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https://www.readbyqxmd.com/read/28101858/coiled-coil-design-updated-and-upgraded
#1
Derek N Woolfson
α-Helical coiled coils are ubiquitous protein-folding and protein-interaction domains in which two or more α-helical chains come together to form bundles. Through a combination of bioinformatics analysis of many thousands of natural coiled-coil sequences and structures, plus empirical protein engineering and design studies, there is now a deep understanding of the sequence-to-structure relationships for this class of protein architecture. This has led to considerable success in rational design and what might be termed in biro de novo design of simple coiled coils, which include homo- and hetero-meric parallel dimers, trimers and tetramers...
2017: Sub-cellular Biochemistry
https://www.readbyqxmd.com/read/28101733/3d-absorbed-dose-distribution-estimated-by-monte-carlo-simulation-in-radionuclide-therapy-with-a-monoclonal-antibody-targeting-synovial-sarcoma
#2
David Sarrut, Jean-Noël Badel, Adrien Halty, Gwenaelle Garin, David Perol, Philippe Cassier, Jean-Yves Blay, David Kryza, Anne-Laure Giraudet
BACKROUND: Radiolabeled OTSA101, a monoclonal antibody targeting synovial sarcoma (SS) developed by OncoTherapy Science, was used to treat relapsing SS metastases following a theranostic procedure: in case of significant (111)In-OTSA101 tumor uptake and favorable biodistribution, patient was randomly treated with 370/1110 MBq (90)Y-OTSA101. Monte Carlo-based 3D dosimetry integrating time-activity curves in VOI was performed on (111)In-OTSA101 repeated SPECT/CT. Estimated absorbed doses (AD) in normal tissues were compared to biological side effects and to the admitted maximal tolerated absorbed dose (MTD) in normal organs...
December 2017: EJNMMI Physics
https://www.readbyqxmd.com/read/28100828/an-integrated-modelling-framework-for-neural-circuits-with-multiple-neuromodulators
#3
Alok Joshi, Vahab Youssofzadeh, Vinith Vemana, T M McGinnity, Girijesh Prasad, KongFatt Wong-Lin
Neuromodulators are endogenous neurochemicals that regulate biophysical and biochemical processes, which control brain function and behaviour, and are often the targets of neuropharmacological drugs. Neuromodulator effects are generally complex partly owing to the involvement of broad innervation, co-release of neuromodulators, complex intra- and extrasynaptic mechanism, existence of multiple receptor subtypes and high interconnectivity within the brain. In this work, we propose an efficient yet sufficiently realistic computational neural modelling framework to study some of these complex behaviours...
January 2017: Journal of the Royal Society, Interface
https://www.readbyqxmd.com/read/28100048/unanticipated-stickiness-of-%C3%AE-pinene
#4
Hilary M Chase, Junming Ho, Mary Alice Upshur, Regan J Thomson, Victor S Batista, Franz M Geiger
Hilary M. Chase1#, Junming Ho2#, Mary Alice Upshur1, Regan J. Thomson1, Victor S. Batista3, Franz M. Geiger1* 1Department of Chemistry, Northwestern University, Evanston, IL. 60208, United States; 2 Agency for Science, Technology and Research, Institute of High Performance Computing, 1 Fusionopolis Way #16-16 Connexis North, Singapore 138632; 3Department of Chemistry, Yale University, P.O. Box 208107, New Haven, CT. 06520, United States # These authors contributed equally to this work. *corresponding author: geigerf@chem...
January 19, 2017: Journal of Physical Chemistry. A
https://www.readbyqxmd.com/read/28095968/catathrenia-nocturnal-groaning-a-social-media-survey-and-state-of-the-art-review
#5
Jose Alonso, Macario Camacho, Dinesh K Chhetri, Christian Guilleminault, Soroush Zaghi
STUDY OBJECTIVES: Catathrenia is an underrecognized nocturnal vocalization phenomenon that can be a source of perplexity to patients, bed partners, and medical providers. Catathrenia is distinct from both sleep talking (a parasomnia with loud talking during sleep) and snoring (noise due to vibration of upper airway soft tissues related to variations in airway resistance). The objective of this review is to provide an evidence-based resource to help the practitioner reliably evaluate and manage patients with this condition...
