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https://www.readbyqxmd.com/read/27930689/determination-of-a-screening-metric-for-high-diversity-dna-libraries
#1
Nicholas J Guido, Steven Handerson, Elaine M Joseph, Devin Leake, Li A Kung
The fields of antibody engineering, enzyme optimization and pathway construction rely increasingly on screening complex variant DNA libraries. These highly diverse libraries allow researchers to sample a maximized sequence space; and therefore, more rapidly identify proteins with significantly improved activity. The current state of the art in synthetic biology allows for libraries with billions of variants, pushing the limits of researchers' ability to qualify libraries for screening by measuring the traditional quality metrics of fidelity and diversity of variants...
2016: PloS One
https://www.readbyqxmd.com/read/27905594/open-ended-formulation-of-self-consistent-field-response-theory-with-the-polarizable-continuum-model-for-solvation
#2
Roberto Di Remigio, Maarten T P Beerepoot, Yann Cornaton, Magnus Ringholm, Arnfinn Hykkerud Steindal, Kenneth Ruud, Luca Frediani
The study of high-order absorption properties of molecules is a field of growing importance. Quantum-chemical studies can help design chromophores with desirable characteristics. Given that most experiments are performed in solution, it is important to devise a cost-effective strategy to include solvation effects in quantum-chemical studies of these properties. We here present an open-ended formulation of self-consistent field (SCF) response theory for a molecular solute coupled to a polarizable continuum model (PCM) description of the solvent...
December 1, 2016: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/27869298/informant-questionnaire-on-cognitive-decline-in-the-elderly-iqcode-for-the-early-diagnosis-of-dementia-across-a-variety-of-healthcare-settings
#3
REVIEW
Jennifer K Harrison, David J Stott, Rupert McShane, Anna H Noel-Storr, Rhiannon S Swann-Price, Terry J Quinn
BACKGROUND: The Informant Questionnaire for Cognitive Decline in the Elderly (IQCODE) is a structured interview based on informant responses that is used to assess for possible dementia. IQCODE has been used for retrospective or contemporaneous assessment of cognitive decline. There is considerable interest in tests that may identify those at future risk of developing dementia. Assessing a population free of dementia for the prospective development of dementia is an approach often used in studies of dementia biomarkers...
November 21, 2016: Cochrane Database of Systematic Reviews
https://www.readbyqxmd.com/read/27861942/the-ectopic-accessory-parotid-system-with-congenital-cheek-fistula-an-overview-and-current-update
#4
REVIEW
Mainak Dutta
OBJECTIVE: This review attempts to provide a comprehensive, updated overview of the ectopic accessory parotid system (EAPS) from clinical and developmental perspectives and investigates its eligibility to be included in the oculo-auriculo-vertebral spectrum (OAVS). REVIEW METHODS: Results of the keyword-based search in the PubMed/MEDLINE, Google Scholar, LILACS, and Cochrane Library were subjected to the given inclusion and exclusion criteria that corroborated with the definition of EAPS...
November 12, 2016: Laryngoscope
https://www.readbyqxmd.com/read/27769955/do-web-based-interventions-improve-well-being-in-type-2-diabetes-a-systematic-review-and-meta-analysis
#5
Michelle Hadjiconstantinou, Jo Byrne, Danielle H Bodicoat, Noelle Robertson, Helen Eborall, Kamlesh Khunti, Melanie J Davies
BACKGROUND: Poor diabetes self-care can have a negative impact on psychological well-being and quality of life. Given the scarcity of traditional psychological support and the barriers to uptake of and attendance at face-to-face education programs, Web-based interventions are becoming a popular approach to provide an additional platform for psychological support in long-term conditions. However, there is limited evidence to assess the effect of Web-based psychological support in people with type 2 diabetes...
October 21, 2016: Journal of Medical Internet Research
https://www.readbyqxmd.com/read/27701844/generation-of-accurate-peptide-retention-data-for-targeted-and-data-independent-quantitative-lc-ms-analysis-chromatographic-lessons-in-proteomics
#6
Oleg V Krokhin, Vic Spicer
The emergence of data-independent quantitative LC-MS/MS analysis protocols further highlights the importance of high-quality reproducible chromatographic procedures. Knowing, controlling and being able to predict the effect of multiple factors that alter peptide RP-HPLC separation selectivity is critical for successful data collection for the construction of ion libraries. Proteomic researchers have often regarded RP-HPLC as a "black box", while vast amount of research on peptide separation is readily available...
October 4, 2016: Proteomics
https://www.readbyqxmd.com/read/27641740/women-s-mental-health-and-intimate-partner-violence-following-natural-disaster-a-scoping-review
#7
Sue Anne Bell, Lisa A Folkerth
: Introduction Survivors of natural disasters in the United States experience significant health ramifications. Women particularly are vulnerable to both post-disaster posttraumatic stress disorder (PTSD) and depression, and research has documented that these psychopathological sequelae often are correlated with increased incidence of intimate partner violence (IPV). Understanding the link between these health concerns is crucial to informing adequate disaster response and relief efforts for victims of natural disaster...
