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https://www.readbyqxmd.com/read/29121561/flip-an-assisting-software-in-structure-based-drug-design-using-fingerprint-of-protein-ligand-interaction-profiles
#1
Ali Hajiebrahimi, Younes Ghasemi, Amirhossein Sakhteman
With the growing number of labor-intensive data in the pharmaceutical industries and public domain for protein-ligand complexes, a significant challenge is still remaining in managing and leveraging this vast information. Here, a standalone application is presented for analysis, organization, and illustration of structural data and molecular interactions for exploiting 3D-structures into simple 1D fingerprints. The utility of the approach was shown in unraveling a feasible solution for post-processing of docking results in parallel with providing fruitful analysis for users in order to investigate molecular interactions...
November 1, 2017: Journal of Molecular Graphics & Modelling
https://www.readbyqxmd.com/read/29111991/multiple-chemical-sensitivity-review-of-the-state-of-the-art-in-epidemiology-diagnosis-and-future-perspectives
#2
Sabrina Rossi, Alessio Pitidis
OBJECTIVE: Systematic bibliography analysis of about the last 17 years on multiple chemical sensitivity (MCS) was carried out in order to detect new diagnostic and epidemiological evidence. The MCS is a complex syndrome that manifests as a result of exposure to a low level of various common contaminants. The etiology, diagnosis, and treatment are still debated among researchers. METHOD: Querying PubMed, Web of Science, Scopus, Cochrane library, both using some specific MESH terms combined with MESH subheadings and through free search, even by Google...
November 3, 2017: Journal of Occupational and Environmental Medicine
https://www.readbyqxmd.com/read/29101091/recruiting-women-to-a-mobile-health-smoking-cessation-trial-low-and-no-cost-strategies
#3
Kristopher J Abbate, Melanie D Hingle, Julie Armin, Peter Giacobbi, Judith S Gordon
BACKGROUND: Successful recruitment of participants to mobile health (mHealth) studies presents unique challenges over in-person studies. It is important to identify recruitment strategies that maximize the limited recruitment resources available to researchers. OBJECTIVE: The objective of this study was to describe a case study of a unique recruitment process used in a recent mHealth software app designed to increase smoking cessation among weight-concerned women smokers...
November 3, 2017: JMIR Research Protocols
https://www.readbyqxmd.com/read/29098485/idac-dose-2-1-an-internal-dosimetry-program-for-diagnostic-nuclear-medicine-based-on-the-icrp-adult-reference-voxel-phantoms
#4
Martin Andersson, Lennart Johansson, Keith Eckerman, Sören Mattsson
BACKGROUND: To date, the estimated radiation-absorbed dose to organs and tissues in patients undergoing diagnostic examinations in nuclear medicine is derived via calculations based on models of the human body and the biokinetic behaviour of the radiopharmaceutical. An internal dosimetry computer program, IDAC-Dose2.1, was developed based on the International Commission on Radiological Protection (ICRP)-specific absorbed fractions and computational framework of internal dose assessment given for reference adults in ICRP Publication 133...
November 3, 2017: EJNMMI Research
https://www.readbyqxmd.com/read/29077811/reactome-enhanced-pathway-visualization
#5
Konstantinos Sidiropoulos, Guilherme Viteri, Cristoffer Sevilla, Steve Jupe, Marissa Webber, Marija Orlic-Milacic, Bijay Jassal, Bruce May, Veronica Shamovsky, Corina Duenas, Karen Rothfels, Lisa Matthews, Heeyeon Song, Lincoln Stein, Robin Haw, Peter D'Eustachio, Peipei Ping, Henning Hermjakob, Antonio Fabregat
Motivation: Reactome is a free, open-source, open-data, curated and peer-reviewed knowledge base of biomolecular pathways. Pathways are arranged in a hierarchical structure that largely corresponds to the GO biological process hierarchy, allowing the user to navigate from high level concepts like immune system to detailed pathway diagrams showing biomolecular events like membrane transport or phosphorylation. Here, we present new developments in the Reactome visualization system that facilitate navigation through the pathway hierarchy and enable efficient reuse of Reactome visualizations for users' own research presentations and publications...
