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https://www.readbyqxmd.com/read/28440471/time-dependent-differential-expression-of-long-non-coding-rnas-following-peripheral-nerve-injury
#1
Bin Pan, Heng-Xing Zhou, Yi Liu, Jia-Yin Yan, Yao Wang, Xue Yao, Yan-Qiu Deng, Shu-Yi Chen, Lu Lu, Zhi-Jian Wei, Xiao-Hong Kong, Shi-Qing Feng
Long non-coding RNAs (lncRNAs) are widely accepted as key players in various biological processes. However, the roles of lncRNA in peripheral nerve regeneration remain completely unknown. Thus, in this study, we performed microarray analysis to measure lncRNA expression in the distal segment of the sciatic nerve at 0, 3, 7 and 14 days following injury. We identified 5,354 lncRNAs that were differentially expressed: 3,788 lncRNAs were differentially expressed between days 0 and 3; 3,314 lncRNAs were differentially expressed between days 0 and 7; and 2,400 lncRNAs were differentially expressed between days 0 and 14...
April 21, 2017: International Journal of Molecular Medicine
https://www.readbyqxmd.com/read/28436884/novelty-indicator-for-enhanced-prioritization-of-predicted-gene-ontology-annotations
#2
Davide Chicco, Fernando Palluzzi, Marco Masseroli
Biomolecular controlled annotations have become pivotal in computational biology, because they allow scientists to analyze large amounts of biological data to better understand test results, and to infer new knowledge. Yet, biomolecular annotation databases are incomplete by definition, like our knowledge of biology, and might contain errors and inconsistent information. In this context, machine-learning algorithms able to predict and prioritize new annotations are both effective and efficient, especially if compared with time-consuming trials of biological validation...
April 18, 2017: IEEE/ACM Transactions on Computational Biology and Bioinformatics
https://www.readbyqxmd.com/read/28435015/using-classification-models-for-the-generation-of-disease-specific-medications-from-biomedical-literature-and-clinical-data-repository
#3
Liqin Wang, Peter J Haug, Guilherme Del Fiol
OBJECTIVE: Mining disease-specific associations from existing knowledge resources can be useful for building disease-specific ontologies and supporting knowledge-based applications. Many association mining techniques have been exploited. However, the challenge remains when those extracted associations contained much noise. It is unreliable to determine the relevance of the association by simply setting up arbitrary cut-off points on multiple scores of relevance; and it would be expensive to ask human experts to manually review a large number of associations...
April 20, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28423861/a-digital-framework-to-support-providers-and-patients-in-diabetes-related-behavior-modification
#4
Samina Abidi, Michael Vallis, Helena Piccinini-Vallis, Syed Ali Imran, Syed Sibte Raza Abidi
We present Diabetes Web-Centric Information and Support Environment (D-WISE) that features: (a) Decision support tool to assist family physicians to administer Behavior Modification (BM) strategies to patients; and (b) Patient BM application that offers BM strategies and motivational interventions to engage patients. We take a knowledge management approach, using semantic web technologies, to model the social cognition theory constructs, Canadian diabetes guidelines and BM protocols used locally, in terms of a BM ontology that drives the BM decision support to physicians and BM strategy adherence monitoring and messaging to patients...
2017: Studies in Health Technology and Informatics
https://www.readbyqxmd.com/read/28423839/a-semantic-framework-for-logical-cross-validation-evaluation-and-impact-analyses-of-population-health-interventions
#5
Arash Shaban-Nejad, Anya Okhmatovskaia, Eun Kyong Shin, Robert L Davis, Brandi E Franklin, David L Buckeridge
Most chronic diseases are a result of a complex web of causative and correlated factors. As a result, effective public health or clinical interventions that intend to generate a sustainable change in these diseases most often use a combination of strategies or programs. To optimize comparative effectiveness evaluations and select the most efficient intervention(s), stakeholders (i.e. public health institutions, policy-makers and advocacy groups, practitioners, insurers, clinicians, and researchers) need access to reliable assessment methods...
2017: Studies in Health Technology and Informatics
https://www.readbyqxmd.com/read/28423826/combining-archetypes-ontologies-and-formalization-enables-automated-computation-of-quality-indicators
#6
María Del Carmen Legaz-García, Kathrin Dentler, Jesualdo Tomás Fernández-Breis, Ronald Cornet
ArchMS is a framework that represents clinical information and knowledge using ontologies in OWL, which facilitates semantic interoperability and thereby the exploitation and secondary use of clinical data. However, it does not yet support the automated assessment of quality of care. CLIF is a stepwise method to formalize quality indicators. The method has been implemented in the CLIF tool which supports its users in generating computable queries based on a patient data model which can be based on archetypes...
