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https://www.readbyqxmd.com/read/28435123/is-having-similar-eye-movement-patterns-during-face-learning-and-recognition-beneficial-for-recognition-performance-evidence-from-hidden-markov-modeling
#1
Tim Chuk, Antoni B Chan, Janet Hsiao
The hidden Markov model (HMM)-based approach for eye movement analysis is able to reflect individual differences in both spatial and temporal aspects of eye movements. Here we used this approach to understand the relationship between eye movements during face learning and recognition, and its association with recognition performance. We discovered holistic (i.e., mainly looking at the face center) and analytic (i.e., specifically looking at the two eyes in addition to the face center) patterns during both learning and recognition...
April 20, 2017: Vision Research
https://www.readbyqxmd.com/read/28433414/diffusion-tensor-imaging-findings-and-cognitive-function-following-hospitalised-mixed-mechanism-mild-traumatic-brain-injury-a-systematic-review-and-meta-analysis
#2
REVIEW
Lucy Oehr, Jacqueline Anderson
OBJECTIVE: To undertake a systematic review and meta-analysis of the relationship between microstructural damage and cognitive function following hospitalised mixed-mechanism (HMM) mild traumatic brain injury (mTBI). DATA SOURCES: PsycInfo, Embase, and Medline were used to find relevant empirical papers published between January 2002 to January 2016. STUDY SELECTION: Studies that examined the specific relationship between diffusion tensor imaging (DTI) and cognitive test performance were included...
April 19, 2017: Archives of Physical Medicine and Rehabilitation
https://www.readbyqxmd.com/read/28417113/temporal-registration-in-in-utero-volumetric-mri-time-series
#3
Ruizhi Liao, Esra A Turk, Miaomiao Zhang, Jie Luo, P Ellen Grant, Elfar Adalsteinsson, Polina Golland
We present a robust method to correct for motion and deformations in in-utero volumetric MRI time series. Spatio-temporal analysis of dynamic MRI requires robust alignment across time in the presence of substantial and unpredictable motion. We make a Markov assumption on the nature of deformations to take advantage of the temporal structure in the image data. Forward message passing in the corresponding hidden Markov model (HMM) yields an estimation algorithm that only has to account for relatively small motion between consecutive frames...
October 2016: Medical Image Computing and Computer-assisted Intervention: MICCAI ..
https://www.readbyqxmd.com/read/28409487/scanpath-modeling-and-classification-with-hidden-markov-models
#4
Antoine Coutrot, Janet H Hsiao, Antoni B Chan
How people look at visual information reveals fundamental information about them; their interests and their states of mind. Previous studies showed that scanpath, i.e., the sequence of eye movements made by an observer exploring a visual stimulus, can be used to infer observer-related (e.g., task at hand) and stimuli-related (e.g., image semantic category) information. However, eye movements are complex signals and many of these studies rely on limited gaze descriptors and bespoke datasets. Here, we provide a turnkey method for scanpath modeling and classification...
April 13, 2017: Behavior Research Methods
https://www.readbyqxmd.com/read/28408921/phase-segmentation-methods-for-an-automatic-surgical-workflow-analysis
#5
Dinh Tuan Tran, Ryuhei Sakurai, Hirotake Yamazoe, Joo-Ho Lee
In this paper, we present robust methods for automatically segmenting phases in a specified surgical workflow by using latent Dirichlet allocation (LDA) and hidden Markov model (HMM) approaches. More specifically, our goal is to output an appropriate phase label for each given time point of a surgical workflow in an operating room. The fundamental idea behind our work lies in constructing an HMM based on observed values obtained via an LDA topic model covering optical flow motion features of general working contexts, including medical staff, equipment, and materials...
2017: International Journal of Biomedical Imaging
https://www.readbyqxmd.com/read/28405277/a-hidden-markov-movement-model-for-rapidly-identifying-behavioral-states-from-animal-tracks
#6
Kim Whoriskey, Marie Auger-Méthé, Christoffer M Albertsen, Frederick G Whoriskey, Thomas R Binder, Charles C Krueger, Joanna Mills Flemming
Electronic telemetry is frequently used to document animal movement through time. Methods that can identify underlying behaviors driving specific movement patterns can help us understand how and why animals use available space, thereby aiding conservation and management efforts. For aquatic animal tracking data with significant measurement error, a Bayesian state-space model called the first-Difference Correlated Random Walk with Switching (DCRWS) has often been used for this purpose. However, for aquatic animals, highly accurate tracking data are now becoming more common...
April 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28403817/homology-to-peptide-pattern-for-annotation-of-carbohydrate-active-enzymes-and-prediction-of-function
#7
P K Busk, B Pilgaard, M J Lezyk, A S Meyer, L Lange
BACKGROUND: Carbohydrate-active enzymes are found in all organisms and participate in key biological processes. These enzymes are classified in 274 families in the CAZy database but the sequence diversity within each family makes it a major task to identify new family members and to provide basis for prediction of enzyme function. A fast and reliable method for de novo annotation of genes encoding carbohydrate-active enzymes is to identify conserved peptides in the curated enzyme families followed by matching of the conserved peptides to the sequence of interest as demonstrated for the glycosyl hydrolase and the lytic polysaccharide monooxygenase families...
April 12, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28401336/genome-wide-identification-and-characterization-of-nb-arc-resistant-genes-in-wheat-triticum-aestivum-l-and-their-expression-during-leaf-rust-infection
#8
Saket Chandra, Andaleeb Z Kazmi, Zainab Ahmed, Gargi Roychowdhury, Veena Kumari, Manish Kumar, Kunal Mukhopadhyay
NB-ARC domain-containing resistance genes from the wheat genome were identified, characterized and localized on chromosome arms that displayed differential yet positive response during incompatible and compatible leaf rust interactions. Wheat (Triticum aestivum L.) is an important cereal crop; however, its production is affected severely by numerous diseases including rusts. An efficient, cost-effective and ecologically viable approach to control pathogens is through host resistance. In wheat, high numbers of resistance loci are present but only few have been identified and cloned...
