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https://www.readbyqxmd.com/read/28623593/boolean-dynamic-modeling-approaches-to-study-plant-gene-regulatory-networks-integration-validation-and-prediction
#1
José Dávila Velderraín, Juan Carlos Martínez-García, Elena R Álvarez-Buylla
Mathematical models based on dynamical systems theory are well-suited tools for the integration of available molecular experimental data into coherent frameworks in order to propose hypotheses about the cooperative regulatory mechanisms driving developmental processes. Computational analysis of the proposed models using well-established methods enables testing the hypotheses by contrasting predictions with observations. Within such framework, Boolean gene regulatory network dynamical models have been extensively used in modeling plant development...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28613183/single-input-pinning-controller-design-for-reachability-of-boolean-networks
#2
Fangfei Li, Huaicheng Yan, Hamid Reza Karimi
This brief is concerned with the problem of a single-input pinning control design for reachability of Boolean networks (BNs). Specifically, the transition matrix of a BN is designed to steer the BN from an initial state to a desirable one. In addition, some nodes are selected as the pinning nodes by solving some logical matrix equations. Furthermore, a single-input pinning control algorithm is given. Eventually, a genetic regulatory network is provided to demonstrate the effectiveness and feasibility of the developed method...
June 12, 2017: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/28597483/international-patent-applications-for-non-injectable-naloxone-for-opioid-overdose-reversal-exploratory-search-and-retrieve-analysis-of-the-patentscope-database
#3
REVIEW
Rebecca McDonald, Øyvind Danielsson Glende, Ola Dale, John Strang
ISSUES: Non-injectable naloxone formulations are being developed for opioid overdose reversal, but only limited data have been published in the peer-reviewed domain. Through examination of a hitherto-unsearched database, we expand public knowledge of non-injectable formulations, tracing their development and novelty, with the aim to describe and compare their pharmacokinetic properties. APPROACH: (i) The PatentScope database of the World Intellectual Property Organization was searched for relevant English-language patent applications; (ii) Pharmacokinetic data were extracted, collated and analysed; (iii) PubMed was searched using Boolean search query '(nasal OR intranasal OR nose OR buccal OR sublingual) AND naloxone AND pharmacokinetics'...
June 8, 2017: Drug and Alcohol Review
https://www.readbyqxmd.com/read/28589309/influential-factors-on-treatment-decision-making-among-patients-with-colorectal-cancer-a-scoping-review
#4
REVIEW
Nicole M Cranley, Barbara Curbow, Thomas J George, Juliette Christie
PURPOSE: In recent years, a greater emphasis has been placed on shared decision-making (SDM) techniques between providers and patients with the goal of helping patients make informed decisions about their care and subsequently to improve patient health outcomes. Previous research has shown variability in treatment decision-making among patients with colorectal cancer (CRC), and there is little comprehensive information available to help explain this variability. Thus, the purpose of this study was to evaluate the current state of the literature on factors that are influential in treatment decision-making among patients with CRC...
June 6, 2017: Supportive Care in Cancer: Official Journal of the Multinational Association of Supportive Care in Cancer
https://www.readbyqxmd.com/read/28587084/a-max-flow-based-algorithm-for-connected-target-coverage-with-probabilistic-sensors
#5
Anxing Shan, Xianghua Xu, Zongmao Cheng, Wensheng Wang
Coverage is a fundamental issue in the research field of wireless sensor networks (WSNs). Connected target coverage discusses the sensor placement to guarantee the needs of both coverage and connectivity. Existing works largely leverage on the Boolean disk model, which is only a coarse approximation to the practical sensing model. In this paper, we focus on the connected target coverage issue based on the probabilistic sensing model, which can characterize the quality of coverage more accurately. In the probabilistic sensing model, sensors are only be able to detect a target with certain probability...