November 1, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29076961/six-sessions-of-sprint-interval-training-improves-running-performance-in-trained-athletes
#6
Jerome Koral, Dustin J Oranchuk, Roberto Herrera, Guillaume Y Millet
Sprint interval training (SIT) is gaining popularity with endurance athletes. Various studies have shown that SIT allows similar or greater endurance, strength, and power performance improvements than traditional endurance training, but demands less time and volume. One of the main limitations in SIT research is that most studies were performed in a laboratory using expensive treadmills or ergometers. The aim of this study was to assess the performance effects of a novel short term and highly accessible training protocol based on maximal shuttle runs in the field (SIT-F)...
October 20, 2017: Journal of Strength and Conditioning Research
https://www.readbyqxmd.com/read/29076867/patient-and-oncology-nurse-preferences-for-the-treatment-options-in-advanced-melanoma-a-discrete-choice-experiment
#7
Frank Xiaoqing Liu, Edward A Witt, Scot Ebbinghaus, Grace DiBonaventura Beyer, Enrique Basurto, Richard W Joseph
BACKGROUND: Understanding the perceptions of patients and oncology nurses about the relative importance of benefits and risks associated with newer treatments of advanced melanoma can help to inform clinical decision-making. OBJECTIVES: The aims of this study were to quantify and compare the views of patients and oncology nurses regarding the importance of attributes of treatments of advanced melanoma. METHODS: A discrete choice experiment (DCE) was conducted in US-based oncology nurses and patients diagnosed with advanced melanoma...
October 25, 2017: Cancer Nursing
https://www.readbyqxmd.com/read/29059997/the-splendid-chewing-detection-challenge
#8
Vasileios Papapanagiotou, Christos Diou, Lingchuan Zhou, Janet van den Boer, Monica Mars, Anastasios Delopoulos
Monitoring of eating behavior using wearable technology is receiving increased attention, driven by the recent advances in wearable devices and mobile phones. One particularly interesting aspect of eating behavior is the monitoring of chewing activity and eating occurrences. There are several chewing sensor types and chewing detection algorithms proposed in the bibliography, however no datasets are publicly available to facilitate evaluation and further research. In this paper, we present a multi-modal dataset of over 60 hours of recordings from 14 participants in semi-free living conditions, collected in the context of the SPLENDID project...
July 2017: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/29046271/client-focused-security-assessment-of-mhealth-apps-and-recommended-practices-to-prevent-or-mitigate-transport-security-issues
#9
Jannis Müthing, Thomas Jäschke, Christoph M Friedrich
BACKGROUND: Mobile health (mHealth) apps show a growing importance for patients and health care professionals. Apps in this category are diverse. Some display important information (ie, drug interactions), whereas others help patients to keep track of their health. However, insufficient transport security can lead to confidentiality issues for patients and medical professionals, as well as safety issues regarding data integrity. mHealth apps should therefore deploy intensified vigilance to protect their data and integrity...
October 18, 2017: JMIR MHealth and UHealth
https://www.readbyqxmd.com/read/29040161/prognostic-factor-analysis-in-325-patients-with-graves-disease-treated-with-radioiodine-therapy
#10
Danrong Yang, Jianjun Xue, Wenxia Ma, Furong Liu, Yameng Fan, Jie Rong, Aimin Yang, Yan Yu
INTRODUCTION: I therapy is a choice for Graves' hyperthyroidism. Several factors that affect the success of I treatment in Graves' disease (GD) patients have been put forward. The aim of this retrospective study was to evaluate the factors influencing the success of I therapy and the occurrence of hypothyroidism after I therapy. PATIENTS AND METHODS: We reviewed 325 GD patients, who were well documented out of 779 cases, treated with I in the First Affiliated Hospital of Xi'an Jiaotong University between 2010 and 2016...
