Ontology Dotaz Zobrazit nápovědu
Cambridge studies in philosophy
1st ed. ix, 261 s.
- Konspekt
- Věda. Všeobecnosti. Základy vědy a kultury. Vědecká práce
- NLK Obory
- humanitní vědy a umění
The concept of Data Management Plan (DMP) has emerged as a fundamental tool to help researchers through the systematical management of data. The Research Data Alliance DMP Common Standard (DCS) working group developed a set of universal concepts characterising a DMP so it can be represented as a machine-actionable artefact, i.e., machine-actionable Data Management Plan (maDMP). The technology-agnostic approach of the current maDMP specification: (i) does not explicitly link to related data models or ontologies, (ii) has no standardised way to describe controlled vocabularies, and (iii) is extensible but has no clear mechanism to distinguish between the core specification and its extensions.This paper reports on a community effort to create the DMP Common Standard Ontology (DCSO) as a serialisation of the DCS core concepts, with a particular focus on a detailed description of the components of the ontology. Our initial result shows that the proposed DCSO can become a suitable candidate for a reference serialisation of the DMP Common Standard.
- MeSH
- bio-ontologie * MeSH
- data management * MeSH
- řízený slovník MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
Objective: A lack of acceptance has hindered the widespread adoption and implementation of clinical prediction rules (CPRs). The use of clinical decision support systems (CDSSs) has been advocated as one way of facilitating a broader dissemination and validation of CPRs. This requires computable models of clinical evidence based on open standards rather than closed proprietary content. Methods: The on-going TRANSFoRm project has developed ontological models of CPRs suitable for providing CPR based decision support.
- MeSH
- akutní nemoc MeSH
- algoritmy * MeSH
- apendicitida diagnóza MeSH
- diagnóza počítačová metody MeSH
- diferenciální diagnóza MeSH
- lidé MeSH
- medicína založená na důkazech MeSH
- metody pro podporu rozhodování * MeSH
- navrhování softwaru MeSH
- primární zdravotní péče MeSH
- reprodukovatelnost výsledků MeSH
- rozhodování MeSH
- systémy pro podporu klinického rozhodování * MeSH
- výzkumný projekt MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- práce podpořená grantem MeSH
Objectives: The goals of this study were to examine the feasibility of using ontology-based text mining with CaringBridge social media journal entries in order to understand journal content from a whole-person perspective. Specific aims were to describe Omaha System problem concept frequencies in the journal entries over a four-step process overall, and relative to Omaha System Domains; and to examine the four step method including the use of standardized terms and related words. Design: Ontology-based retrospective observational feasibility study using text mining methods. Sample: A corpus of social media text consisting of 13,757,900 CaringBridge journal entries from June 2006 to June 2016. Measures: The Omaha System terms, including problems and signs/symptoms, were used as the foundational lexicon for this study. Development of an extended lexicon with related words for each problem concept expanded the semantics-powered data analytics approach to reflect consumer word choices. Results: All Omaha System problem concepts were identified in the journal entries, with consistent representation across domains. The approach was most successful when common words were used to represent clinical terms. Preliminary validation of journal examples showed appropriate representation of the problem concepts. Conclusions: This is the first study to evaluate the feasibility of using an interface terminology and ontology (the Omaha System) as a text mining information model. Further research is needed to systematically validate these findings, refine the process as needed to advance the study of CaringBridge content, and extend the use of this method to other consumer-generated journal entries and terminologies.
- Klíčová slova
- Omaha System,
- MeSH
- bio-ontologie MeSH
- data mining * metody MeSH
- lidé MeSH
- řízený slovník MeSH
- Check Tag
- lidé MeSH
Text cílí k objasnění nutnosti ontického a ontologického hlediska při diagnostice, terapii a prevenci chronického únavového syndromu (CFS – chronic fatiuge syndrome). Onticita vychází z biologizujícího medicínského pohledu na lidské tělo v nároku metodologie „clare et distincte“, který však nepostačuje k objasnění kontextu a zabraňuje porozumění obtíže daného člověka v rovině habituální.
The text is aimed to clarify the need of ontic and ontological point of view in the diagnosis, treatment and prevention of chronic fatigue syndrome (CFS – chronic fatigue syndrome). Onticity is based on biological medical viewpoint on the human body according to methodology „clare et distincte“ which is however not sufficient to clarify the CFS context and it does not allow to understand the specific person habitual difficulties.
The ontology proposed in this paper is aimed at demonstrating that it is possible to understand the counter-intuitive predictions of quantum mechanics while still retaining much of the framework underlying classical physics, the implication being that it is better to avoid wandering into unnecessarily speculative realms without the support of conclusive evidence. In particular, it is argued that it is possible to interpret quantum mechanics as simply describing an external world consisting of familiar physical entities (e.g., particles or fields) residing in classical 3-dimensional space (not configuration space) with Lorentz covariance maintained.
