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  1. 23541
    “…For life sciences researchers, harnessing the power of Linked Data to improve biological discovery is still challenged by a need to keep pace with rapidly evolving domains and requirements for collaboration and control as well as with the reference semantic web ontologies and standards. Knowledge organization systems (KOSs) can provide an abstraction for publishing biological discoveries as Linked Data without complicating transactions with contextual minutia such as provenance and access control. …”
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    S3QL: A distributed domain specific language for controlled semantic integration of life sciences data
  2. 23542
    por Shieh, Shin-Yi, Bonini, Nancy M.
    Publicado 2011
    “…Functional annotation clustering analysis revealed several broad ontologies enriched in the CAG100 gene list, including iron ion binding and nucleotide binding. …”
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    Genes and pathways affected by CAG-repeat RNA-based toxicity in Drosophila
  3. 23543
    “…This requires careful and creative choice of ontological, epistemological and methodological assumptions. …”
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    Online Artículo Texto
    Building a house on shifting sand: methodological considerations when evaluating the implementation and adoption of national electronic health record systems
  4. 23544
    “…The enrichment scores for these ontologies were very high (mostly >10). CONCLUSIONS: Induction of gene expression changes related to different pathways following imatinib and omacetaxine treatment suggests that the cytotoxicity of such drugs may be differentially tolerated by individuals based on their genetic background.…”
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    Association of differential gene expression with imatinib mesylate and omacetaxine mepesuccinate toxicity in lymphoblastoid cell lines
  5. 23545
    “…Differentially expressed genes were mapped onto biological pathways, gene ontologies, and protein interaction networks, which revealed that innate immune responses mediated by Type II interferon (i.e., IFNG) and the signal transducer and activator of transcription 1 (STAT1) contribute to the resistant phenotype. …”
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    Factors regulated by interferon gamma and hypoxia-inducible factor 1A contribute to responses that protect mice from Coccidioides immitis infection
  6. 23546
    “…CONCLUSIONS: The model and its associated dictionaries provide a simple yet rich representation of the concepts related to biomolecular simulations, which should guide future developments of repositories and more complex terminologies and ontologies. The model still remains extensible through the decomposition of virtual experiments into tasks and parameter sets, and via the use of extended attributes. …”
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    Online Artículo Texto
    Data model, dictionaries, and desiderata for biomolecular simulation data indexing and sharing
  7. 23547
    “…Comparison of these strategies revealed that ontological sub-networks (SNs) involved in glutamate signaling were significantly overrepresented in AD (p<2.7×10(−11), p<1.9×10(−11); GW and GATES, respectively). …”
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    Overrepresentation of Glutamate Signaling in Alzheimer's Disease: Network-Based Pathway Enrichment Using Meta-Analysis of Genome-Wide Association Studies
  8. 23548
    “…A genetic analysis of functional networks and ontologies, validated by using a qRT-PCR analysis of the tissue samples, identified four genes, ADAM15, CDC7, IL12RB2 and TNFRSF8, that demonstrated excellent concordance with the microarray data. …”
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    Molecular genetic study of novel biomarkers for early diagnosis of oral squamous cell carcinoma
  9. 23549
    “…RESULTS: We identified 144 genes out of 1079 orthologous pairs under positive selection, of which 11 are functionally annotated to reproduction based on gene ontologies (GOs). One orthologous pair of the zona pellucida gene family, which is known for its role in the selection of sperm by oocytes, out of ten was identified to be evolving under positive selection. …”
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    Gonadal transcriptomics elucidate patterns of adaptive evolution within marine rockfishes (Sebastes)
  10. 23550
    “…Although the gene lists did not overlap except for one gene, the gene ontologies enriched in the gene lists were highly overlapped, and included genes involved in adipocyte differentiation, lipid storage and lipid metabolism. …”
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    Systems pharmacology of adiposity reveals inhibition of EP300 as a common therapeutic mechanism of caloric restriction and resveratrol for obesity
  11. 23551
    “…Results We propose 10 desired characteristics for a flexible, computable PheRM: (1) structure clinical data into queryable forms; (2) recommend use of a common data model, but also support customization for the variability and availability of EHR data among sites; (3) support both human-readable and computable representations of phenotype algorithms; (4) implement set operations and relational algebra for modeling phenotype algorithms; (5) represent phenotype criteria with structured rules; (6) support defining temporal relations between events; (7) use standardized terminologies and ontologies, and facilitate reuse of value sets; (8) define representations for text searching and natural language processing; (9) provide interfaces for external software algorithms; and (10) maintain backward compatibility. …”
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    Desiderata for computable representations of electronic health records-driven phenotype algorithms
  12. 23552
    “…These values were ethical, but also epistemic, political, economic and ontological. The prominence given to some values, and the lack of discussion about others, generated divergent positions among stakeholders in the debate. …”
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    Values and DSM-5: looking at the debate on attenuated psychosis syndrome
  13. 23553
    “…This study identifies several enriched gene ontologies, modified pathways and single genes that are targeted by CORM-2 in a multidrug-resistant UPEC isolate. …”
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    Global gene expression profiling and antibiotic susceptibility after repeated exposure to the carbon monoxide-releasing molecule-2 (CORM-2) in multidrug-resistant ESBL-producing uropathogenic Escherichia coli
  14. 23554
    “…This could indicate an ontological relationship between human CD56(bright) cells and mouse CD127(+) ILC, or conserved networks of transcriptional regulation. …”
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    Transcriptome analysis reveals similarities between human blood CD3(−) CD56(bright) cells and mouse CD127(+) innate lymphoid cells
  15. 23555
    “…Singular Enrichment Analysis (SEA) predicts ontological based classifications and functional analysis of NRGs in different cellular/molecular pathways involved in root development and growth. …”
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    Transcriptomic Analysis of Soil Grown T. aestivum cv. Root to Reveal the Changes in Expression of Genes in Response to Multiple Nutrients Deficiency
  16. 23556
    “…The framework will include a set of standard formats, common ontologies, a common application programming interface to enable interoperation of the resources, and a Tool Registry to make it easy to find and apply the tools to specific analysis problems. …”
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    Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework
  17. 23557
    “…Phenotype, pathway, and ontologic analyses assessed functional and mechanistic validity. …”
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    Genomic risk prediction of aromatase inhibitor‐related arthralgia in patients with breast cancer using a novel machine‐learning algorithm
  18. 23558
    “…MRMAssayDB maps and links the targeted assays, annotates the proteins with information from UniProtKB, KEGG pathways and Gene Ontologies, and provides several visualization options on the peptide and protein level. …”
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    MRMAssayDB: an integrated resource for validated targeted proteomics assays
  19. 23559
    “…We found those clusters associated with cellular pathways and ontologies; thus, it was plausible to determine groups of Repeats to specific functional insights, for example, pathways for Genetic Information Processing or Metabolism shows particular groups of Repeats with specific configurations. …”
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    Structure, clustering and functional insights of repeats configurations in the upstream promoter region of the human coding genes
  20. 23560
    “…The system is built with a particular focus on the molecular biology of cancer using state-of-the-art machine learning and natural language processing methods, including named entity recognition and grounding to domain ontologies covering a wide range of entity types and a novel approach to detecting references to the hallmarks of cancer in text. …”
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    Online Artículo Texto
    LION LBD: a literature-based discovery system for cancer biology
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