May 25, 2017: Sensors
https://www.readbyqxmd.com/read/28584110/assessing-regulatory-information-in-developmental-gene-regulatory-networks
#6
Isabelle S Peter, Eric H Davidson
Gene regulatory networks (GRNs) provide a transformation function between the static genomic sequence and the primary spatial specification processes operating development. The regulatory information encompassed in developmental GRNs thus goes far beyond the control of individual genes. We here address regulatory information at different levels of network organization, from single node to subcircuit to large-scale GRNs and discuss how regulatory design features such as network architecture, hierarchical organization, and cis-regulatory logic contribute to the developmental function of network circuits...
June 6, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28579354/factors-related-to-the-association-of-social-anxiety-disorder-and-alcohol-use-among-adolescents-a-systematic-review
#7
REVIEW
Elisabeth Lima Dias da Cruz, Priscila Diniz de Carvalho Martins, Paula Rejane Beserra Diniz
OBJECTIVE: To identify the risk factors related to the association between social anxiety disorder and alcohol use in adolescents. SOURCE OF DATA: The PICO research strategy was used to perform a systematic review in Medline, LILACS, Pubmed, IBECS and Cochrane Library databases. DeCS/MeSH: Phobic Disorders, Adolescent, Behavior, Ethanol, Risk Factors, and the Boolean operator "AND" were used. Inclusion criteria were: cross-sectional, prospective/retrospective cohort, and case-control studies, carried out in adolescents (10-19 years), original articles on social anxiety disorder and alcohol use published between 2010 and 2015...
June 1, 2017: Jornal de Pediatria
https://www.readbyqxmd.com/read/28562596/perspectives-of-older-people-about-contingency-planning-for-falls-in-the-community-a-qualitative-meta-synthesis
#8
Kimberly Charlton, Carolyn M Murray, Saravana Kumar
OBJECTIVE: Despite consistent evidence for the positive impact of contingency planning for falls in older people, implementation of plans often fail. This is likely due to lack of recognition and knowledge about perspectives of older people about contingency planning. The objective of this research was to explore the perspectives of older people living in the community about use of contingency planning for getting help quickly after a fall. METHOD: A systematic literature search seeking qualitative research was conducted in April 2014, with no limit placed on date of publication...
2017: PloS One
https://www.readbyqxmd.com/read/28548604/quorum-sensing-systems-in-the-plant-growth-promoting-bacterium-paraburkholderia-phytofirmans-psjn-exhibit-cross-regulation-and-are-involved-in-biofilm-formation
#9
Ana Zúñiga, Raúl A Donoso, Daniela Ruiz, Gonzalo A Ruz, Bernardo González
Quorum-sensing systems play important roles in host colonization and host establishment of Burkholderiales species. Beneficial Paraburkholderia species share a conserved quorum-sensing (QS) system, designated BraI/R, that controls different phenotypes. In this context, the plant growth-promoting bacterium Paraburkholderia phytofirmans PsJN possesses two different homoserine lactone QS systems BpI.1/R.1 and BpI.2/R.2 (BraI/R-like QS system). The BpI.1/R.1 QS system was previously reported to be important to colonize and produce beneficial effects in Arabidopsis thaliana plants...
July 2017: Molecular Plant-microbe Interactions: MPMI
https://www.readbyqxmd.com/read/28544615/suppressing-inflammation-in-rheumatoid-arthritis-does-patient-global-assessment-blur-the-target-a-practice-based-call-for-a-paradigm-change
#10
Ricardo J O Ferreira, Cátia Duarte, Mwidimi Ndosi, Maarten de Wit, Laure Gossec, J A P da Silva
OBJECTIVES: In current management paradigms of Rheumatoid Arthritis (RA), patient global assessment (PGA) is crucial to decide whether a patient has attained remission (target) or needs reinforced therapy. We investigated whether the clinical and psychological determinants of PGA are appropriate to support this important role. METHODS: This was a cross-sectional, single centre study including consecutive ambulatory RA patients. Data collection comprised swollen (SJC28) and tender joint counts (TJC28), C-Reactive protein (CRP), PGA, pain, fatigue, function, anxiety, depression, happiness, personality traits, and comorbidities...