Mammalian cumulus-oocyte complexes (COCs) reach full developmental capability during folliculogenesis and oogenesis. It is well recognized that only gametes achieving MII stage after in vivo or in vitro maturation (IVM) are successfully fertilized by a single spermatozoon. Although the process of oocyte nuclear and/or cytoplasmic maturation in pigs is well determined, there exist many differences that promote these processes in vivo and in vitro. Therefore, this study aimed to investigate the differences in RNA expression profiles between porcine oocytes before and after IVM using microarray and real-time quantitative polymerase chain reaction (RT-qPCR) assays. Experiments were performed on oocytes isolated from 55 pubertal crossbred Landrace gilts. The oocytes were analyzed both before and after IVM and only Brilliant Cresyl Blue (BCB)-positive gametes were used for subsequent microarray analysis (Affymetrix) and RT-qPCR analysis. The microarray assay, which measures expression of 12,258 transcripts, revealed 419 differentially expressed transcripts in porcine oocytes, from which 379 were downregulated and 40 were upregulated before IVM compared to those analyzed after IVM. After DAVID analysis, we found eight different transcripts, including IHH, BMP1, WWTR1, CHRDL1, KLF10, EIF2AK3, MMP14, and STC1. Their expression is related to the "bone development" ontology group and was further subjected to hierarchical clusterization. Using RT-qPCR analysis, we confirmed the results of the microarray assay, showing increased expression of the eight genes in oocytes before IVM compared to oocytes after maturation in vitro. It has been suggested that "bone development" belongs to one ontological group involving genes substantially upregulated in porcine oocytes before IVM. We suggest that the gamete mRNA expression profile before IVM may comprise stored transcripts, which are templates for protein biosynthesis following fertilization. We also hypothesize that these mRNAs may be a specific "fingerprint" of folliculogenesis and oogenesis in pigs.
- MeSH
- aktivace transkripce MeSH
- down regulace MeSH
- exprese genu fyziologie MeSH
- genová ontologie MeSH
- IVM techniky MeSH
- kvantitativní polymerázová řetězová reakce MeSH
- messenger RNA biosyntéza genetika MeSH
- oocyty cytologie metabolismus MeSH
- oogeneze genetika MeSH
- prasata genetika růst a vývoj MeSH
- prekurzory RNA MeSH
- sekvenční analýza hybridizací s uspořádaným souborem oligonukleotidů metody MeSH
- stanovení celkové genové exprese MeSH
- transkriptom fyziologie MeSH
- upregulace MeSH
- vývoj kostí genetika fyziologie MeSH
- vývojová regulace genové exprese * MeSH
- zvířata MeSH
- Check Tag
- ženské pohlaví MeSH
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
Maturation of cumulus-oocyte complexes (COCs) is crucial for further successful monospermic fertilization, embryo growth, and implantation. All these events are accompanied by proliferation and differentiation of cumulus cells. The migration of COCs to the oviduct after ovulation and the interaction between female gametes and/or embryos with maternal tissues are still poorly recognized on the molecular level. This study was aimed to first demonstrate the mRNA expression profile of cell migration markers during different stages of porcine oocytes maturation and developmental capability in vitro. The COCs were collected from a total of 45 pubertal crossbred Landrace gilts, brilliant cresyl blue (BCB) stained, and analyzed before (n = 150) or after (n = 150) in vitro maturation (IVM). Using the Affymetrix(®) Porcine Gene 1.1 ST Array, the expression profile of 12,258 porcine transcripts was examined. We found nine genes involved in cell migration mechanisms, that is, PLD1, KIT, LAMA2, MAP3K1, VEGFA, TGFBR3, INSR, TPM1, and RTN4. These genes were upregulated in porcine oocytes before IVM as compared with post-IVM expression analysis. Moreover, important mechanisms of biological interaction between VEGFA-KIT and VEGFA-INSR were also observed. The upregulation and/or downregulation of selected mRNAs expression after microarray assays was checked and approved by real-time quantitative polymerase chain reaction. We suggest that several genes, including LAMA2 or TPM1, encode proteins participating in the formation of the oocyte's protein architecture such as microtubules and kinetochore reorganization. As the expression of all "migration regulatory genes" investigated in this study was significantly upregulated in oocytes before IVM, we conclude that they may contribute to the maturational capability of porcine oocytes. However, migration potency of COCs is not accompanied by achievement of the MII stage by porcine oocytes in vitro. The investigated genes such as PLD1, KIT, LAMA2, MAP3K1, VEGFA, TGFBR3, INSR, TPM1, and RTN4 may be recognized as a new marker of porcine oocytes maturational competence during in vitro culture.
- MeSH
- genová ontologie MeSH
- IVM techniky MeSH
- oocyty metabolismus MeSH
- oogeneze genetika MeSH
- pohyb buněk genetika MeSH
- prasata MeSH
- sekvenční analýza hybridizací s uspořádaným souborem oligonukleotidů MeSH
- stanovení celkové genové exprese MeSH
- transkriptom * MeSH
- zvířata MeSH
- Check Tag
- ženské pohlaví MeSH
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
In biomedicine, ontologies are one of the most effective means of describing actionable knowledge. Chronically patients are the most common, difficult, and resourceintensive clinical problems to deal with in health care. These patients require long-term and simultaneous treatment from a variety of professions, such as family doctors, specialists, nurses, and social workers. In the realm of biomedical and clinical informatics, managing research data is becoming an impossible challenge. These massive data volumes can’t be evaluated, interpreted, or processed by hand quickly enough to get inferred knowledge. We require intelligent agents or computer systems to assist us in doing these activities, thus medical knowledge must be represented in a computerprocessable format. In medical informatics, semantic technology and ontology can be utilised to partially alleviate the data management challenge. Intelligent agents or computers can interpret data and infer information via semantic knowledge representation. As a result, ontology design is an important part of medical informatics, and reusability is a crucial issue that is defined by the level of compatibility between ontology ideas and biomedical domain theories.
1st ed. xviii, 309 s.
- Konspekt
- Věda. Všeobecnosti. Základy vědy a kultury. Vědecká práce
- NLK Obory
- humanitní vědy a umění