October 16, 2017: Nuclear Medicine Communications
https://www.readbyqxmd.com/read/29039009/estimate-codon-usage-bias-using-codon-usage-analyzer-cua
#11
Zhenguo Zhang, Gaurav Sablok
One amino acid is added to a growing peptide by a ribosome through reading triple nucleotides, i.e., a codon, each time. Twenty species of amino acids are often coded by 61 codons, so one amino acid can be coded by more than one codon and the codons coding the same amino acid are called synonymous. Intriguingly, synonymous codons' usage is often uneven: some are used more often than their alternatives in a genome. The unevenness of codon usage is termed codon usage bias (CUB). CUB is widespread, and its causes and consequences have been under intensive investigation...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29027235/low-dose-ct-for-the-detection-and-classification-of-metastatic-liver-lesions-results-of-the-2016-low-dose-ct-grand-challenge
#12
Cynthia H McCollough, Adam C Bartley, Rickey E Carter, Baiyu Chen, Tammy A Drees, Phillip Edwards, David R Holmes, Alice E Huang, Farhana Khan, Shuai Leng, Kyle L McMillan, Gregory J Michalak, Kristina M Nunez, Lifeng Yu, Joel G Fletcher
PURPOSE: Using common datasets, to estimate and compare the diagnostic performance of image-based denoising techniques or iterative reconstruction algorithms for the task of detecting hepatic metastases. METHODS: Datasets from contrast-enhanced CT scans of the liver were provided to participants in an NIH-, AAPM- and Mayo Clinic-sponsored Low Dose CT Grand Challenge. Training data included full-dose and quarter-dose scans of the ACR CT accreditation phantom and 10 patient examinations; both images and projections were provided in the training data...
October 2017: Medical Physics
https://www.readbyqxmd.com/read/29021117/there-is-an-app-for-that-or-is-there-a-content-analysis-of-publicly-available-smartphone-apps-for-managing-alcohol-use
#13
Bettina B Hoeppner, Melissa R Schick, Lourah M Kelly, Susanne S Hoeppner, Brandon Bergman, John F Kelly
INTRODUCTION: Smartphone apps are emerging as a promising tool to support recovery from and prevention of problematic alcohol use, yet it is unclear what type of apps are currently available in the public domain, and to what degree these apps use interactive tailoring or other dynamic features to meet users' specific needs. METHODS: We conducted a content analysis of Android apps for managing drinking available on Google Play (n=266), downloaded between November 21, 2014 and June 25, 2015...
November 2017: Journal of Substance Abuse Treatment
https://www.readbyqxmd.com/read/28993302/user-participation-and-engagement-with-the-see-me-smoke-free-mhealth-app-prospective-feasibility-trial
#14
Chris A Schmidt, James K Romine, Melanie L Bell, Julie Armin, Judith S Gordon
BACKGROUND: The See Me Smoke-Free (SMSF) mobile health (mHealth) app was developed to help women quit smoking by targeting concerns about body weight, body image, and self-efficacy through cognitive behavioral techniques and guided imagery audio files addressing smoking, diet, and physical activity. A feasibility trial found associations between SMSF usage and positive treatment outcomes. This paper reports a detailed exploration of program use among eligible individuals consenting to study participation and completing the baseline survey (participants) and ineligible or nonconsenting app installers (nonparticipants), as well as the relationship between program use and treatment outcomes...
October 9, 2017: JMIR MHealth and UHealth
https://www.readbyqxmd.com/read/28982947/myovision-software-for-automated-high-content-analysis-of-skeletal-muscle-immunohistochemistry
#15
Yuan Wen, Kevin Andrew Murach, Ivan J Vechetti, Christopher S Fry, Chase Daniel Vickery, Charlotte A Peterson, John J McCarthy, Kenneth S Campbell
Analysis of skeletal muscle cross sections is an important experimental technique in muscle biology. Many aspects of immunohistochemistry and fluorescence microscopy can now be automated but most image quantification techniques still require extensive human input, slowing progress and introducing the possibility of user-bias. MyoVision is a new software package that was developed to overcome these limitations. The software improves upon previously reported automatic techniques and analyzes images without requiring significant human input and correction...
