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https://www.readbyqxmd.com/read/28813877/capture-learning-and-classification-of-upper-extremity-movement-primitives-in-healthy-controls-and-stroke-patients
#1
Jorge Guerra, Jasim Uddin, Dawn Nilsen, James Mclnerney, Ammarah Fadoo, Isirame B Omofuma, Shatif Hughes, Sunil Agrawal, Peter Allen, Heidi M Schambra
There currently exist no practical tools to identify functional movements in the upper extremities (UEs). This absence has limited the precise therapeutic dosing of patients recovering from stroke. In this proof-of-principle study, we aimed to develop an accurate approach for classifying UE functional movement primitives, which comprise functional movements. Data were generated from inertial measurement units (IMUs) placed on upper body segments of older healthy individuals and chronic stroke patients. Subjects performed activities commonly trained during rehabilitation after stroke...
July 2017: IEEE ... International Conference on Rehabilitation Robotics: [proceedings]
https://www.readbyqxmd.com/read/28807860/hidden-markov-modeling-of-frequency-following-responses-to-mandarin-lexical-tones
#2
Fernando Llanos, Zilong Xie, Bharath Chandrasekaran
BACKGROUND: The frequency-following response (FFR) is a scalp-recorded electrophysiological potential reflecting phase-locked activity from neural ensembles in the auditory system. The FFR is often used to assess the robustness of subcortical pitch processing. Due to low signal-to-noise ratio at the single-trial level, FFRs are typically averaged across thousands of stimulus repetitions. Prior work using this approach has shown that subcortical encoding of linguistically-relevant pitch patterns is modulated by long-term language experience...
August 11, 2017: Journal of Neuroscience Methods
https://www.readbyqxmd.com/read/28771616/quantification-of-transplant-derived-circulating-cell-free-dna-in-absence-of-a-donor-genotype
#3
Eilon Sharon, Hao Shi, Sandhya Kharbanda, Winston Koh, Lance R Martin, Kiran K Khush, Hannah Valantine, Jonathan K Pritchard, Iwijn De Vlaminck
Quantification of cell-free DNA (cfDNA) in circulating blood derived from a transplanted organ is a powerful approach to monitoring post-transplant injury. Genome transplant dynamics (GTD) quantifies donor-derived cfDNA (dd-cfDNA) by taking advantage of single-nucleotide polymorphisms (SNPs) distributed across the genome to discriminate donor and recipient DNA molecules. In its current implementation, GTD requires genotyping of both the transplant recipient and donor. However, in practice, donor genotype information is often unavailable...
August 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28766669/broadband-room-temperature-strong-coupling-between-quantum-dots-and-metamaterials
#4
Chaitanya Indukuri, Ravindra Kumar Yadav, J K Basu
Herein, we report the first demonstration of room temperature enhanced light-matter coupling in the visible regime for metamaterials using cooperative coupled quasi two dimensional quantum dot assemblies located at precise distances from the hyperbolic metamaterial (HMM) templates. The non-monotonic variation of the magnitude of strong coupling, manifested in terms of strong splitting of the photoluminescence of quantum dots, can be explained in terms of enhanced LDOS near the surface of such metamaterials as well as the plasmon mediated super-radiance of closely spaced quantum dots (QDs)...
August 2, 2017: Nanoscale
https://www.readbyqxmd.com/read/28744863/classification-of-changes-occurring-in-lung-patient-during-radiotherapy-using-relative-%C3%AE-analysis-and-hidden-markov-models
#5
Nicolas Varfalvy, Ophelie Piron, Marc François Cyr, Anne Dagnault, Louis Archambault
PURPOSE: to present a new automated patient classification method based on relative gamma analysis and hidden Markov models (HMM) to identify patients undergoing important anatomical changes during radiation therapy. METHODS: daily EPID images of every treatment field were acquired for 52 patients treated for lung cancer. In addition, CBCT were acquired on a regular basis. Gamma analysis was performed relative to the first fraction given that no significant anatomical change was observed on the CBCT of the first fraction compared to the planning CT...