2017: Studies in Health Technology and Informatics
https://www.readbyqxmd.com/read/28401613/implementing-augmentative-and-alternative-communication-in-critical-care-settings-perspectives-of-healthcare-professionals
#7
Charlotte Handberg, Anna Katarina Voss
AIM: The aim of the current study was to describe the perspectives of healthcare professionals caring for intubated patients on implementing Augmentative and Alternative Communication (AAC) in critical care settings. BACKGROUND: Patients in critical care settings subjected to endotracheal intubation suffer from a temporary functional speech disorder and can also experience anxiety, stress and delirium, leading to longer and more complicated hospitalization and rehabilitation...
April 12, 2017: Journal of Clinical Nursing
https://www.readbyqxmd.com/read/28400312/assigning-clinical-codes-with-data-driven-concept-representation-on-dutch-clinical-free-text
#8
Elyne Scheurwegs, Kim Luyckx, Léon Luyten, Bart Goethals, Walter Daelemans
Clinical codes are used for public reporting purposes, are fundamental to determining public financing for hospitals, and form the basis for reimbursement claims to insurance providers. They are assigned to a patient stay to reflect the diagnosis and performed procedures during that stay. This paper aims to enrich algorithms for automated clinical coding by taking a data-driven approach and by using unsupervised and semi-supervised techniques for the extraction of multi-word expressions that convey a generalisable medical meaning (referred to as concepts)...
April 8, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28389261/an-engineering-paradigm-in-the-biomedical-sciences-knowledge-as-epistemic-tool
#9
REVIEW
Mieke Boon
In order to deal with the complexity of biological systems and attempts to generate applicable results, current biomedical sciences are adopting concepts and methods from the engineering sciences. Philosophers of science have interpreted this as the emergence of an engineering paradigm, in particular in systems biology and synthetic biology. This article aims at the articulation of the supposed engineering paradigm by contrast with the physics paradigm that supported the rise of biochemistry and molecular biology...
April 4, 2017: Progress in Biophysics and Molecular Biology
https://www.readbyqxmd.com/read/28387809/the-anatomy-of-phenotype-ontologies-principles-properties-and-applications
#10
Georgios V Gkoutos, Paul N Schofield, Robert Hoehndorf
The past decade has seen an explosion in the collection of genotype data in domains as diverse as medicine, ecology, livestock and plant breeding. Along with this comes the challenge of dealing with the related phenotype data, which is not only large but also highly multidimensional. Computational analysis of phenotypes has therefore become critical for our ability to understand the biological meaning of genomic data in the biological sciences. At the heart of computational phenotype analysis are the phenotype ontologies...
April 6, 2017: Briefings in Bioinformatics
https://www.readbyqxmd.com/read/28376776/the-ecouter-methodology-for-stakeholder-engagement-in-translational-research
#11
Madeleine J Murtagh, Joel T Minion, Andrew Turner, Rebecca C Wilson, Mwenza Blell, Cynthia Ochieng, Barnaby Murtagh, Stephanie Roberts, Oliver W Butters, Paul R Burton
BACKGROUND: Because no single person or group holds knowledge about all aspects of research, mechanisms are needed to support knowledge exchange and engagement. Expertise in the research setting necessarily includes scientific and methodological expertise, but also expertise gained through the experience of participating in research and/or being a recipient of research outcomes (as a patient or member of the public). Engagement is, by its nature, reciprocal and relational: the process of engaging research participants, patients, citizens and others (the many 'publics' of engagement) brings them closer to the research but also brings the research closer to them...
April 4, 2017: BMC Medical Ethics
https://www.readbyqxmd.com/read/28371787/semantically-enhanced-online-configuration-of-feedback-control-schemes
#12
Georgios M Milis, Christos G Panayiotou, Marios M Polycarpou
Recent progress toward the realization of the ``Internet of Things'' has improved the ability of physical and soft/cyber entities to operate effectively within large-scale, heterogeneous systems. It is important that such capacity be accompanied by feedback control capabilities sufficient to ensure that the overall systems behave according to their specifications and meet their functional objectives. To achieve this, such systems require new architectures that facilitate the online deployment, composition, interoperability, and scalability of control system components...
March 31, 2017: IEEE Transactions on Cybernetics
https://www.readbyqxmd.com/read/28370781/downregulation-of-genes-related-to-immune-and-inflammatory-response-in-ivf-implantation-failure-cases-under-controlled-ovarian-stimulation
#13
Amruta D S Pathare, Kusum Zaveri, Indira Hinduja
PROBLEM: Implantation failure (IF) even after the good-quality embryo transfer (ET) is main obstacle in in vitro fertilization (IVF). We aim to study the genomics of endometrial receptivity in IF patients under controlled ovarian stimulation (COS) during which ET is generally practised in IVF. METHOD OF STUDY: Endometrial gene expression profiling in IF patients (n=10) and oocyte donors (n=8) were compared during window of implantation under COS by microarray. Enrichment analysis of microarray data was performed to determine dysregulated pathways...
