... and it is helpful to see how these principles are embodied in physical and biological structures. They enable simultaneous top- ... True Complexity and the Associated Ontology. By George Ellis on February 21, 2002 in Essay ... His paper moves the discussion of the symposium beyond physical cosmology into the realm of observers and ontology. ... which develops and stores genetic information characterising the nature of the biological family involved, and a developmental ...

... "a biological basis for morality". ... a foundation ontology or upper ontology is a hierarchy of ... In philosophy of mathematics, a foundation ontology is an ontology in the formal philosophical sense that is deemed to play a ... The term standard ontology should never be used, as any reference to an ontology implies completeness by some definition, and ... the term foundation ontology should be used in all three (philosophy, theology or computer science) senses of the term ontology ...

Gene ontology analysis. For the intra- and interspecies expression analyses, enrichment of the biological process branch of ... ontology terms that summarise and group the list of ontologies enriched in the previous step are determined with the script wr ... sections.py. Finally, header ontologies were filtered to remove headers at level 2 or higher in the ontology hierarchy, given ... ID numbers of the ontology terms are shown in Table S7B. P-values were adjusted for FDR to correct for multiple testing and − ...

Approximately 904 protein species with 4774 Gene Ontology (GO) terms were grouped into the categories of biological process, ...

... named Biological Process (BP), Molecular Function (MF) and Cellular Component (CC). Each ontology consists of a set of terms ( ... Biological molecules are associated with GO terms that represent their functions, biological roles and localization. This ... GO terms) representing different functions, biological processes and cellular components within the cell. GO terms are ... One of the most advanced tools for encoding and representing functional knowledge in a formal way is the Gene Ontology (GO) [2, ...

Work on the project at RENCI involves developing approaches for the use of bio-ontologies and other structured biological ... Experience in applying Bio-ontologies, Semantic Web technologies, and Artificial Intelligence/Neural Networks to biological ... This includes incorporation of ontologies into machine-learning algorithms, as well as application of ontologies to create ... Machine-Learning PostDoc Data-Science Biology Ontology • 462 views ADD COMMENT • link updated 3 months ago by Ram 40k • written ...

Approximately 904 protein species with 4774 Gene Ontology (GO) terms were grouped into the categories of biological process, ...

Semantics aware Biological Data Integration Systems. *Existing and prospective applications of the Semantic Web for ... Biomedical Ontologies and related tools. *Alternative approaches to integrate semantic representations and web based solutions ... The Semantic Web provides a set of technologies and standards that are key to support semantic markup, ontology development, ... biological research and medicine. This workshop will provide a venue to present and discuss benefits and limits of the adoption ...

... ontology, Bachelard, matter, color, solidity, smell, biological mechanisms, and nonetheless, it remains a story for children. ... Bread has a color, a softness, a smell: thats ontology" (Joxe). Like C. S. Lewiss The Lion, the Witch, and the Wardrobe, this ... Her realization that the kittens are inside Kamikat is, happily, a correct intuition, but it is not the accurate biological ... A glance at Tourniers recent fiction does suggest the limits of determined mythicization, of ontology and logic as prime ...

They promise to integrate information coming from different biological databases thus creating a common ground for the ... Keywords: biomedical research, bio-ontologies, scientific practice Abstract. Biomedical ontologies are considered a serious ... Boem, F. (2016). Orienteering Tools: Biomedical Research with Ontologies. HUMANA.MENTE Journal of Philosophical Studies, 9(30 ... Orienteering Tools: Biomedical Research with Ontologies * Federico Boem University of Milan, Italy ...

By performing a gene ontology analysis, which annotates the molecular targets and biological processes associated with a group ... The ontology analysis also revealed that RAE genes are associated with disease, Gregg says. "They are preferentially enriched ... She has a PhD in neuroscience from the University of Washington and a bachelors in biological sciences from Cornell University ... She has a PhD in neuroscience from the University of Washington and a bachelors in biological sciences from Cornell University ...

E) Biological function pathway enrichment results at different levels. GO: Gene Ontology; KEGG: Kyoto Encyclopedia of Genes and ... C) GO biological process enrichment analysis of the proteins in Fp-EVs. (D) Top 20 enriched KEGG pathways. ( ... 7A). Gene Ontology (GO) annotation was conducted to classify the proteins highly enriched in Fp-EVs according to their ... Biological functions and biogenesis of secreted bacterial outer membrane vesicles. Annu Rev Microbiol. 2010;64:163-84. ...

OntoFox currently supports term retrieval from a selection of 15 ontologies accessible via SPARQL endpoints and allows users to ... An OntoFox application in the development of the Vaccine Ontology (VO) is demonstrated. OntoFox provides a timely publicly ... Additional methods for including related classes include a SPARQL-based ontology term retrieval algorithm that extracts terms ... classes of related terms from the source ontologies and save the results using the RDF/XML serialization of the Web Ontology ...

... that mimic the organization of a well-established gene ontology to track the convergence of genetic risk across biological ...

So with a clean slice from Occams razor we can banish objective moral values from our ontology. As I said, this has always ... But the skeptic points out that our biological/cultural evolutionary processes account for these intuitions, and so we would ... So with a clean slice from Occams razor we can banish love from our ontology.. Now the strategy seems completely misguided! ... Since these features cannot fit within a naturalistic ontology, even if there were universal agreement under normal conditions ...

