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https://www.readbyqxmd.com/read/27914054/computational-protein-design-through-grafting-and-stabilization
#1
Cheng Zhu, David D Mowrey, Nikolay V Dokholyan
Computational grafting of target residues onto existing protein scaffolds is a powerful method for the design of proteins with novel function. In the grafting method side chain mutations are introduced into a preexisting protein scaffold to recreate a target functional motif. The success of this approach relies on two primary criteria: (1) the availability of compatible structural scaffolds, and (2) the introduction of mutations that do not affect the protein structure or stability. To identify compatible structural motifs we use the Erebus webserver, to search the protein data bank (PDB) for user-defined structural scaffolds...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27914049/modeling-binding-affinity-of-pathological-mutations-for-computational-protein-design
#2
Miguel Romero-Durana, Chiara Pallara, Fabian Glaser, Juan Fernández-Recio
An important aspect of protein functionality is the formation of specific complexes with other proteins, which are involved in the majority of biological processes. The functional characterization of such interactions at molecular level is necessary, not only to understand biological and pathological phenomena but also to design improved, or even new interfaces, or to develop new therapeutic approaches. X-ray crystallography and NMR spectroscopy have increased the number of 3D protein complex structures deposited in the Protein Data Bank (PDB)...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27913159/assessing-functional-performance-using-computer-based-simulations-of-everyday-activities
#3
Sara J Czaja, David A Loewenstein, Chin Chin Lee, Shih Hua Fu, Philip D Harvey
Current functional capacity (FC) measures for patients with schizophrenia typically involve informant assessments or are in paper and pencil format, requiring in-person administration by a skilled assessor. This approach presents logistic problems and limits the possibilities for remote assessment, an important issue for these patients. This study evaluated the feasibility of using a computer-based assessment battery, including simulations of everyday activities. The battery was compared to in-person standard assessments of cognition and FC with respect to baseline convergence and sensitivity to group differences...
November 29, 2016: Schizophrenia Research
https://www.readbyqxmd.com/read/27912040/patient-reported-outcomes-measurement-information-system-physical-function-item-bank-version-1-0-physical-function-assessment-for-athletic-patient-populations
#4
Leif P Madsen, Todd A Evans, Kelli R Snyder, Carrie L Docherty
CONTEXT: The Patient-Reported Outcomes Measurement Information System (PROMIS) item banks have been validated for general populations, but their application to high-functioning patient populations remains speculative. OBJECTIVE: To examine the measurement properties of the PROMIS physical function item bank, version 1.0, when applied to individuals representing high levels of physical ability. DESIGN: Cross-sectional study. SETTING: National Collegiate Athletic Association Division I and III collegiate athletic training rooms and intramural events...
September 2016: Journal of Athletic Training
https://www.readbyqxmd.com/read/27911959/barriers-to-timely-and-safe-blood-transfusion-for-pph-patients-evidence-from-a-qualitative-study-in-dhaka-bangladesh
#5
Sadika Akhter, Iqbal Anwar, Rashida Akter, Feroza Akhter Kumkum, Monjura Khatun Nisha, Fatema Ashraf, Ferdousi Islam, Nazneen Begum, Mahbub Elahi Chowdhury, Anne Austin, Syed Shariful Islam, Aminur Rahman
BACKGROUND AND OBJECTIVES: In Bangladesh, postpartum hemorrhage (PPH) is the leading cause of maternal mortality accounting for 31% of all blood transfusions in the country. Although safe blood transfusion is one of the 8 signal functions of Comprehensive Emergency Obstetric Care (CEmOC) strategy, most of the designated public sector CEmOC facilities do not have on-site blood storage system. Emergent blood is mainly available from external blood banks. As a result, emergent patients are to rely on an unregulated network of brokers for blood which may raise question about blood safety...