December 2016: Prehospital and Disaster Medicine
https://www.readbyqxmd.com/read/27630020/understanding-factors-affecting-patient-and-public-engagement-and-recruitment-to-digital-health-interventions-a-systematic-review-of-qualitative-studies
#8
Siobhan O'Connor, Peter Hanlon, Catherine A O'Donnell, Sonia Garcia, Julie Glanville, Frances S Mair
BACKGROUND: Numerous types of digital health interventions (DHIs) are available to patients and the public but many factors affect their ability to engage and enrol in them. This systematic review aims to identify and synthesise the qualitative literature on barriers and facilitators to engagement and recruitment to DHIs to inform future implementation efforts. METHODS: PubMed, MEDLINE, CINAHL, Embase, Scopus and the ACM Digital Library were searched for English language qualitative studies from 2000 - 2015 that discussed factors affecting engagement and enrolment in a range of DHIs (e...
2016: BMC Medical Informatics and Decision Making
https://www.readbyqxmd.com/read/27624540/examining-health-literacy-disparities-in-the-united-states-a-third-look-at-the-national-assessment-of-adult-literacy-naal
#9
R V Rikard, Maxine S Thompson, Julie McKinney, Alison Beauchamp
BACKGROUND: In the United States, disparities in health literacy parallel disparities in health outcomes. Our research contributes to how diverse indicators of social inequalities (i.e., objective social class, relational social class, and social resources) contribute to understanding disparities in health literacy. METHODS: We analyze data on respondents 18 years of age and older (N = 14,592) from the 2003 National Assessment of Adult Literacy (NAAL) restricted access data set...
2016: BMC Public Health
https://www.readbyqxmd.com/read/27623767/screening-of-traditional-chinese-medicines-with-therapeutic-potential-on-chronic-obstructive-pulmonary-disease-through-inhibiting-oxidative-stress-and-inflammatory-response
#10
Ming-Xing Zhou, Xuan Wei, Ai-Ling Li, Ai-Min Wang, Ling-Zi Lu, Yue Yang, Dong-Mei Ren, Xiao-Ning Wang, Xue-Sen Wen, Hong-Xiang Lou, Tao Shen
BACKGROUND: Chronic obstructive pulmonary disease (COPD) is a major public health problem and gives arise to severe chronic morbidity and mortality in the world. Inflammatory response and oxidative stress play dominant roles in the pathological mechanism of COPD, and have been regarded to be two important targets for the COPD therapy. Traditional Chinese medicines (TCMs) possess satisfying curative effects on COPD under guidance of the TCM theory in China, and merit in-depth investigations as a resource of lead compounds...
September 13, 2016: BMC Complementary and Alternative Medicine
https://www.readbyqxmd.com/read/27599566/information-theoretic-approaches-for-inference-of-biological-networks-from-continuous-valued-data
#11
David M Budden, Edmund J Crampin
BACKGROUND: Characterising programs of gene regulation by studying individual protein-DNA and protein-protein interactions would require a large volume of high-resolution proteomics data, and such data are not yet available. Instead, many gene regulatory network (GRN) techniques have been developed, which leverage the wealth of transcriptomic data generated by recent consortia to study indirect, gene-level relationships between transcriptional regulators. Despite the popularity of such methods, previous methods of GRN inference exhibit limitations that we highlight and address through the lens of information theory...
2016: BMC Systems Biology
https://www.readbyqxmd.com/read/27592540/patient-family-centred-care-interventions-within-the-adult-icu-setting-an-integrative-review
#12
Marion L Mitchell, Fiona Coyer, Susanne Kean, Renee Stone, Jenny Murfield, Toni Dwan
OBJECTIVES: Patient, Family-Centred Care (PFCC) is internationally advocated as a way to improve patient care. The aim of this integrative review was to extend the knowledge and understanding by synthesising empirical evidence of PFCC interventions within the adult intensive care unit (ICU) setting. REVIEW METHOD USED: An integrative review methodological framework was employed, permitting the inclusion of all research designs. A comprehensive and systematic search, selection, quality appraisal, and data extraction of research were conducted to synthesise knowledge and identify research gaps...
November 2016: Australian Critical Care: Official Journal of the Confederation of Australian Critical Care Nurses
https://www.readbyqxmd.com/read/27591017/barriers-and-facilitators-to-patient-and-public-engagement-and-recruitment-to-digital-health-interventions-protocol-of-a-systematic-review-of-qualitative-studies
#13
Siobhan O'Connor, Peter Hanlon, Catherine A O'Donnell, Sonia Garcia, Julie Glanville, Frances S Mair
INTRODUCTION: Patients and the public are beginning to use digital health tools to assist in managing chronic illness, support independent living and self-care, and remain connected to health and care providers. However, engaging with and enrolling in digital health interventions, such as telehealth systems, mobile health applications, patient portals and personal health records, in order to use them varies considerably. Many factors affect people's ability to engage with and sign up to digital health platforms...