However, since MIAME is focused on microarray processing workflow, information about the description biological samples ... from basic free text description to more advanced ontology based terms. To accommodate the annotation needs of users eager with ...

PathCase-SB aims to integrate systems biology models data and metabolic network data of selected biological data sources on the ... framework and web-based computational tools towards facilitating the development of kinetic models for biological systems. ... Relationships between BioModels Database models and ontologies (e.g., the Gene Ontology and the EC (Enzyme Commission) number ... Simulate user uploaded biological models (iModel). SBML format is used to share and examine a biological model. In general, ...

Then, the DEGs were analysed to identify biological pathways of dental pulp inflammation with Gene Ontology (GO) analysis, ... Biological process (BP), molecular function (MF), cellular component (CC) in GO analysis and potential pathways in KEGG ... Cytokine with a wide variety of biological functions. Plays an essential role in the final differentiation of B-cells into Ig- ... Dental pulp is not isolated in the oral cavity and releases many biological products to the external environment in response to ...

Ontologies*. GO: Biological process. *. GO: Cellular component. *. GO: Molecular function. *. PHI: Phibase identifier ...

Journal of Biological Chemistry, 286 (41), 35543--35552. *Review: a high capacity of the human placenta for genetic and ... However, gene ontology analysis showed that imprinted genes and immune response pathways were overrepresented among those sites ... Addressing biological and technical factors affecting measurement of genome-wide DNAm is essential to reduce false discovery in ... I then used this pipeline to assess association between DNAme and two biological variables of interest: birth weight (sd) and ...

He has championed the use of the Web ONTOLOGY Language (OWL) and reasoning to the building and use of ontologies. More recently ... organise and analyse biological data. the impact of machine learning on the world of biology is also manifest and the advent of ... Ontologies have played a significant role in enabling scientists to create a common semantics for what is known about biology ... The main focus of his research is is the building and use of description logic based ontologies in the bio-health domain. To ...

An interest in programming and biological problems.. REMARKS. This course is part of the Minor Bioinformatics and Systems ... Gene Ontology Database (GO) (python scripts). *Homology Searching (web-based). *BLAST / PSI-BLAST (python scripts) ... In the practicals you use existing databases and (web-server) solutions to solve biological problems. You will also use python ... Theory: Evolution, Genomes, Sequences, Biomolecular Structure, Biological Databases BLAST & PSI-BLAST, Protein domains & ...

... and collaborates with other researchers on the Ontology for General Medical Science and Infectious Disease Ontology projects. ... Problems arise not least in translational medicine, where results of biological research need to be translated into a language ... Part 2: The Ontology for Newborn Screening Translational Research (ONSTR): A Case Study. ... and a Principal Investigator on the Protein Ontology and Infectious Disease Ontology projects. ...

... to the currently widely discussed topic of biological autonomy. ... Biological individuality is something, according to Jonas, that ... In line with many elements of Schellings theory, Jonas develops an ontology of living organisms based on what he defines as ... Likewise it is not a biological taxonomy. The notion of levels conveys instead only the idea that the relation of living beings ... 22The inner teleology of the living is more than its simply physical biological organization. It is «in the first place a ...

This offers new biological insights into the results. For instance, scientists can identify molecular functions, biological ... The functional analysis tool can assess if a gene ontology functional category, a KEGG Pathway or an InterPro motif is ... These new modules include extended and platform-independent functional analysis, featuring gene ontology and gene set ...

By subjecting DEGs to gene ontology enrichment analysis, pathway analysis, or functional annotation, we gain insights into the ... When studying gene expression, researchers often compare gene expression profiles between different biological samples or ... biological processes, molecular functions, and pathways associated with the observed gene expression changes. ... tool for identifying genes whose expression levels significantly differ between experimental conditions or biological samples. ...

At day 28, bony ankylosis showed increased biological process related to new bone formation, while fibrous ankylosis was ... DAVID was used to perform the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analysis for the different ... GO - gene ontology; BP - biological process; CC - cellular component; MF - molecular function; KEGG - Kyoto Encyclopedia of ... GO - gene ontology; BP - biological process; CC - cellular component; MF - molecular function; KEGG - Kyoto Encyclopedia of ...

This meeting will provide a forum for biocurators and developers of biological databases to discuss their work, promote ... Data Standards and Ontologies. [Information des Anbieters] ... that will be held at the Marine Biological Laboratory (MBL) in ... The 11th International Biocuration Conference is a unique event for biocurators and developers of biological databases to ...

We can be in error, or not, of our own basic ontology. And so our values must at the very least respect these facts. So while ... Their evolutionary/biological determined need for respect, admiration,acceptance, and status within the group causes them to ... So what I argue is basically that human beings have certain biological and psychological constraints on ways in which we can be ... That internal perspective is greatly determined by all of those external forces AND your genetic/biological make-up. ...

... and other basic ontologies, enhancing the integration of insect anatomy into the broader biological sciences. A template system ... and chemical ontologies is also introduced. The AISM is proposed as the backbone for taxon-specific insect ontologies and has ... Subject: Biology And Life Sciences, Anatomy And Physiology Keywords: Morphology; insects; biodiversity research; ontology ... Rat is one of the most commonly used model animals for biological research. The organs and systems of human being are somewhat ...