2016: PloS One
https://www.readbyqxmd.com/read/27911088/african-american-women-s-perspectives-on-donating-healthy-breast-tissue-for-research-implications-for-recruitment
#6
Katherine E Ridley-Merriweather, Katharine J Head
African American women die of breast cancer at a higher rate than any other racial group. The Komen Tissue Bank (KTB) is an ongoing clinical trial that collects healthy breast tissue from women of all racial groups to use as controls in research and represents a critical tool in efforts to treat and prevent breast cancer; however, African Americans display reticence toward donating breast tissue to the KTB. Through the lens of the Integrated Behavioral Model, this study recruited African American women to share their perspectives on donating breast tissue for research purposes...
December 2, 2016: Health Communication
https://www.readbyqxmd.com/read/27910414/electron-cyclotron-emission-radiometer-upgrade-on-the-j-text-tokamak
#7
Z J Yang, X M Pan, X D Ma, B W Ruan, R B Zhou, C Zhang
To meet experimental requirements, the J-TEXT electron cyclotron emission (ECE) diagnostic is being upgraded. The front end antenna and transmission line have been modified and a new 8-channel W-band detecting unit has been developed. The improved ECE system will extend the frequency range from 94.5-124.5 GHz to 80.5-124.5 GHz. This will enable the system to cover the most plasma in the radius direction for BT = 1.8-2.2 T, and it even can cover almost the whole plasma range ρ = - 0.8-0.9 (minus means the high field side) at BT = 1...
November 2016: Review of Scientific Instruments
https://www.readbyqxmd.com/read/27910349/multi-channel-poloidal-correlation-reflectometry-on-experimental-advanced-superconducting-tokamak
#8
H Qu, T Zhang, X Han, H M Xiang, F Wen, K N Geng, Y M Wang, D F Kong, J Q Cai, C B Huang, Y Gao, X Gao, S Zhang
A new multi-channel poloidal correlation reflectometry is developed at Experimental Advanced Superconducting Tokamak. Eight dielectric resonator oscillators with frequencies of 12.5 GHz, 13.5 GHz, 14.5 GHz, 15 GHz, 15.5 GHz, 16 GHz, 17 GHz, and 18 GHz are used as sources. Signals from the sources are up-converted to V band using active quadruplers and then coupled together. The output waves are launched by one single antenna after passing through a 20 dB directional coupler which can provide the reference signal...
November 2016: Review of Scientific Instruments
https://www.readbyqxmd.com/read/27909853/impact-of-irt-item-misfit-on-score-estimates-and-severity-classifications-an-examination-of-promis-depression-and-pain-interference-item-banks
#9
Yue Zhao
PURPOSE: In patient-reported outcome research that utilizes item response theory (IRT), using statistical significance tests to detect misfit is usually the focus of IRT model-data fit evaluations. However, such evaluations rarely address the impact/consequence of using misfitting items on the intended clinical applications. This study was designed to evaluate the impact of IRT item misfit on score estimates and severity classifications and to demonstrate a recommended process of model-fit evaluation...
December 1, 2016: Quality of Life Research
https://www.readbyqxmd.com/read/27908184/irradiation-with-x-rays-of-the-energy-18-mv-induces-radioactivity-in-transfusion-blood-proposal-of-a-safe-method-using-6-mv
#10
Katharina Frentzel, Harun Badakhshi
PURPOSE: To prevent a fatal transfusion-associated graft-versus-host disease, it is recommended to irradiate transfusion blood and blood components with ionizing radiation. Using x-rays from a linear accelerator of the radiotherapy department is an accepted alternative to gamma irradiation devices of the blood bank and to the orthovoltage units that are replacing the gamma irradiators today. However, the use of high energy x-rays may carry a potential risk of induced radioactivity. The objective of this study was to investigate the effect of two different energy levels, 6 and 18 MV, which are executed in routine clinical settings...
