Bayesian estimation technique for hidden Potts-Markov random fields with unknown regularisation parameters, with application to fast unsupervised K-class image segmentation. The technique is derived by first removing the regularisation parameter from the Bayesian model by marginalisation, followed by a small-variance-asymptotic (SVA) analysis in which the spatial regularisation and the integer-constrained terms of the Potts model are decoupled. The evaluation of this SVA Bayesian estimator is then relaxed into a problem that can be computed efficiently by iteratively solving a convex total-variation denoising problem and a least-squares clustering (K-means) problem, both of which can be solved straightforwardly, even in high-dimensions, and with parallel computing techniques...
March 15, 2017: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
https://www.readbyqxmd.com/read/28320309/correlated-duplications-and-losses-in-the-evolution-of-palmitoylation-writer-and-eraser-families
#8
Stijn Wittouck, Vera van Noort
BACKGROUND: Protein post-translational modifications (PTMs) change protein properties. Each PTM type is associated with domain families that apply the modification (writers), remove the modification (erasers) and bind to the modified sites (readers) together called toolkit domains. The evolutionary origin and diversification remains largely understudied, except for tyrosine phosphorylation. Protein palmitoylation entails the addition of a palmitoyl fatty acid to a cysteine residue. This PTM functions as a membrane anchor and is involved in a range of cellular processes...
March 20, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28306515/decentralized-safety-concept-for-closed-loop-controlled-intensive-care
#9
Jan Kühn, Christian Brendle, André Stollenwerk, Martin Schweigler, Stefan Kowalewski, Thorsten Janisch, Rolf Rossaint, Steffen Leonhardt, Marian Walter, Rüdger Kopp
This paper presents a decentralized safety concept for networked intensive care setups, for which a decentralized network of sensors and actuators is realized by embedded microcontroller nodes. It is evaluated for up to eleven medical devices in a setup for automated acute respiratory distress syndrome (ARDS) therapy. In this contribution we highlight a blood pump supervision as exemplary safety measure, which allows a reliable bubble detection in an extracorporeal blood circulation. The approach is validated with data of animal experiments including 35 bubbles with a size between 0...
March 17, 2017: Biomedizinische Technik. Biomedical Engineering
https://www.readbyqxmd.com/read/28301424/joint-estimation-of-cd4-progression-and-survival-in-untreated-individuals-with-hiv-1-infection-a-pooled-analysis-of-data-from-25-countries
#10
T D Mangal
OBJECTIVE: We compiled the largest dataset of seroconverter cohorts to date from 25 countries across Africa, North America, Europe, and SE/E. Asia to simultaneously estimate transition rates between CD4 stages and death, in ART-naive HIV-1 infected individuals. DESIGN: A hidden Markov model incorporating a misclassification matrix was used to represent natural short-term fluctuations and measurement errors in CD4 counts. Covariates were included to estimate the transition rates and survival probabilities for each subgroup...
March 15, 2017: AIDS
https://www.readbyqxmd.com/read/28298214/climat-het-detecting-subclonal-copy-number-alterations-and-loss-of-heterozygosity-in-heterogeneous-tumor-samples-from-whole-genome-sequencing-data
#11
Zhenhua Yu, Ao Li, Minghui Wang
BACKGROUND: Copy number alterations (CNA) and loss of heterozygosity (LOH) represent a large proportion of genetic structural variations of cancer genomes. These aberrations are continuously accumulated during the procedure of clonal evolution and patterned by phylogenetic branching. This invariably results in the emergence of multiple cell populations with distinct complement of mutational landscapes in tumor sample. With the advent of next-generation sequencing technology, inference of subclonal populations has become one of the focused interests in cancer-associated studies, and is usually based on the assessment of combinations of somatic single-nucleotide variations (SNV), CNA and LOH...
March 15, 2017: BMC Medical Genomics
https://www.readbyqxmd.com/read/28288333/metric-learning-for-parkinsonian-identification-from-imu-gait-measurements
#12
Fabio Cuzzolin, Michael Sapienza, Patrick Esser, Suman Saha, Miss Marloes Franssen, Johnny Collett, Helen Dawes
Diagnosis of people with mild Parkinson's symptoms is difficult. Nevertheless, variations in gait pattern can be utilised to this purpose, when measured via Inertial Measurement Units (IMUs). Human gait, however, possesses a high degree of variability across individuals, and is subject to numerous nuisance factors. Therefore, off-the-shelf Machine Learning techniques may fail to classify it with the accuracy required in clinical trials. In this paper we propose a novel framework in which IMU gait measurement sequences sampled during a 10m walk are first encoded as hidden Markov models (HMMs) to extract their dynamics and provide a fixed-length representation...
February 27, 2017: Gait & Posture
https://www.readbyqxmd.com/read/28286217/full-reconstruction-of-non-stationary-strand-symmetric-models-on-rooted-phylogenies
#13
Benjamin D Kaehler
Understanding the evolutionary relationship among species is of fundamental importance to the biological sciences. The location of the root in any phylogenetic tree is critical as it gives an order to evolutionary events. None of the popular models of nucleotide evolution currently used in likelihood or Bayesian methods are able to infer the location of the root without exogenous information. It is known that the most general Markov models of nucleotide substitution also cannot identify the location of the root or be fitted to multiple sequence alignments with fewer than three sequences...