July 26, 2017: Medical Physics
https://www.readbyqxmd.com/read/28742155/acceleration-of-the-sliding-movement-of-actin-filaments-with-the-use-of-a-non-motile-mutant-myosin-in-in-vitro-motility-assays-driven-by-skeletal-muscle-heavy-meromyosin
#6
Kohei Iwase, Masateru Tanaka, Keiko Hirose, Taro Q P Uyeda, Hajime Honda
We examined the movement of an actin filament sliding on a mixture of normal and genetically modified myosin molecules that were attached to a glass surface. For this purpose, we used a Dictyostelium G680V mutant myosin II whose release rates of Pi and ADP were highly suppressed relative to normal myosin, leading to a significantly extended life-time of the strongly bound state with actin and virtually no motility. When the mixing ratio of G680V mutant myosin II to skeletal muscle HMM (heavy myosin) was 0.01%, the actin filaments moved intermittently...
2017: PloS One
https://www.readbyqxmd.com/read/28726751/an-adaptive-feature-learning-model-for-sequential-radar-high-resolution-range-profile-recognition
#7
Xuan Peng, Xunzhang Gao, Yifan Zhang, Xiang Li
This paper proposes a new feature learning method for the recognition of radar high resolution range profile (HRRP) sequences. HRRPs from a period of continuous changing aspect angles are jointly modeled and discriminated by a single model named the discriminative infinite restricted Boltzmann machine (Dis-iRBM). Compared with the commonly used hidden Markov model (HMM)-based recognition method for HRRP sequences, which requires efficient preprocessing of the HRRP signal, the proposed method is an end-to-end method of which the input is the raw HRRP sequence, and the output is the label of the target...
July 20, 2017: Sensors
https://www.readbyqxmd.com/read/28718051/coronary-heart-disease-preoperative-gesture-interactive-diagnostic-system-based-on-augmented-reality
#8
Yi-Bo Zou, Yi-Min Chen, Ming-Ke Gao, Quan Liu, Si-Yu Jiang, Jia-Hui Lu, Chen Huang, Ze-Yu Li, Dian-Hua Zhang
Coronary heart disease preoperative diagnosis plays an important role in the treatment of vascular interventional surgery. Actually, most doctors are used to diagnosing the position of the vascular stenosis and then empirically estimating vascular stenosis by selective coronary angiography images instead of using mouse, keyboard and computer during preoperative diagnosis. The invasive diagnostic modality is short of intuitive and natural interaction and the results are not accurate enough. Aiming at above problems, the coronary heart disease preoperative gesture interactive diagnostic system based on Augmented Reality is proposed...
August 2017: Journal of Medical Systems
https://www.readbyqxmd.com/read/28710494/near-infrared-surface-enhanced-raman-scattering-based-on-star-shaped-gold-silver-nanoparticles-and-hyperbolic-metamaterial
#9
Chih-Hsien Lai, Guo-An Wang, Tsung-Kai Ling, Tzyy-Jiann Wang, Po-Kai Chiu, Yuan-Fong Chou Chau, Chih-Ching Huang, Hai-Pang Chiang
It is desirable to extend the surface-enhanced Raman scattering (SERS) from the conventionally used visible range into the infrared region, because the fluorescence background is lower in the long-wavelength regime. To do this, it is important to have a SERS substrate suitable for infrared operation. In this work, we report the near infrared SERS operation based on the substrates employing star-shaped gold/silver nanoparticles and hyperbolic metamaterial (HMM) structure. We first fabricate the SERS substrate in which nanoparticles are separated from a silver film by a thin dielectric layer...
July 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28666322/svm-dependent-pairwise-hmm-an-application-to-protein-pairwise-alignments
#10
Gabriele Orlando, Daniele Raimondi, Taushif Khan, Tom Lenaerts, Wim Vranken
Motivation: Methods able to provide reliable protein alignments are crucial for many bioinformatics applications. In the last years many different algorithms have been developed and various kinds of information, from sequence conservation to secondary structure, have been used to improve the alignment performances. This is especially relevant for proteins with highly divergent sequences. However, recent works suggest that different features may have different importance in diverse protein classes and it would be an advantage to have more customizable approaches, capable to deal with different alignment definitions...
