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P Moisset de Espanés, A Osses, I Rapaport
Fixed points are fundamental states in any dynamical system. In the case of gene regulatory networks (GRNs) they correspond to stable genes profiles associated to the various cell types. We use Kauffman's approach to model GRNs with random Boolean networks (RBNs). In this paper we explore how the topology affects the distribution of the number of fixed points in randomly generated networks. We also study the size of the basins of attraction of these fixed points if we assume the α-asynchronous dynamics (where every node is updated independently with probability 0≤α≤1)...
October 17, 2016: Bio Systems
Sung-Hwan Cho, Sang-Min Park, Ho-Sung Lee, Hwang-Yeol Lee, Kwang-Hyun Cho
BACKGROUND: Colorectal cancer arises from the accumulation of genetic mutations that induce dysfunction of intracellular signaling. However, the underlying mechanism of colorectal tumorigenesis driven by genetic mutations remains yet to be elucidated. RESULTS: To investigate colorectal tumorigenesis at a system-level, we have reconstructed a large-scale Boolean network model of the human signaling network by integrating previous experimental results on canonical signaling pathways related to proliferation, metastasis, and apoptosis...
October 20, 2016: BMC Systems Biology
Angel Ric, Carlota Torrents, Bruno Gonçalves, Jaime Sampaio, Robert Hristovski
This study aimed to identify the tactical patterns and the timescales of variables during a soccer match, allowing understanding the multilevel organization of tactical behaviors, and to determine the similarity of patterns performed by different groups of teammates during the first and second halves. Positional data from 20 professional male soccer players from the same team were collected using high frequency global positioning systems (5 Hz). Twenty-nine categories of tactical behaviors were determined from eight positioning-derived variables creating multivariate binary (Boolean) time-series matrices...
2016: Frontiers in Psychology
Maria Helena Gusmao-Sena, Karine Curvello-Silva, Jairza Maria Barreto-Medeiros, Carla Hilário Da-Cunha-Daltro
INTRODUCTION: The main changes in the body composition refer to the increase of adipose tissue and/or the decrease of muscular mass, and these changes have effect in many clinical outcomes. Sarcopenic obesity (SO) consists of the presence of excessive adipose tissue and deficit of muscular mass simultaneously. People with SO may have synergistic effect due to obesity and sarcopenia, with increases cardiovascular risk more than obesity itself. OBJECTIVE: To describe the findings in the literature about the association between SO and risk factors and/or cardiometabolic disease (CMD) or cardiovascular disease (CVD)...
September 20, 2016: Nutrición Hospitalaria: Organo Oficial de la Sociedad Española de Nutrición Parenteral y Enteral
Alireza Najafian, Salem I Noureldine, Faris Azar, Chady Atallah, Gina Trinh, Eric B Schneider, Ralph P Tufano, Martha A Zeiger
BACKGROUND: Molecular markers associated with thyroid malignancy are increasingly being used as differential diagnostic tools for thyroid nodules. However, little has been reported recently regarding the prevalence of these markers in benign lesions. We systematically reviewed the literature to examine studies that reported on the prevalence of these markers in benign thyroid lesions. METHODS: Appropriate papers published between January 01, 2000 and April 30, 2015 and cataloged on PubMed, Embase, Cochrane, Scopus and Web of Science databases by combining different keywords for ''thyroid tumor'' with both general and specific keywords for ''molecular marker'' by using ''AND'' as the Boolean operator...
October 17, 2016: Thyroid: Official Journal of the American Thyroid Association
Fengchao Yu, Ning Li, Weichuan Yu
In computational proteomics, identification of peptides with an unlimited number of post-translational modification (PTM) types is a challenging task. The computational cost associated with database search increases exponentially with respect to the number of modified amino acids and linearly with respect to the number of potential PTM types at each amino acid. The problem becomes intractable very quickly if we want to enumerate all possible PTM patterns. To address this issue, one group of methods named restricted tools (including Mascot, Comet, and MS-GF+) only allow a small number of PTM types in database search process...
October 17, 2016: Journal of Proteome Research
Alireza Karbalayghareh, Ulisses Braga-Neto, Jianping Hua, Edward R Dougherty
Gene-expression-based phenotype classification is used for disease diagnosis and prognosis relating to treatment strategies. The present paper considers classification based on sequential measurements of multiple genes using gene regulatory network (GRN) modeling. There are two networks, original and mutated, and observations consist of trajectories of network states. The problem is to classify an observation trajectory as coming from either the original or mutated network. GRNs are modeled via probabilistic Boolean networks, which incorporate stochasticity at both the gene and network levels...
