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Clemens Messerschmidt, Manuel Holtgrewe, Dieter Beule
Summary: We propose the simple method HLA-MA for consistency checking in pipelines operating on human HTS data. The method is based on the HLA typing result of the state-of-the-art method OptiType. Provided that there is sufficient coverage of the HLA loci, comparing HLA types allows for simple, fast, and robust matching of samples from whole genome, exome, and RNA-seq data. Our approach uses information from small but genetically highly variable regions and thus complements approaches that rely on genome or exon-wide variant profiles...
March 9, 2017: Bioinformatics
Asher Haug-Baltzell, Sean Stephens, Sean Davey, Carlos Scheidegger, Eric Lyons
Summary: Current synteny visualization tools either focus on small regions of sequence and do not illustrate genome-wide trends, or are complicated to use and create visualizations that are difficult to interpret. To address this challenge, The Comparative Genomics Platform (CoGe) has developed two web-based tools to visualize synteny across whole genomes. SynMap2 and SynMap3D allow researchers to explore whole genome synteny patterns (across two or three genomes, respectively) in responsive, web-based visualization and virtual reality environments...
March 16, 2017: Bioinformatics
Naor Vardi, Elihu Anouchi, Tony Yamin, Srimanta Middey, Michael Kareev, Jak Chakhalian, Yonatan Dubi, Amos Sharoni
Transition metal oxides are complex electronic systems that exhibit a multitude of collective phenomena. Two archetypal examples are VO2 and NdNiO3 , which undergo a metal-insulator phase transition (MIT), the origin of which is still under debate. Here this study reports the discovery of a memory effect in both systems, manifested through an increase of resistance at a specific temperature, which is set by reversing the temperature ramp from heating to cooling during the MIT. The characteristics of this ramp-reversal memory effect do not coincide with any previously reported history or memory effects in manganites, electron-glass or magnetic systems...
March 23, 2017: Advanced Materials
Tadashi Arao, Yosuke Okada, Keiichi Torimoto, Kei Sugai, Takashi Otsuka, Akira Kurozumi, Yoshiya Tanaka
We analyzed the effects of 100 mg/day sitagliptin and a switch to mitiglinide calcium hydrate/voglibose compound tablets (MIT/VOG) in patients with type 2 diabetes mellitus (T2DM) treated with 50 mg/day sitagliptin. Five patients with T2DM treated with 50 mg/day sitagliptin and hemoglobin A1c (HbA1c) of ≥6.5% were switched to MIT/VOG, or the dose of sitagliptin was increased to 100 mg/day. The effects of the changes in therapy were compared in a crossover fashion by continuous glucose monitoring. The primary endpoint was mean amplitude of glycemic excursions (MAGE), and the secondary end points were 24-hour mean blood glucose level and mean blood glucose level from 0:00 a...
2017: Journal of UOEH
M Arnaud, A Gallucci, N Graillon, L Guyot, C Chossegros, J M Foletti
INTRODUCTION: Minimally invasive techniques (MIT), including sialendoscopy, extracorporeal lithotripsy and intraoral approach, have to be preferred in parotid stones removal. In case of MIT failure, a combined intra- and extra-oral approach can be achieved. The aim of our study was to evaluate the efficacy and the complications of these combined approaches. MATERIALS AND METHODS: A retrospective study has been conducted on patients treated between 2006 and 2015...
February 2017: J Stomatol Oral Maxillofac Surg
Xu Peng, Yuqiao Guo, Qin Yin, Junchi Wu, Jiyin Zhao, Chengming Wang, Shi Tao, Wangsheng Chu, Changzheng Wu, Yi Xie
Electronic state transition especially for metal-insulator transition (MIT) offers physical properties useful in intriguing energy applications and smart devices. But to-date very few simple metal oxide possessed electronic transition near room-temperature. Herein, we demonstrate experimentally that chemical introduction of double-exchange in 2D nanomaterials brings a metal-insulator transition near room-temperature. In our case, valence-state regulation of 2D MnO2 nanosheet induces Mn(III)-O-Mn(IV) structure with double-exchange effect, successfully triggering near-room-temperature electronic transition with an ultrahigh negative magnetoresistance...