April 11, 2017: Plant Cell Reports
https://www.readbyqxmd.com/read/28373668/double-stacked-hyperbolic-metamaterial-waveguide-arrays-for-efficient-and-broadband-terahertz-quarter-wave-plates
#9
Xianmin Ke, Hua Zhu, Junhao Li, Lin Chen, Xun Li
We demonstrate how it is possible to achieve weak dispersion in the phase delay between two orthogonal polarization states by using double-stacked hyperbolic metamaterial (HMM) waveguide arrays. The weak dispersion in the phase delay originates from the different signs of phase delay from the two different HMM waveguide arrays. The condition of dispersion-free phase delay for the transmitted waves has been theoretically derived from the transmission matrix as the propagation characteristic of the HMM waveguide is involved...
April 3, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28361954/hidden-markov-models-reveal-complexity-in-the-diving-behaviour-of-short-finned-pilot-whales
#10
Nicola J Quick, Saana Isojunno, Dina Sadykova, Matthew Bowers, Douglas P Nowacek, Andrew J Read
Diving behaviour of short-finned pilot whales is often described by two states; deep foraging and shallow, non-foraging dives. However, this simple classification system ignores much of the variation that occurs during subsurface periods. We used multi-state hidden Markov models (HMM) to characterize states of diving behaviour and the transitions between states in short-finned pilot whales. We used three parameters (number of buzzes, maximum dive depth and duration) measured in 259 dives by digital acoustic recording tags (DTAGs) deployed on 20 individual whales off Cape Hatteras, North Carolina, USA...
March 31, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28361708/sequoia-significance-enhanced-network-querying-through-context-sensitive-random-walk-and-minimization-of-network-conductance
#11
Hyundoo Jeong, Byung-Jun Yoon
BACKGROUND: Network querying algorithms provide computational means to identify conserved network modules in large-scale biological networks that are similar to known functional modules, such as pathways or molecular complexes. Two main challenges for network querying algorithms are the high computational complexity of detecting potential isomorphism between the query and the target graphs and ensuring the biological significance of the query results. RESULTS: In this paper, we propose SEQUOIA, a novel network querying algorithm that effectively addresses these issues by utilizing a context-sensitive random walk (CSRW) model for network comparison and minimizing the network conductance of potential matches in the target network...
March 14, 2017: BMC Systems Biology
https://www.readbyqxmd.com/read/28335555/activity-recognition-and-semantic-description-for-indoor-mobile-localization
#12
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/28320669/regularized-speaker-adaptation-of-kl-hmm-for-dysarthric-speech-recognition
#13
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/28320309/correlated-duplications-and-losses-in-the-evolution-of-palmitoylation-writer-and-eraser-families
#14
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/28289426/transcriptome-wide-identification-classification-and-characterization-of-ap2-erf-family-genes-in-the-desert-moss-syntrichia-caninervis
#15
Xiaoshuang Li, Daoyuan Zhang, Bei Gao, Yuqing Liang, Honglan Yang, Yucheng Wang, Andrew J Wood
APETALA2/Ethylene Responsive Factor (AP2/ERF) is a large family of plant transcription factors which play important roles in the control of plant metabolism and development as well as responses to various biotic and abiotic stresses. The desert moss Syntrichia caninervis, due to its robust and comprehensive stress tolerance, is a promising organism for the identification of stress-related genes. Using S. caninervis transcriptome data, 80 AP2/ERF unigenes were identified by HMM modeling and BLASTP searching...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28287133/activated-full-length-myosin-x-moves-processively-on-filopodia-with-large-steps-toward-diverse-two-dimensional-directions
#16
Osamu Sato, Hyun Suk Jung, Satoshi Komatsu, Yoshikazu Tsukasaki, Tomonobu M Watanabe, Kazuaki Homma, Mitsuo Ikebe
Myosin-X, (Myo 10), is an unconventional myosin that transports the specific cargos to filopodial tips, and is associated with the mechanism underlying filopodia formation and extension. To clarify the innate motor characteristic, we studied the single molecule movement of a full-length myosin-X construct with leucine zipper at the C-terminal end of the tail (M10(Full)LZ) and the tail-truncated myosin-X without artificial dimerization motif (BAP-M10(1-979)HMM). M10(Full)LZ localizes at the tip of filopodia like myosin-X full-length (M10(Full))...
March 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28272531/non-invasive-prenatal-diagnosis-of-beta-thalassemia-by-semiconductor-sequencing-a-feasibility-study-in-the-sardinian-population
#17
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...
May 2017: European Journal of Human Genetics: EJHG
https://www.readbyqxmd.com/read/28269527/predicting-short-term-icu-outcomes-using-a-sequential-contrast-motif-based-classification-framework
#18
Shameek Ghosh, Hung Nguyen, Jinyan Li
Critical ICU events like acute hypotension and septic shock are dangerous complications, leading to multiple organ failures and eventual death. Previously, pattern mining algorithms have been employed for extracting interesting rules in various clinical domains. However, the extracted rules are directly investigated by clinicians for diagnosing a disease. Towards this purpose, there is a need to develop advanced prediction models which integrate dynamic patterns to learn a patient's physiological condition...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28269158/detecting-cell-division-of-pseudomonas-aeruginosa-bacteria-from-bright-field-microscopy-images-with-hidden-conditional-random-fields
#19
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/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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