December 2016: Medical Physics
https://www.readbyqxmd.com/read/27906106/loss-of-niche-satellite-cell-interactions-in-syndecan-3-null-mice-alters-muscle-progenitor-cell-homeostasis-improving-muscle-regeneration
#11
Addolorata Pisconti, Glen B Banks, Farshad Babaeijandaghi, Nicole Dalla Betta, Fabio M V Rossi, Jeffrey S Chamberlain, Bradley B Olwin
BACKGROUND: The skeletal muscle stem cell niche provides an environment that maintains quiescent satellite cells, required for skeletal muscle homeostasis and regeneration. Syndecan-3, a transmembrane proteoglycan expressed in satellite cells, supports communication with the niche, providing cell interactions and signals to maintain quiescent satellite cells. RESULTS: Syndecan-3 ablation unexpectedly improves regeneration in repeatedly injured muscle and in dystrophic mice, accompanied by the persistence of sublaminar and interstitial, proliferating myoblasts...
October 4, 2016: Skeletal Muscle
https://www.readbyqxmd.com/read/27905684/the-effect-of-maternal-and-infant-factors-on-cord-blood-yield
#12
REVIEW
Seyed Hadi Mousavi, Saeid Abroun, Morteza Zarrabi, Mona Ahmadipanah
Umbilical cord blood (CB) can be used as an alternative hematopoietic stem cell source for transplantation in hematological malignancy and blood disorders. The success of transplantation is highly related to the levels of total nucleated cell and CD34(+) cell counts. The evaluation of optimal conditions can decrease the rate of graft rejection due to low cell count and increases the quality of CB units (CBUs) in the blood bank and the success rate of engraftment. To this end, we review the maternal and infant parameters affecting the quality and quantity of CBUs...
December 1, 2016: Pediatric Blood & Cancer
https://www.readbyqxmd.com/read/27903768/development-of-a-nutrition-education-intervention-for-food-bank-clients
#13
Jayna M Dave, Deborah I Thompson, Ann Svendsen-Sanchez, Lorna Haughton McNeill, Maria Jibaja-Weiss
The focus of this article is the development of a nutrition education intervention for food bank clients. Formative research using mixed-methods (qualitative and quantitative) and community-based participatory research principles was conducted to assess the nutrition education needs of clients obtaining service from the Houston Food Bank (HFB). Participants were HFB and pantry staff and clients. Interview data were coded and analyzed using grounded theory approach. Themes were then identified. Quantitative data were analyzed for frequencies and descriptives...
November 29, 2016: Health Promotion Practice
https://www.readbyqxmd.com/read/27903244/cryopreservation-of-dermal-fibroblasts-and-keratinocytes-in-hydroxyethyl-starch-based-cryoprotectants
#14
Yahaira Naaldijk, Adiv A Johnson, Annett Friedrich-Stöckigt, Alexandra Stolzing
BACKGROUND: Preservation of human skin fibroblasts and keratinocytes is essential for the creation of skin tissue banks. For successful cryopreservation of cells, selection of an appropriate cryoprotectant agent (CPA) is imperative. The aim of this study was to identify CPAs that minimize toxic effects and allow for the preservation of human fibroblasts and keratinocytes in suspension and in monolayers. RESULTS: We cryopreserved human fibroblasts and keratinocytes with different CPAs and compared them to fresh, unfrozen cells...
December 1, 2016: BMC Biotechnology
https://www.readbyqxmd.com/read/27903068/quantifying-altitude-of-human-habitation-in-studies-of-human-health-using-geographical-name-server-data
#15
Stephen Thielke, Christopher G Slatore, William A Banks
Almost all studies examining the effects of altitude on human health have estimated the geographical altitude of defined regions, yet the primary interest lies in where people live, not the land around them. Populations are not homogenously distributed across altitudes. We propose a straightforward and computationally simple method for estimating the average altitude of habitation within the regional units for which health statistics are typically reported (such as counties). The United States Board on Geographical Names database contains records for over 2...