October 11, 2016: IEEE/ACM Transactions on Computational Biology and Bioinformatics
C Seshadhri, Andrew M Smith, Yevgeniy Vorobeychik, Jackson R Mayo, Robert C Armstrong
This corrects the article DOI: 10.1103/PhysRevE.94.012301.
September 2016: Physical Review. E
Rachel A Lindor, Marysia S Tweet, Kiran A Goyal, Christine M Lohse, Rajiv Gulati, Sharonne N Hayes, Annie T Sadosty
BACKGROUND: Spontaneous coronary artery dissection (SCAD) is an infrequently recognized but potentially fatal cause of acute coronary syndrome (ACS) that disproportionately affects women. Little is currently known about how patients with SCAD initially present. OBJECTIVES: We sought to describe patients who presented to the emergency department (ED) with symptoms of SCAD to improve providers' awareness and recognition of this condition. PATIENTS AND METHODS: We performed a retrospective medical record review of all patients who presented to the ED of a single academic medical center from January 1, 2002 through October 31, 2015 and were subsequently diagnosed with SCAD by angiography...
October 8, 2016: Journal of Emergency Medicine
Han Jiang, Xue Li, Qiuliang Xu
The migration of e-health systems to the cloud computing brings huge benefits, as same as some security risks. Searchable Encryption(SE) is a cryptography encryption scheme that can protect the confidentiality of data and utilize the encrypted data at the same time. The SE scheme proposed by Cash et al. in Crypto2013 and its follow-up work in CCS2013 are most practical SE Scheme that support Boolean queries at present. In their scheme, the data user has to generate the search tokens by the counter number one by one and interact with server repeatedly, until he meets the correct one, or goes through plenty of tokens to illustrate that there is no search result...
December 2016: Journal of Medical Systems
Sang-Mok Choo, Kwang-Hyun Cho
BACKGROUND: Boolean network modeling has been widely used to model large-scale biomolecular regulatory networks as it can describe the essential dynamical characteristics of complicated networks in a relatively simple way. When we analyze such Boolean network models, we often need to find out attractor states to investigate the converging state features that represent particular cell phenotypes. This is, however, very difficult (often impossible) for a large network due to computational complexity...
October 7, 2016: BMC Systems Biology
Julien Dorier, Isaac Crespo, Anne Niknejad, Robin Liechti, Martin Ebeling, Ioannis Xenarios
BACKGROUND: Prior knowledge networks (PKNs) provide a framework for the development of computational biological models, including Boolean models of regulatory networks which are the focus of this work. PKNs are created by a painstaking process of literature curation, and generally describe all relevant regulatory interactions identified using a variety of experimental conditions and systems, such as specific cell types or tissues. Certain of these regulatory interactions may not occur in all biological contexts of interest, and their presence may dramatically change the dynamical behaviour of the resulting computational model, hindering the elucidation of the underlying mechanisms and reducing the usefulness of model predictions...
October 6, 2016: BMC Bioinformatics
Johan Berglund, Mikael Skorpil
PURPOSE: To improve the accuracy and robustness to noise in water-fat separation by unifying the multiscale and graph cut based approaches to B0 -correction. METHODS: A previously proposed water-fat separation algorithm that corrects for B0 field inhomogeneity in 3D by a single quadratic pseudo-Boolean optimization (QPBO) graph cut was incorporated into a multi-scale framework, where field map solutions are propagated from coarse to fine scales for voxels that are not resolved by the graph cut...
October 6, 2016: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
Pablo Villegas, José Ruiz-Franco, Jorge Hidalgo, Miguel A Muñoz
Gene regulatory networks can be successfully modeled as Boolean networks. A much discussed hypothesis says that such model networks reproduce empirical findings the best if they are tuned to operate at criticality, i.e. at the borderline between their ordered and disordered phases. Critical networks have been argued to lead to a number of functional advantages such as maximal dynamical range, maximal sensitivity to environmental changes, as well as to an excellent tradeoff between stability and flexibility...