May 23, 2017: Arthritis Care & Research
https://www.readbyqxmd.com/read/28534781/reviving-the-two-state-markov-chain-approach
#11
Andrzej Mizera, Jun Pang, Qixia Yuan
Probabilistic Boolean networks (PBNs) is a well-established computational framework for modelling biological systems. The steady-state dynamics of PBNs is of crucial importance in the study of such systems. However, for large PBNs, which often arise in systems biology, obtaining the steady-state distribution poses a significant challenge. In this paper, we revive the two-state Markov chain approach to solve this problem. This paper contributes in three aspects. First, we identify a problem of generating biased results with the approach and we propose a few heuristics to avoid such a pitfall...
May 16, 2017: IEEE/ACM Transactions on Computational Biology and Bioinformatics
https://www.readbyqxmd.com/read/28529379/separating-or-sum-and-xor-circuits
#12
Magnus Find, Mika Göös, Matti Järvisalo, Petteri Kaski, Mikko Koivisto, Janne H Korhonen
Given a boolean n × n matrix A we consider arithmetic circuits for computing the transformation x ↦ Ax over different semirings. Namely, we study three circuit models: monotone OR-circuits, monotone SUM-circuits (addition of non-negative integers), and non-monotone XOR-circuits (addition modulo 2). Our focus is on separating OR-circuits from the two other models in terms of circuit complexity: We show how to obtain matrices that admit OR-circuits of size O(n), but require SUM-circuits of size Ω(n(3/2)/log(2)n)...
August 2016: Journal of Computer and System Sciences
https://www.readbyqxmd.com/read/28507669/continuous-variables-logic-via-coupled-automata-using-a-dnazyme-cascade-with-feedback
#13
S Lilienthal, M Klein, R Orbach, I Willner, F Remacle, R D Levine
The concentration of molecules can be changed by chemical reactions and thereby offer a continuous readout. Yet computer architecture is cast in textbooks in terms of binary valued, Boolean variables. To enable reactive chemical systems to compute we show how, using the Cox interpretation of probability theory, one can transcribe the equations of chemical kinetics as a sequence of coupled logic gates operating on continuous variables. It is discussed how the distinct chemical identity of a molecule allows us to create a common language for chemical kinetics and Boolean logic...
March 1, 2017: Chemical Science
https://www.readbyqxmd.com/read/28494847/history-of-cupping-hijama-a-narrative-review-of-literature
#14
REVIEW
Naseem Akhtar Qureshi, Gazzaffi Ibrahim Ali, Tamer Shaban Abushanab, Ahmed Tawfik El-Olemy, Meshari Saleh Alqaed, Ibrahim S El-Subai, Abdullah M N Al-Bedah
Cupping (Hijama in Arabic) is an ancient, holistic method for the treatment of a variety of diseases. Though the exact origin of cupping therapy is a matter of controversy, its use has been documented in early Egyptian and Chinese medical practices. Diverse human civilizations have contributed to the historical development and continuation of cupping therapy. This narrative review describes the history of cupping, historical definitions, cupping instruments and uses of cupping therapy. Electronic searches of relevant databases (PubMed, Google Scholar and OvidSP) were conducted using keywords and Boolean operators...
May 2017: Journal of Integrative Medicine
https://www.readbyqxmd.com/read/28490181/annals-express-designing-and-evaluating-autoverification-rules-for-thyroid-function-profiles-and-sex-hormone-tests
#15
Jiancheng Li, Bizhen Cheng, Huizhen Ouyang, Tongtong Xiao, Jing Hu, Yingmu Cai
PURPOSE: Following the analytical phase, the current practice of many hospital laboratories involves the manual verification of all test results followed by the production of the report. However, manual verification is a time-consuming and tedious process. In this paper, we provide a detailed description of how to design autoverification rules for thyroid function test profiles and sex hormones. MaterialsandMethods: We used DM2 (Data manager 2) to construct the algorithm and build the database for autoverification of thyroid function test profiles and sex hormones, with reference to Boolean logic, Auto-10A and CLSI'88...