March 17, 2017: Journal of the American Chemical Society
Raeuf Roushangar, George I Mias
MathIOmica-MSViewer is an add-on graphical user interface utility for the Mathematica software system which facilitates the visualization and exploration of spectra from open format mass spectrometry files (mzXML and mzML standard community formats). The viewer was designed for simplicity and handling of large mass spectrometry data files. To facilitate searches, users may use search filters for the spectra based on mass to charge ratios and retention times, and visualize precursor spectra associated to a parent spectrum...
March 15, 2017: Journal of Mass Spectrometry: JMS
Mit Balvantray Bhavsar, Andreas Stumpner, Ralf Heinrich
We investigated brain regions - mostly neuropils - that process auditory information relevant for the initiation of response songs of female grasshoppers Chorthippus biguttulus during bidirectional intraspecific acoustic communication. Male-female acoustic duets in the species Ch. biguttulus require the perception of sounds, their recognition as a species- and gender-specific signal and the initiation of commands that activate thoracic pattern generating circuits to drive the sound-producing stridulatory movements of the hind legs...
March 9, 2017: Journal of Insect Physiology
(no author information available yet)
No abstract text is available yet for this article.
February 2017: Zeitschrift Für Evidenz, Fortbildung und Qualität Im Gesundheitswesen
Nunzia Pastore, Anna Vainshtein, Tiemo J Klisch, Andrea Armani, Tuong Huynh, Niculin J Herz, Elena V Polishchuk, Marco Sandri, Andrea Ballabio
TFE3 and TFEB are members of the MiT family of HLH-leucine zipper transcription factors. Recent studies demonstrated that they bind overlapping sets of promoters and are post-transcriptionally regulated through a similar mechanism. However, while Tcfeb knockout (KO) mice die during early embryonic development, no apparent phenotype was reported in Tfe3 KO mice. Thus raising the need to characterize the physiological role of TFE3 and elucidate its relationship with TFEB TFE3 deficiency resulted in altered mitochondrial morphology and function both in vitro and in vivo due to compromised mitochondrial dynamics...
March 10, 2017: EMBO Molecular Medicine
Joachim Labenz, Herbert Koop
Die Standardtherapie der GERD mit PPI ist weniger wirksam als gedacht: Mindestens 30 % der Patienten haben persistierende Symptome und Läsionen (Therapielücke). Bei persistierender Symptomatik oder Wunsch einer alternativen Behandlung ist eine stratifizierte Diagnostik erforderlich. Alginate und neue Operationsverfahren erweitern die Therapieoptionen.
March 2017: Deutsche Medizinische Wochenschrift
Alexander V Korjenevsky, Sergey Sapetsky
Application of the backprojection image reconstruction algorithm in magnetic induction tomography for imaging of low contrast inclusions in conductive background is investigated. Both numerical simulation and experimental results demonstrate that spatial redistribution of the sensitivity of measurements related with background conductivity does not affect the projection lines and keeps possibility of backprojection image reconstruction what is important in biomedical applications of MIT. The reconstruction algorithm is explained in detail...
March 10, 2017: Physiological Measurement
Meichuan Liu, Xue Ding, Qiwei Yang, Yu Wang, Guohua Zhao, Nianjun Yang
A simple and highly sensitive photoelectrochemical (PEC) sensor towards Microcystin-LR (MC-LR), a kind of typical cyanobacterial toxin in water samples, was developed on a surface molecular imprinted TiO2 coated multiwalled carbon nanotubes (MI-TiO2@CNTs) hybrid nanostructure. It was synthesized using a feasible two-step sol-gel method combining with in situ surface molecular imprinting technique (MIT). With a controllable core-shell tube casing structure, the resultant MI-TiO2@CNTs are enhanced greatly in visible-light driven response capacity...