June 28, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28664514/comparative-and-bioinformatics-analyses-of-pathogenic-bacterial-secretomes-identified-by-mass-spectrometry-in-burkholderia-species
#11
Thao Thi Nguyen, Tae-Soo Chon, Jaehan Kim, Young-Su Seo, Muyoung Heo
Secreted proteins (secretomes) play crucial roles during bacterial pathogenesis in both plant and human hosts. The identification and characterization of secretomes in the two plant pathogens Burkholderia glumae BGR1 and B. gladioli BSR3, which cause diseases in rice such as seedling blight, panicle blight, and grain rot, are important steps to not only understand the disease-causing mechanisms but also find remedies for the diseases. Here, we identified two datasets of secretomes in B. glumae BGR1 and B. gladioli BSR3, which consist of 118 and 111 proteins, respectively, using mass spectrometry approach and literature curation...
July 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28649598/an-analysis-of-two-common-reference-points-for-eegs
#12
S López, A Gross, S Yang, M Golmohammadi, I Obeid, J Picone
Clinical electroencephalographic (EEG) data varies significantly depending on a number of operational conditions (e.g., the type and placement of electrodes, the type of electrical grounding used). This investigation explores the statistical differences present in two different referential montages: Linked Ear (LE) and Averaged Reference (AR). Each of these accounts for approximately 45% of the data in the TUH EEG Corpus. In this study, we explore the impact this variability has on machine learning performance...
December 2016: ... IEEE Signal Processing in Medicine and Biology Symposium. IEEE Signal Processing in Medicine and Biology Symposium
https://www.readbyqxmd.com/read/28649484/enhancing-the-angular-sensitivity-of-plasmonic-sensors-using-hyperbolic-metamaterials
#13
Kandammathe Valiyaveedu Sreekanth, Yunus Alapan, Mohamed ElKabbash, Amy M Wen, Efe Ilker, Michael Hinczewski, Umut A Gurkan, Nicole F Steinmetz, Giuseppe Strangi
Surface plasmon resonance (SPR) sensors operate mainly on prism and grating coupling techniques, with spectral and angular scans being the two major interrogation schemes. Among them, the angular scan technique has several advantages including higher measurement precision owing to its higher signal-to-noise ratio. The currently available SPR sensor arrangements provide a maximum angular sensitivity of 500°-600° per RIU. Here, we report the study of grating coupled-hyperbolic metamaterial (GC-HMM) sensors with high angular sensitivity...
November 2016: Advanced Optical Materials
https://www.readbyqxmd.com/read/28639636/hyperbolic-metamaterials-for-dispersion-assisted-directional-light-emission
#14
Lorenzo Ferrari, Joseph Stephen Thomas Smalley, Yeshaiahu Fainman, Zhaowei Liu
A novel method is presented to outcouple high spatial frequency (large-k) waves from hyperbolic metamaterials (HMMs) without the use of a grating. This approach relies exclusively on dispersion engineering, and enables preferential power extraction from the top or from the side of a HMM. Multilayer (ML) HMMs are shown to be better suited for lateral outcoupling, while nanowire HMMs are the most convenient choice for top outcoupling. A 6-fold increase in laterally extracted power is predicted for a dipole-HMM system with a Ag/Si ML operating at λ = 530 nm, when metallic filling ratio is changed from an unoptimized to the optimized one...
July 6, 2017: Nanoscale
https://www.readbyqxmd.com/read/28606054/variable-order-sequence-modeling-improves-bacterial-strain-discrimination-for-ion-torrent-dna-reads
#15
Thomas M Poulsen, Martin Frith
BACKGROUND: Genome sequencing provides a powerful tool for pathogen detection and can help resolve outbreaks that pose public safety and health risks. Mapping of DNA reads to genomes plays a fundamental role in this approach, where accurate alignment and classification of sequencing data is crucial. Standard mapping methods crudely treat bases as independent from their neighbors. Accuracy might be improved by using higher order paired hidden Markov models (HMMs), which model neighbor effects, but introduce design and implementation issues that have typically made them impractical for read mapping applications...