January 11, 2017: Journal of Clinical Sleep Medicine: JCSM: Official Publication of the American Academy of Sleep Medicine
https://www.readbyqxmd.com/read/28095195/deep-learning-with-dynamic-spiking-neurons-and-fixed-feedback-weights
#6
Arash Samadi, Timothy P Lillicrap, Douglas B Tweed
Recent work in computer science has shown the power of deep learning driven by the backpropagation algorithm in networks of artificial neurons. But real neurons in the brain are different from most of these artificial ones in at least three crucial ways: they emit spikes rather than graded outputs, their inputs and outputs are related dynamically rather than by piecewise-smooth functions, and they have no known way to coordinate arrays of synapses in separate forward and feedback pathways so that they change simultaneously and identically, as they do in backpropagation...
January 17, 2017: Neural Computation
https://www.readbyqxmd.com/read/28094102/single-cell-genomics-approaches-and-utility-in-immunology
#7
REVIEW
Karlynn E Neu, Qingming Tang, Patrick C Wilson, Aly A Khan
Single-cell genomics offers powerful tools for studying immune cells, which make it possible to observe rare and intermediate cell states that cannot be resolved at the population level. Advances in computer science and single-cell sequencing technology have created a data-driven revolution in immunology. The challenge for immunologists is to harness computing and turn an avalanche of quantitative data into meaningful discovery of immunological principles, predictive models, and strategies for therapeutics...
January 13, 2017: Trends in Immunology
https://www.readbyqxmd.com/read/28089506/evaluation-of-the-predictive-value-of-placental-vascularisation-indices-derived-from-3-dimensional-power-doppler-whole-placental-volume-scanning-for-prediction-of-pre-eclampsia-a-systematic-review-and-meta-analysis
#8
K A Eastwood, C Patterson, A J Hunter, D R McCance, I S Young, V A Holmes
Pre-eclampsia remains a leading cause of maternal and fetal morbidity and mortality. This systematic review aims to evaluate the ability of placental vascularisation indices (PVIs) derived from 3D power Doppler whole placental volume scanning to predict early, late and any-onset pre-eclampsia (PE). The following databases were searched: MEDLINE, EMBASE and Web of Science. Studies selected for inclusion measured PVIs: Vascularisation Index (%) (VI) and/or Flow Index (FI) and/or Vascularisation Flow Index (VFI) derived from 3D power Doppler whole placental volume scanning via Virtual Organ Computer-aided Analysis (VOCAL) technique prior to diagnosis of PE...
January 5, 2017: Placenta
https://www.readbyqxmd.com/read/28089390/quantitative-evaluation-of-the-in-vivo-vocal-fold-medial-surface-shape
#9
Andrew M Vahabzadeh-Hagh, Zhaoyan Zhang, Dinesh K Chhetri
OBJECTIVES/HYPOTHESIS: Glottal insufficiency is a common clinical problem in otolaryngology and medialization laryngoplasty (ML) procedures remain the primary treatment modality. Although the goal of ML is to restore physiologic glottal posture and achieve optimal phonation, this posture has not been directly measured. In this study, we assessed glottal medial surface contour changes with selective activation of the intrinsic laryngeal muscles (ILMs). STUDY DESIGN: Basic science study using an in vivo canine hemilarynx model...