February 21, 2017: Journal of Hazardous Materials
Nadi Sadr, Philip de Chazal
In this paper, we present an approximation method for principal component analysis (PCA) and apply it to estimating the respiration from the overnight ECG signal. The approximation method is computationally fast with low memory requirements. We compare it to a full PCA method which is applied to segments of the ECG. Features were calculated from the two ECG derived respiration signals (EDR) and classifiers trained to detect obstructive sleep apnoea (OSA). The Extreme Learning Machine and Linear Discriminant classifier were used to classify the recordings...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Boxiao Liu, Guoxing Wang, Yong Lian
This paper presents a computationally efficient FIR (finite impulse response) filter for ECG (electrocardiogram) baseline wander removal. The proposed filter is based on frequency-response masking (FRM) technique, which reduces the number of multiplications by 90% compared to the conventional FIR filter. The filter specifications are optimized to obtain the highest SNR (signal-to-noise ratio) while minimizing the number of filter coefficients. The SNR performance of the proposed filter is evaluated using ECG signals from MIT-BIH Arrhythmia Database with added baseline noises from MIT-BIH Noise Stress Test Database...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Tae Joon Jun, Hyun Ji Park, Hyuk Yoo, Young-Hak Kim, Daeyoung Kim
In this paper, we propose an GPU based Cloud system for high-performance arrhythmia detection. Pan-Tompkins algorithm is used for QRS detection and we optimized beat classification algorithm with K-Nearest Neighbor (K-NN). To support high performance beat classification on the system, we parallelized beat classification algorithm with CUDA to execute the algorithm on virtualized GPU devices on the Cloud system. MIT-BIH Arrhythmia database is used for validation of the algorithm. The system achieved about 93...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Juyoung Park, Mingon Kang, Junbeom Hur, Kyungtae Kang
In this paper, we propose a novel model for the appropriate recommendation of antiarrhythmic drugs by introducing a fusion of a latent semantic analysis and k-means clustering. Our model not only captures the latent factors between the types of arrhythmia and patients but also has the ability to search a group of patients with similar arrhythmias. The performance studies conducted against the MIT-BIH arrhythmia database show that clinicians accepted 66.67% of the drugs recommended from our model with a balanced f-score of 38...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Aleksandr A Fedotov, Anna S Akulova, Sergey A Akulov
The aim of this study is to create highly effective QRS-detector of electrocardiographic (ECG) signal based on the multiresolution wavelet analysis, set of nonlinear transforms and adaptive thresholding. The efficiency of various QRS-waves detectors for processing model ECG signals contaminated by artificially simulated intensive noise and artifacts was researched. The performance of the proposed method as well as some other well-known algorithms for QRS-waves detection was further verified for clinical ECG recordings from the Physionet MIT-BIH Arrhythmia database...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Sylvia Bugeja, Lalit Garg, Eliazar E Audu
In this paper we describe a simple and very fast method of data acquisition, feature extraction and feature space creation for epileptic seizure detection. The scalp electroencephalogram (EEG) dataset [1, 2] collected at the Children's Hospital Boston from 22 pediatric patients having 192 intractable seizures (available as CHB-MIT database) is used to assess this simple approach against existing ones [1, 3], with very positive results reaching up to 99.48% Sensitivity.
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Amit Juneja, Michael Marefat
Ventricular Tachycardia (VT) is a dangerous arrhythmic event which can lead to sudden cardiac death if not detected and taken care of in time. This work uses non-linear features derived from Recurrence Quantification Analysis (RQA) along with Kolmogorov complexity, by analyzing the ECG signals, to train a classifier which can predict VT prior to their onset in remote continuous health devices. Compressed ECG signal along with amplitude ranges extracted from the ECG signal are used as features to strengthen the classifier...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
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