October 5, 2017: Journal of Applied Physiology
https://www.readbyqxmd.com/read/28981516/designing-a-course-model-for-distance-based-online-bioinformatics-training-in-africa-the-h3abionet-experience
#16
Kim T Gurwitz, Shaun Aron, Sumir Panji, Suresh Maslamoney, Pedro L Fernandes, David P Judge, Amel Ghouila, Jean-Baka Domelevo Entfellner, Fatma Z Guerfali, Colleen Saunders, Ahmed Mansour Alzohairy, Samson P Salifu, Rehab Ahmed, Ruben Cloete, Jonathan Kayondo, Deogratius Ssemwanga, Nicola Mulder
Africa is not unique in its need for basic bioinformatics training for individuals from a diverse range of academic backgrounds. However, particular logistical challenges in Africa, most notably access to bioinformatics expertise and internet stability, must be addressed in order to meet this need on the continent. H3ABioNet (www.h3abionet.org), the Pan African Bioinformatics Network for H3Africa, has therefore developed an innovative, free-of-charge "Introduction to Bioinformatics" course, taking these challenges into account as part of its educational efforts to provide on-site training and develop local expertise inside its network...
October 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28968640/navmol-3-0-enabling-the-representation-of-metabolic-reactions-by-blind-users
#17
Yuri Binev, Daniela Peixoto, Florbela Pereira, Ian Rodrigues, Sofia Cavaco, Ana M Lobo, João Aires-de-Sousa
NavMol 3.0 is free and open source under the GNU general public license (GPLv3), and can be downloaded at http://sourceforge.net/projects/navmol as a JAR file. During the review process the program is only available to reviewers, at http://www.molinsight.net/Navmol3.zip.
September 13, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28961789/remilo-reference-assisted-misassembly-detection-algorithm-using-short-and-long-reads
#18
Ergude Bao, Changjin Song, Lingxiao Lan
Motivation: Contigs assembled from the second generation sequencing short reads may contain misassemblies, and thus complicate downstream analysis or even lead to incorrect analysis results. Fortunately, with more and more sequenced species available, it becomes possible to use the reference genome of a closely related species to detect misassemblies. In addition, long reads of the third generation sequencing technology have been more and more widely used, and can also help detect misassemblies...
August 21, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28946038/abca1-and-hdl3-are-required-to-modulate-smooth-muscle-cells-phenotypic-switch-after-cholesterol-loading
#19
Silvia Castiglioni, Matteo Monti, Lorenzo Arnaboldi, Monica Canavesi, Giuditta Ainis Buscherini, Laura Calabresi, Alberto Corsini, Stefano Bellosta
BACKGROUND AND AIMS: Cholesterol-loaded smooth muscle cells (SMCs) modify their phenotypic behavior becoming foam cells. To characterize the role of ABCA1 and HDL3 in this process, we evaluated HDL3 effects on cholesterol-induced phenotypic changes in SMCs expressing or not ABCA1. METHODS: SMCs, isolated from the aortae of wild-type (WT) and Abca1 knock-out (KO) mice, were cholesterol-loaded using a "water-soluble cholesterol''. RESULTS: Cholesterol loading downregulates the expression of Acta2 and calponin (SMC markers), and increases the expression of Mac-2, CD11b and MHCII (inflammation-related genes and surface antigens) and Abca1, Abcg1...
November 2017: Atherosclerosis
https://www.readbyqxmd.com/read/28926423/a-noninterventional-multicenter-prospective-phase-iv-study-of-trabectedin-in-patients-with-advanced-soft-tissue-sarcoma
#20
Angela Buonadonna, Charlotte Benson, Jose Casanova, Bernd Kasper, Antonio López Pousa, Filomena Mazzeo, Thomas Brodowicz, Nicolas Penel
This prospective, noninterventional study is the first phase IV trial designed to evaluate trabectedin in patients with advanced soft tissue sarcoma in real-life clinical practice across Europe. To be included in the study, patients must have received more than or equal to one cycle of trabectedin and be currently on treatment. The primary endpoint was progression-free survival as defined by investigators. The secondary endpoints included objective response rate, disease control rate, time to progression and the growth modulation index (GMI), overall survival, and an assessment of the cancer-related symptoms and safety...
November 2017: Anti-cancer Drugs
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