January 12, 2017: Journal of Voice: Official Journal of the Voice Foundation
https://www.readbyqxmd.com/read/28088237/association-between-diabetes-mellitus-and-multi-drug-resistant-tuberculosis-a-protocol-for-a-systematic-review-and-meta-analysis
#10
Balewgizie Sileshi Tegegne, Tesfa Dejenie Habtewold, Melkamu Merid Mengesha, Johannes G M Burgerhof
INTRODUCTION: Multi-drug-resistant tuberculosis (MDR-TB) has emerged as a challenge to global tuberculosis (TB) control and remains a major public health concern in many countries. Diabetes mellitus (DM) is an increasingly recognized comorbidity that can both accelerate TB disease and complicate its treatment. The aim of this study is to summarize available evidence on the association of DM and MDR-TB among TB patients and to provide a pooled estimate of risks. METHODS: All studies published in English before October 2016 will be searched using comprehensive search strings through PubMed, EMBASE, Web of Science, and WHO Global Health Library databases which have reported the association of DM and MDR-TB in adults with TB (age > =15)...
January 14, 2017: Systematic Reviews
https://www.readbyqxmd.com/read/28079771/advanced-research-and-data-methods-in-women-s-health-big-data-analytics-adaptive-studies-and-the-road-ahead
#11
Christian R Macedonia, Clark T Johnson, Indika Rajapakse
Technical advances in science have had broad implications in reproductive and women's health care. Recent innovations in population-level data collection and storage have made available an unprecedented amount of data for analysis while computational technology has evolved to permit processing of data previously thought too dense to study. "Big data" is a term used to describe data that are a combination of dramatically greater volume, complexity, and scale. The number of variables in typical big data research can readily be in the thousands, challenging the limits of traditional research methodologies...
January 9, 2017: Obstetrics and Gynecology
https://www.readbyqxmd.com/read/28079723/toward-automating-hiv-identification-machine-learning-for-rapid-identification-of-hiv-related-social-media-data
#12
Sean D Young, Wenchao Yu, Wei Wang
INTRODUCTION: "Social big data" from technologies such as social media, wearable devices, and online searches continue to grow and can be used as tools for HIV research. Although researchers can uncover patterns and insights associated with HIV trends and transmission, the review process is time consuming and resource intensive. Machine learning methods derived from computer science might be used to assist HIV domain experts by learning how to rapidly and accurately identify patterns associated with HIV from a large set of social data...
February 1, 2017: Journal of Acquired Immune Deficiency Syndromes: JAIDS
https://www.readbyqxmd.com/read/28074900/physical-controllability-of-complex-networks
#13
Le-Zhi Wang, Yu-Zhong Chen, Wen-Xu Wang, Ying-Cheng Lai
A challenging problem in network science is to control complex networks. In existing frameworks of structural or exact controllability, the ability to steer a complex network toward any desired state is measured by the minimum number of required driver nodes. However, if we implement actual control by imposing input signals on the minimum set of driver nodes, an unexpected phenomenon arises: due to computational or experimental error there is a great probability that convergence to the final state cannot be achieved...
January 11, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28071974/from-ancient-greece-to-the-cognitive-revolution-a-comprehensive-view-of-physical-rehabilitation-sciences
#14
David Martínez-Pernía, Óscar González-Castán, David Huepe
The development of rehabilitation has traditionally focused on measurements of motor disorders and measurements of the improvements produced during the therapeutic process; however, physical rehabilitation sciences have not focused on understanding the philosophical and scientific principles in clinical intervention and how they are interrelated. The main aim of this paper is to explain the foundation stones of the disciplines of physical therapy, occupational therapy, and speech/language therapy in recovery from motor disorder...
January 10, 2017: Physiotherapy Theory and Practice
https://www.readbyqxmd.com/read/28071731/in-silico-experiments-of-zebrafish-behaviour-modeling-swimming-in-three-dimensions
#15
Violet Mwaffo, Sachit Butail, Maurizio Porfiri
Zebrafish is fast becoming a species of choice in biomedical research for the investigation of functional and dysfunctional processes coupled with their genetic and pharmacological modulation. As with mammals, experimentation with zebrafish constitutes a complicated ethical issue that calls for the exploration of alternative testing methods to reduce the number of subjects, refine experimental designs, and replace live animals. Inspired by the demonstrated advantages of computational studies in other life science domains, we establish an authentic data-driven modelling framework to simulate zebrafish swimming in three dimensions...