March 30, 2017: American Journal of Reproductive Immunology: AJRI
https://www.readbyqxmd.com/read/28363288/temporal-detection-and-analysis-of-guideline-interactions
#14
Luca Anselma, Luca Piovesan, Paolo Terenziani
BACKGROUND: Clinical practice guidelines (CPGs) are assuming a major role in the medical area, to grant the quality of medical assistance, supporting physicians with evidence-based information of interventions in the treatment of single pathologies. The treatment of patients affected by multiple diseases (comorbid patients) is one of the main challenges for the modern healthcare. It requires the development of new methodologies, supporting physicians in the treatment of interactions between CPGs...
February 2017: Artificial Intelligence in Medicine
https://www.readbyqxmd.com/read/28361699/prior-knowledge-guided-active-modules-identification-an-integrated-multi-objective-approach
#15
Weiqi Chen, Jing Liu, Shan He
BACKGROUND: Active module, defined as an area in biological network that shows striking changes in molecular activity or phenotypic signatures, is important to reveal dynamic and process-specific information that is correlated with cellular or disease states. METHODS: A prior information guided active module identification approach is proposed to detect modules that are both active and enriched by prior knowledge. We formulate the active module identification problem as a multi-objective optimisation problem, which consists two conflicting objective functions of maximising the coverage of known biological pathways and the activity of the active module simultaneously...
March 14, 2017: BMC Systems Biology
https://www.readbyqxmd.com/read/28344915/from-the-evaluation-of-existing-solutions-to-an-all-inclusive-package-for-biobanks
#16
Heimo Müller, Nicolas Malservet, Philip Quinlan, Robert Reihs, Matthieu Penicaud, Antoine Chami, Kurt Zatloukal, George Dagher
The domain of biobanking has gone through many stages and as a result there are a wide range of commercial and open source software solutions available. The utilization of these software tools requires different levels of domain and technical skills for installation, configuration and ultimate us of these biobank software tools. To compound this complexity the biobanking community are required to work together in order to share knowledge and jointly build solutions to underpin the research infrastructure. We have evaluated the available tools, described them in a catalogue (BiobankApps) and made a selection of tools available to biobanks in a reference toolbox (BIBBOX) that are use-case driven...
2017: Health and Technology
https://www.readbyqxmd.com/read/28344914/automatic-classification-of-histopathological-diagnoses-for-building-a-large-scale-tissue-catalogue
#17
Robert Reihs, Heimo Müller, Stefan Sauer, Kurt Zatloukal
In this paper an automatic classification system for pathological findings is presented. The starting point in our undertaking was a pathologic tissue collection with about 1.4 million tissue samples described by free text records over 23 years. Exploring knowledge out of this "big data" pool is a challenging task, especially when dealing with unstructured data spanning over many years. The classification is based on an ontology-based term extraction and decision tree build with a manually curated classification system...
2017: Health and Technology
https://www.readbyqxmd.com/read/28339073/identification-of-proteins-in-the-aqueous-humor-associated-with-cataract-development-using-itraq-methodology
#18
Minhong Xiang, Xingru Zhang, Qingsong Li, Hanmin Wang, Zhenyong Zhang, Zhumei Han, Meiqing Ke, Xingxing Chen
Proteins in the aqueous humor (AH) are important in the induction of cataract development. The identification of cataract-associated proteins assists in identifying patients and predisposed to the condition and improve treatment efficacy. Proteomics analysis has previously been used for identifying protein markers associated with eye diseases; however, few studies have examined the proteomic alterations in cataract development due to high myopia, glaucoma and diabetes. The present study, using the isobaric tagging for relative and absolute protein quantification methodology, aimed to examine cataract-associated proteins in the AH from patients with high myopia, glaucoma or diabetes, and controls...
May 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28337675/an-ontology-based-search-engine-for-digital-reconstructions-of-neuronal-morphology
#19
Sridevi Polavaram, Giorgio A Ascoli
Neuronal morphology is extremely diverse across and within animal species, developmental stages, brain regions, and cell types. This diversity is functionally important because neuronal structure strongly affects synaptic integration, spiking dynamics, and network connectivity. Digital reconstructions of axonal and dendritic arbors are thus essential to quantify and model information processing in the nervous system. NeuroMorpho.Org is an established repository containing tens of thousands of digitally reconstructed neurons shared by several hundred laboratories worldwide...
March 23, 2017: Brain Informatics
https://www.readbyqxmd.com/read/28326913/reflecting-on-the-learning-opportunities-of-presenting-at-a-conference
#20
Beverly Joshua
Background Research productivity is a major indicator of higher educational institutions' (HEI) academic performance. The increasing focus on research productivity is resulting in an expectation that academics publish their research initiatives, ideas and developments in their scope of work or area of interest. It can influence academic status and compel nursing academics to undertake higher degrees, including PhDs or other doctoral studies. Aim To articulate a nurse academic's reflection on presenting her doctoral thesis at an international conference and to encourage students to embrace the dissemination of research...
March 22, 2017: Nurse Researcher
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