January 1, 2017: Annals of Clinical Biochemistry
https://www.readbyqxmd.com/read/28484608/ordinary-differential-equations-and-boolean-networks-in-application-to-modelling-of-6-mercaptopurine-metabolism
#16
Anastasia I Lavrova, Eugene B Postnikov, Andrey Yu Zyubin, Svetlana V Babak
We consider two approaches to modelling the cell metabolism of 6-mercaptopurine, one of the important chemotherapy drugs used for treating acute lymphocytic leukaemia: kinetic ordinary differential equations, and Boolean networks supplied with one controlling node, which takes continual values. We analyse their interplay with respect to taking into account ATP concentration as a key parameter of switching between different pathways. It is shown that the Boolean networks, which allow avoiding the complexity of general kinetic modelling, preserve the possibility of reproducing the principal switching mechanism...
April 2017: Royal Society Open Science
https://www.readbyqxmd.com/read/28478785/children-s-comprehension-of-plural-predicate-conjunction
#17
Lyn Tieu, Jacopo Romoli, Eva Poortman, Yoad Winter, Stephen Crain
Previous developmental studies of conjunction have focused on the syntax of phrasal and sentential coordination (Lust, 1977; de Villiers, Tager-Flusberg & Hakuta, 1977; Bloom, Lahey, Hood, Lifter & Fiess, 1980, among others). The present study examined the flexibility of children's interpretation of conjunction. Specifically, when two predicates that can apply simultaneously to a single individual are conjoined in the scope of a plural definite (The bears are big and white), conjunction receives a Boolean, intersective interpretation...
May 8, 2017: Journal of Child Language
https://www.readbyqxmd.com/read/28476690/the-relationships-between-low-back-pain-and-lumbar-lordosis-a-systematic-review-and-meta-analysis
#18
REVIEW
Se-Woong Chun, Chai-Young Lim, Keewon Kim, Jinseub Hwang, Sun G Chung
BACKGROUND CONTEXT: Clinicians regard lumbar lordotic curvature (LLC) with respect to low back pain (LBP) in a contradictory fashion. The time-honored point of view is that LLC itself, or its increment causes LBP. On the other hand, recently, the biomechanical role of LLC has been emphasized and loss of lordosis is considered a possible cause of LBP. The relationship between LLC and LBP has immense clinical significance, since it serves as the basis of therapeutic exercises for treating and preventing LBP...
May 2, 2017: Spine Journal: Official Journal of the North American Spine Society
https://www.readbyqxmd.com/read/28470997/implementation-of-multivariable-logic-functions-in-parallel-by-electrical-addressing-a-molecule-of-three-dopants-in-silicon
#19
Barbara Fresch, Juanita Bocquel, Dawit Hiluf, Sven Rogge, Raphael D Levine, Francoise Remacle
To realize low power compact logic circuits one can explore parallel operation on single nanoscale devices. An added incentive is to use multivalued (as distinct from Boolean) logic. Here we theoretically demonstrate that the computation of all the possible outputs of a multivariate, multivalued logic function can be implemented in parallel by electrical addressing of a molecule made up of three interacting dopant atoms embedded in Si. The electronic states of the dopant molecule are addressed by pulsing a gate voltage...
May 4, 2017: Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry
https://www.readbyqxmd.com/read/28467664/dna-release-from-fe3-cross-linked-alginate-films-triggered-by-logically-processed-biomolecular-signals-integration-of-biomolecular-computing-and-actuation
#20
Evgeny Katz, Maria Gamella, Marina Privman, Saira Bakshi, Artem Melman
Signal-controlled release of DNA from Fe3+-cross-linked alginate hydrogel electrochemically deposited on an electrode surface was studied. The multiple input signals were logically processed with the help of the enzyme biocatalyzed reactions. Boolean logic gates, OR, AND, INH, were realized with the biocatalytic reactions performed by the enzymes entrapped in the alginate film. Hydrogen peroxide produced by the enzymatic reactions resulted in the degradation of the alginate hydrogel and DNA release. The alginate degradation was facilitated by the formation of free radicals in the Fenton-type reaction catalyzed by iron cations cross-linking the alginate hydrogel...
May 3, 2017: Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry
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