November 21, 2016: Geospatial Health
https://www.readbyqxmd.com/read/27902921/complete-genome-sequence-of-fictibacillus-arsenicus-g25-54-a-strain-with-toxicity-to-nematodes
#16
Ziqiang Zheng, Jinshui Zheng, Donghai Peng, Ming Sun
Root-knot nematodes (RKNs) can infect almost all crops and cause huge economic losses in agriculture worldwide. An in-depth understanding of bacteria with nematicidal activity is essential for an effective and environmentally friendly control of RKNs. Fictibacillus arsenicus G25-54, a gram-positive and spore-forming bacterium isolated from a submerged sand bank, shows nematicidal activity against free-living Caenorhabditis elegans and RKNs. Here, we report the complete genome of F. arsenicus G25-54, which contains a circular chromosome and encodes ten potential nematicidal factors with twelve secondary metabolite gene clusters...
November 27, 2016: Journal of Biotechnology
https://www.readbyqxmd.com/read/27902136/poor-pay-must-be-addressed
#17
Anne Wells
The government's response to an online petition calling for fair pay for nurses is disgusting (news, 16 November). Ministers should come to a trust unexpectedly - without the trust suddenly having enough staff just for the visit. Only then will they appreciate how nurses try to manage a ward with patients all with differing diagnoses, helped only by agency and bank staff who may not know the hospital, let alone the ward.
November 30, 2016: Nursing Standard
https://www.readbyqxmd.com/read/27901017/daily-intake-and-hazard-index-of-parabens-based-upon-24%C3%A2-h-urine-samples-of-the-german-environmental-specimen-bank-from-1995-to-2012
#18
Rebecca K Moos, Petra Apel, Christa Schröter-Kermani, Marike Kolossa-Gehring, Thomas Brüning, Holger M Koch
In recent years, exposure to parabens has become more of a concern because of evidence of ubiquitous exposure in the general population, combined with evidence of their potency as endocrine disruptors. New human metabolism data from oral exposure experiments enable us to back calculate daily paraben intakes from urinary paraben levels. We report daily intakes (DIs) for six parabens based on 660 24 h urine samples from the German Environmental Specimen Bank collected between 1995 and 2012. Median DI values ranged between 1...
November 30, 2016: Journal of Exposure Science & Environmental Epidemiology
https://www.readbyqxmd.com/read/27900710/customized-tantalum-augmented-reverse-shoulder-arthroplasty-for-glenoid-bone-defect-and-excessive-medialization-description-of-the-technique
#19
Nicola Ivaldo, Tony Mangano, Giovanni Caione, Mario Rossoni, Angelo Ligas
BACKGROUND: Glenoid bone defect and excessive medialization could represent challenging issues during reverse shoulder arthroplasty, especially in the setting of revision surgery. Although a solution is offered by the Boileau's BIO-RSA technique in primary cases, only autologous iliac crest bone graft and homologous graft from bone banks are available for revision surgeries, with known disadvantages and risk of graft resorption and implant failure. MATERIALS AND METHODS: We describe in this work a new technique based on a customized porous tantalum device to be used in salvage situations, aimed at lateralization of the glenoid component of a reverse shoulder arthroplasty...
December 2016: Musculoskeletal Surgery
https://www.readbyqxmd.com/read/27899675/jet2-viewer-a-database-of-predicted-multiple-possibly-overlapping-protein-protein-interaction-sites-for-pdb-structures
#20
Hughes Ripoche, Elodie Laine, Nicoletta Ceres, Alessandra Carbone
The database JET2 Viewer, openly accessible at http://www.jet2viewer.upmc.fr/, reports putative protein binding sites for all three-dimensional (3D) structures available in the Protein Data Bank (PDB). This knowledge base was generated by applying the computational method JET(2) at large-scale on more than 20 000 chains. JET(2) strategy yields very precise predictions of interacting surfaces and unravels their evolutionary process and complexity. JET2 Viewer provides an online intelligent display, including interactive 3D visualization of the binding sites mapped onto PDB structures and suitable files recording JET(2) analyses...
November 28, 2016: Nucleic Acids Research
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