June 12, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28581882/nutriproteomic-analysis-of-hwangmaemok-induced-antiangiogenic-effect-using-antibody-arrayed-protein-chip-assay
#16
Yu Mi Park, Min-A Kim, Hee Tae Jung, Hwa Jeong Kang, Hwa-Seung Yoo, In-Cheol Kang
We investigated the antiangiogenic effects of Lindera obtusiloba Blume (Hwangmaemok, HMM), which is a plant in the Lauraceae family that is commonly used to treat colds and gastritis. Moreover, given that a recent study reported the inhibitory effects of HMM extract on cancer metastasis, we hypothesized that HMM extract might possess and antiangiogenic function. Thus, this study was conducted to investigate the effects of HMM extract on endothelial cell proliferation, migration, and neovascularization in chick chorioallantoic membrane (CAM), and investigated the molecular mechanism of antiangiogenesis using a ProteoChip-based proteomics technology...
June 2017: Journal of Medicinal Food
https://www.readbyqxmd.com/read/28581481/charge-transfer-dynamics-and-nonlocal-dielectric-permittivity-tuned-with-metamaterial-structures-as-solvent-analogues
#17
Kwang Jin Lee, Yiming Xiao, Jae Heun Woo, Eunsun Kim, David Kreher, André-Jean Attias, Fabrice Mathevet, Jean-Charles Ribierre, Jeong Weon Wu, Pascal André
Charge transfer (CT) is a fundamental and ubiquitous mechanism in biology, physics and chemistry. Here, we evidence that CT dynamics can be altered by multi-layered hyperbolic metamaterial (HMM) substrates. Taking triphenylene:perylene diimide dyad supramolecular self-assemblies as a model system, we reveal longer-lived CT states in the presence of HMM structures, with both charge separation and recombination characteristic times increased by factors of 2.4 and 1.7-that is, relative variations of 140 and 73%, respectively...
July 2017: Nature Materials
https://www.readbyqxmd.com/read/28570142/an-efficient-approach-to-explore-and-discriminate-anomalous-regions-in-bacterial-genomes-based-on-maximum-entropy
#18
Gesiele Almeida Barros-Carvalho, Marie-Anne Van Sluys, Fabricio Martins Lopes
Recently, there has been an increase in the number of whole bacterial genomes sequenced, mainly due to the advancing of next-generation sequencing technologies. In face of this, there is a need to provide new analytical alternatives that can follow this advance. Given our current knowledge about the genomic plasticity of bacteria and that those genomic regions can uncover important features about this microorganism, our goal was to develop a fast methodology based on maximum entropy (ME) to guide the researcher to regions that could be prioritized during the analysis...
June 1, 2017: Journal of Computational Biology: a Journal of Computational Molecular Cell Biology
https://www.readbyqxmd.com/read/28538149/icon-an-adaptation-of-infinite-hmms-for-time-traces-with-drift
#19
Ioannis Sgouralis, Steve Pressé
Bayesian nonparametric methods have recently transformed emerging areas within data science. One such promising method, the infinite hidden Markov model (iHMM), generalizes the HMM that itself has become a workhorse in single molecule data analysis. The iHMM goes beyond the HMM by self-consistently learning all parameters learned by the HMM in addition to learning the number of states without recourse to any model selection steps. Despite its generality, simple features (such as drift), common to single molecule time traces, result in an overinterpretation of drift and the introduction of artifact states...
May 23, 2017: Biophysical Journal
https://www.readbyqxmd.com/read/28538142/an-introduction-to-infinite-hmms-for-single-molecule-data-analysis
#20
REVIEW
Ioannis Sgouralis, Steve Pressé
The hidden Markov model (HMM) has been a workhorse of single-molecule data analysis and is now commonly used as a stand-alone tool in time series analysis or in conjunction with other analysis methods such as tracking. Here, we provide a conceptual introduction to an important generalization of the HMM, which is poised to have a deep impact across the field of biophysics: the infinite HMM (iHMM). As a modeling tool, iHMMs can analyze sequential data without a priori setting a specific number of states as required for the traditional (finite) HMM...
May 23, 2017: Biophysical Journal
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