March 9, 2017: Journal of Theoretical Biology
https://www.readbyqxmd.com/read/28272531/non-invasive-prenatal-diagnosis-of-beta-thalassemia-by-semiconductor-sequencing-a-feasibility-study-in-the-sardinian-population
#14
Luisella Saba, Maddalena Masala, Valentina Capponi, Giuseppe Marceddu, Matteo Massidda, Maria Cristina Rosatelli
β-Thalassemia is the most common autosomal recessive single-gene disorder in Sardinia, where approximately 10.3% of the population is a carrier. Prenatal diagnosis is carried out at 12 weeks of gestation via villocentesis and is commonly aimed at ascertaining the presence or absence of the HBB variant c.118C>T, which is the most common in Sardinia. In this study, we describe for the first time the application of semiconductor sequencing to the non-invasive prenatal diagnosis of β-thalassemia in 37 couples at risk for this variant...
March 8, 2017: European Journal of Human Genetics: EJHG
https://www.readbyqxmd.com/read/28269158/detecting-cell-division-of-pseudomonas-aeruginosa-bacteria-from-bright-field-microscopy-images-with-hidden-conditional-random-fields
#15
Lee-Ling S Ong, Xinghua Zhang, Binu Kundukad, Justin Dauwels, Patrick Doyle, H Harry Asada
An approach to automatically detect bacteria division with temporal models is presented. To understand how bacteria migrate and proliferate to form complex multicellular behaviours such as biofilms, it is desirable to track individual bacteria and detect cell division events. Unlike eukaryotic cells, prokaryotic cells such as bacteria lack distinctive features, causing bacteria division difficult to detect in a single image frame. Furthermore, bacteria may detach, migrate close to other bacteria and may orientate themselves at an angle to the horizontal plane...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28269043/why-should-you-model-time-when-you-use-markov-models-for-heart-sound-analysis
#16
Jorge Oliveira, Theofrastos Mantadelis, Miguel Coimbra
Auscultation is a widely used technique in clinical activity to diagnose heart diseases. However, heart sounds are difficult to interpret because a) of events with very short temporal onset between them (tens of milliseconds) and b) dominant frequencies that are out of the human audible spectrum. In this paper, we propose a model to segment heart sounds using a semi-hidden Markov model instead of a hidden Markov model. Our model in difference from the state-of-the-art hidden Markov models takes in account the temporal constraints that exist in heart cycles...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28268961/a-novel-method-for-splice-sites-prediction-using-sequence-component-and-hidden-markov-model
#17
Elham Pashaei, Alper Yilmaz, Mustafa Ozen, Nizamettin Aydin
With increasing growth of DNA sequence data, it has become an urgent demand to develop new methods to accurately predict the genes. The performance of gene detection methods mainly depend on the efficiency of splice site prediction methods. In this paper, a novel method for detecting splice sites is proposed by using a new effective DNA encoding method and AdaBoost.M1 classifier. Our proposed DNA encoding method is based on multi-scale component (MSC) and first order Markov model (MM1). It has been applied to the HS3D dataset with repeated 10 fold cross validation...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28268809/automated-tracking-segmentation-and-trajectory-classification-of-pelvic-organs-on-dynamic-mri
#18
Iman Nekooeimehr, Susana Lai-Yuen, Paul Bao, Alfredo Weitzenfeld, Stuart Hart
Pelvic organ prolapse is a major health problem in women where pelvic floor organs (bladder, uterus, small bowel, and rectum) fall from their normal position and bulge into the vagina. Dynamic Magnetic Resonance Imaging (DMRI) is presently used to analyze the organs' movements from rest to maximum strain providing complementary support for diagnosis. However, there is currently no automated or quantitative approach to measure the movement of the pelvic organs and their correlation with the severity of prolapse...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28268642/hidden-markov-factor-analysis-as-a-spatiotemporal-model-for-electrocorticography
#19
Akinyinka Omigbodun, Werner K Doyle, Orrin Devinsky, Daniel Friedman, Thomas Thesen, Vikash Gilja
We present a new approach to extracting low-dimensional neural trajectories that summarize the electrocorticographic (ECoG) signals recorded with high-channel-count electrode arrays implanted subdurally. In our approach, Hidden-Markov Factor Analysis (HMFA), a finite set of factor analyzers are used to model the relationship between the high-dimensional ECoG neural space and a low-dimensional latent neural space; the factor analyzers at different time points are in turn linked together with a hidden Markov model...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28268626/multistep-model-for-predicting-upper-limb-3d-isometric-force-application-from-pre-movement-electrocorticographic-features
#20
Jing Wu, Benjamin R Shuman, Bingni W Brunton, Katherine M Steele, Jared D Olson, Rajesh P N Rao, Jeffrey G Ojemann
Neural correlates of movement planning onset and direction may be present in human electrocorticography in the signal dynamics of both motor and non-motor cortical regions. We use a three-stage model of jPCA reduced-rank hidden Markov model (jPCA-RR-HMM), regularized shrunken-centroid discriminant analysis (RDA), and LASSO regression to extract direction-sensitive planning information and movement onset in an upper-limb 3D isometric force task in a human subject. This mode achieves a relatively high true positive force-onset prediction rate of 60% within 250ms, and an above-chance 36% accuracy (17% chance) in predicting one of six planned 3D directions of isometric force using pre-movement signals...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
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