October 7, 2016: Scientific Reports
Brigitte Michelsen, Eirik Klami Kristianslund, Hilde Berner Hammer, Karen Minde Fagerli, Elisabeth Lie, Ada Wierød, Synøve Kalstad, Erik Rødevand, Frode Krøll, Glenn Haugeberg, Tore K Kvien
OBJECTIVE: To investigate the predictive value of discordance between (1) tender and swollen joint count and (2) patient's and evaluator's global assessment on remission in patients with rheumatoid arthritis (RA) and psoriatic arthritis (PsA). METHODS: From the prospective, multicentre Norwegian-Disease-Modifying Antirheumatic Drug study, we included patients with RA and PsA starting first-time tumour necrosis factor inhibitors and DMARD-naïve patients starting methotrexate between 2000 and 2012...
October 4, 2016: Annals of the Rheumatic Diseases
Lars Donath, Ralf Roth, Lukas Zahner, Oliver Faude
BACKGROUND: Adequate static and dynamic balance performance is an important prerequisite during daily and sporting life. Various traditional and innovative balance training concepts have been suggested to improve postural control or neuromuscular fall risk profiles over recent years. Whether slackline training (balancing over narrow nylon ribbons) serves as an appropriate training strategy to improve static and dynamic balance performance is as yet unclear. OBJECTIVE: The aim was to examine the occurrence and magnitude of effects of slackline training compared with an inactive control condition on static and dynamic balance performance parameters in children, adults and seniors...
October 4, 2016: Sports Medicine
Nicole P C Konijn, Lilian H D van Tuyl, Maarten Boers, Debby den Uyl, Marieke M Ter Wee, Pit Kerstens, Alexandre E Voskuyl, Dirkjan van Schaardenburg, Michael T Nurmohamed, Willem F Lems
OBJECTIVE: To investigate whether remission at single and consecutive visits predicts good outcome in early rheumatoid arthritis (RA). METHODS: The presence of remission according to ACR/EULAR and other criteria (Boolean clinical, CDAI, DAS, DAS28, RAPID3) was assessed in early RA patients during the first year of the COBRA-light trial. Likelihood ratios were used to assess whether meeting the remission criteria at single visits (13, 26, 39 or 52 weeks) and consecutive visits (13 + 26, 26 + 39 or 39 + 52 weeks) predicted good outcome in the second year (52-104 weeks)...
October 1, 2016: Arthritis Care & Research
Michael E Mack, Elizabeth Hsia, Daniel Aletaha
OBJECTIVE: The American College of Rheumatology (ACR)/European League Against Rheumatism (EULAR) have defined remission using Boolean- or index-based criteria (i.e., the Simplified Disease Activity Index [SDAI] ≤3.3). The Clinical Disease Activity Index (CDAI) ≤2.8) also was included in our comparison of remission definitions to inform endpoint choice for future rheumatoid arthritis (RA) clinical trials. METHODS: We performed post-hoc analyses on clinical remission rates using data from infliximab (ASPIRE/ATTRACT) and golimumab (GO-FORWARD) trials...
October 1, 2016: Arthritis & Rheumatology
Clemens Scott Kruse, Benjamin Frederick, Taylor Jacobson, D Kyle Monticone
BACKGROUND: The adoption of healthcare technology is arduous, and it requires planning and implementation time. Healthcare organizations are vulnerable to modern trends and threats because it has not kept up with threats. OBJECTIVE: The objective of this systematic review is to identify cybersecurity trends, including ransomware, and identify possible solutions by querying academic literature. METHODS: The reviewers conducted three separate searches through the CINAHL and PubMed (MEDLINE) and the Nursing and Allied Health Source via ProQuest databases...
September 20, 2016: Technology and Health Care: Official Journal of the European Society for Engineering and Medicine
Omorogieva Ojo
OBJECTIVE: This review examines the use of exenatide twice daily in managing changes in markers of cardiovascular risk in patients with type 2 diabetes. BACKGROUND: Type 2 diabetes is a progressive metabolic disorder, which results from defects in insulin secretion and/or insulin action leading to chronic hyperglycaemia and associated cardiovascular complications. Despite the use of diet, exercise, oral antihyperglycaemic agents and insulin, the progressive nature of the condition means that the levels of the preventive and treatment measures would have to be increased and/or new therapies have to be developed in order to address the long term impact of type 2 diabetes...
2016: International Journal of Environmental Research and Public Health
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