2016: BMJ Open
https://www.readbyqxmd.com/read/27583998/using-interprofessional-learning-for-continuing-education-development-and-evaluation-of-the-graduate-certificate-program-in-health-professional-education-for-clinicians
#14
Saras Henderson, Megan Dalton, Jennifer Cartmel
INTRODUCTION: Health professionals may be expert clinicians but do not automatically make effective teachers and need educational development. In response, a team of health academics at an Australian university developed and evaluated the continuing education Graduate Certificate in Health Professional Education Program using an interprofessional learning model. METHODS: The model was informed by Collins interactional expertise and Knowles adult learning theories...
2016: Journal of Continuing Education in the Health Professions
https://www.readbyqxmd.com/read/27570830/matriarch-a-python-library-for-materials-architecture
#15
Tristan Giesa, Ravi Jagadeesan, David I Spivak, Markus J Buehler
Biological materials, such as proteins, often have a hierarchical structure ranging from basic building blocks at the nanoscale (e.g., amino acids) to assembled structures at the macroscale (e.g., fibers). Current software for materials engineering allows the user to specify polypeptide chains and simple secondary structures prior to molecular dynamics simulation, but is not flexible in terms of the geometric arrangement of unequilibrated structures. Given some knowledge of a larger-scale structure, instructing the software to create it can be very difficult and time-intensive...
October 12, 2015: ACS Biomaterials Science & Engineering
https://www.readbyqxmd.com/read/27529495/a-semi-automated-structure-based-method-to-predict-substrate-of-enzyme-via-molecular-docking-a-case-study-with-candida-antarctica-lipase-b
#16
Zhiqiang Yao, Lujia Zhang, Bei Gao, Dongbing Cui, Fengqing Wang, Xiao He, John Zenghui Zhang, Dong-Zhi Wei
The discovery of unique substrate is important for developing potential applications of enzymes. However, the experimental procedures for substrate identification are laborious, time-consuming and expensive. Although in silico structure-based approaches show great promise, recent extensive studies show that these approaches remain a formidable challenge for current bio-computational methodologies. Here, we present an open-source, extensible and flexible software platform for predicting enzyme substrates called THEMIS, which performs in silico virtual screening for potential catalytic targets of enzyme based on enzymes catalysis mechanism...
August 16, 2016: Journal of Chemical Information and Modeling
https://www.readbyqxmd.com/read/27515739/lca-an-entropy-based-measure-for-taxonomic-assignment-within-assembled-metagenomes
#17
Niels W Hanson, Kishori M Konwar, Steven J Hallam
MOTIVATION: A perennial problem in the analysis of environmental sequence information is the assignment of reads or assembled sequences, e.g. contigs or scaffolds, to discrete taxonomic bins. In the absence of reference genomes for most environmental microorganisms, the use of intrinsic nucleotide patterns and phylogenetic anchors can improve assembly-dependent binning needed for more accurate taxonomic and functional annotation in communities of microorganisms, and assist in identifying mobile genetic elements or lateral gene transfer events...
December 1, 2016: Bioinformatics
https://www.readbyqxmd.com/read/27512642/linguistic-research-in-the-empirical-paradigm-as-outlined-by-mario-bunge
#18
Dorota Zielińska
In view of the critique of the methodology of the dominant interdisciplinary research involving language studies as the main component, in particular clinical linguistics, Cummings (Pragmatic disorders. Perspectives in pragmatics, philosophy and psychology, vol 3. Springer, Dordrecht, 2014) proposes that "It is perhaps appropriate at this point to move the debate onto non-empirical grounds." In Cummings (2014: 113) she starts such a debate on the grounds of the philosophy of language and pragmatics. In this article, I propose to expand that debate by including the input of the philosophy of science...
2016: SpringerPlus
https://www.readbyqxmd.com/read/27470597/fokker-planck-formalism-in-magnetic-resonance-simulations
#19
Ilya Kuprov
This paper presents an overview of the Fokker-Planck formalism for non-biological magnetic resonance simulations, describes its existing applications and proposes some novel ones. The most attractive feature of Fokker-Planck theory compared to the commonly used Liouville - von Neumann equation is that, for all relevant types of spatial dynamics (spinning, diffusion, stationary flow, etc.), the corresponding Fokker-Planck Hamiltonian is time-independent. Many difficult NMR, EPR and MRI simulation problems (multiple rotation NMR, ultrafast NMR, gradient-based zero-quantum filters, diffusion and flow NMR, off-resonance soft microwave pulses in EPR, spin-spin coupling effects in MRI, etc...
September 2016: Journal of Magnetic Resonance
https://www.readbyqxmd.com/read/27439676/design-of-2-rotaxane-through-image-threshold-segmentation-of-electrostatic-potential-image
#20
Pingying Liu, Qiufeng Chen, Jing Ma
An electrostatic potential (ESP)-based image segmentation method has been used to estimate the ability of proton donation and acceptance involved in ring-rod recognition. The relative binding strength of [2]rotaxane has also been further estimated from the difference of the characteristic image-segmentation derived ESP between proton donor and proton acceptor. The size and electrostatic compatibility criteria are introduced to guide the design of interlocked [2]rotaxane. A library of 75 thermodynamically stable [2]rotaxane candidates has been generated, including 16 experimentally known systems...
September 15, 2016: Journal of Computational Chemistry
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