January 10, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28068491/bioavailabilty-of-nutrients-and-micronutrients-advances-in-modeling-and-in-vitro-approaches
#16
Sébastien Marze
The bioavailability of food nutrients and microconstituents is recognized as a determinant factor for optimal health status. However, human and animal studies are expensive and limited by the large amount of potential food bioactive compounds. The search for alternatives is very active and raises many questions.Onone hand, in vitro digestion systems are good candidates, but to date only bioaccessibility has been correctly assessed. To go further, to what degree should natural processes be reproduced? What techniques can be used to measure the changes in food properties and structures in situ in a noninvasive way? On the other hand, modeling approaches have good potential, but their development is time-consuming...
January 4, 2017: Annual Review of Food Science and Technology
https://www.readbyqxmd.com/read/28068484/informatics-and-data-analytics-to-support-exposome-based-discovery-for-public-health
#17
Arjun K Manrai, Yuxia Cui, Pierre R Bushel, Molly Hall, Spyros Karakitsios, Carolyn J Mattingly, Marylyn Ritchie, Charles Schmitt, Denis A Sarigiannis, Duncan C Thomas, David Wishart, David M Balshaw, Chirag J Patel
The complexity of the human exposome-the totality of environmental exposures encountered from birth to death-motivates systematic, high-throughput approaches to discover the environmental determinants of disease. In this review, we describe the state of science in analyzing the human exposome and provide recommendations for the public health community to consider in dealing with analytic challenges of exposome-based biomedical research. We describe extant and novel analytic methods needed to associate the exposome with critical health outcomes and contextualize the data-centered challenges by drawing parallels to other research endeavors such as human genomics research...
December 23, 2016: Annual Review of Public Health
https://www.readbyqxmd.com/read/28067266/quantification-of-network-structural-dissimilarities
#18
Tiago A Schieber, Laura Carpi, Albert Díaz-Guilera, Panos M Pardalos, Cristina Masoller, Martín G Ravetti
Identifying and quantifying dissimilarities among graphs is a fundamental and challenging problem of practical importance in many fields of science. Current methods of network comparison are limited to extract only partial information or are computationally very demanding. Here we propose an efficient and precise measure for network comparison, which is based on quantifying differences among distance probability distributions extracted from the networks. Extensive experiments on synthetic and real-world networks show that this measure returns non-zero values only when the graphs are non-isomorphic...
January 9, 2017: Nature Communications
https://www.readbyqxmd.com/read/28061884/treeman-an-r-package-for-efficient-and-intuitive-manipulation-of-phylogenetic-trees
#19
Dominic J Bennett, Mark D Sutton, Samuel T Turvey
BACKGROUND: Phylogenetic trees are hierarchical structures used for representing the inter-relationships between biological entities. They are the most common tool for representing evolution and are essential to a range of fields across the life sciences. The manipulation of phylogenetic trees-in terms of adding or removing tips-is often performed by researchers not just for reasons of management but also for performing simulations in order to understand the processes of evolution. Despite this, the most common programming language among biologists, R, has few class structures well suited to these tasks...
January 7, 2017: BMC Research Notes
https://www.readbyqxmd.com/read/28061043/an-overview-of-r-in-health-decision-sciences
#20
Hawre Jalal, Petros Pechlivanoglou, Eline Krijkamp, Fernando Alarid-Escudero, Eva Enns, M G Myriam Hunink
As the complexity of health decision science applications increases, high-level programming languages are increasingly adopted for statistical analyses and numerical computations. These programming languages facilitate sophisticated modeling, model documentation, and analysis reproducibility. Among the high-level programming languages, the statistical programming framework R is gaining increased recognition. R is freely available, cross-platform compatible, and open source. A large community of users who have generated an extensive collection of well-documented packages and functions supports it...
January 1, 2017: Medical Decision Making: An International Journal of the Society for Medical Decision Making
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