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  1. 23321
    “…RESULTS: We pooled together a large amount of ontological knowledge, parsed it down into a functional network, and gained insight into the molecular underpinnings of the disease development by creating a one-stop junction for PPI data. k2p contains both local and global information about a protein, such as protein class, disease mutations, ligands and PDB structure, enriched processes and pathways, multi-disease interactome and hubs and bottlenecks in the directional network. …”
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    konnect2prot: a web application to explore the protein properties in a functional protein–protein interaction network
  2. 23322
    por Gozzo, Simona, D'Agata, Rosario
    Publicado 2023
    “…The paper describes the “reassuring” role played by the digital community in the construction of ontological forms of security resulting from the construction of a shared digital culture. …”
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    COVID-19 policies and the arising of debate on twitter
  3. 23323
    por Maddocks, Jo
    Publicado 2023
    “…One reason for this may be that EE constructs are given the same ontological status whether they represent underlying attitudes, such as self-regard, or behavioral competencies, such as assertiveness. …”
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    Introducing an attitude-based approach to emotional intelligence
  4. 23324
    “…Genes differentially expressed in female D. rerio provided the bacterial SCP compared to females given fish protein were overrepresented in the gene ontologies of metabolism, biosynthesis of cholesterol precursors and products, and protein unfolding responses. …”
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    Replacement of Dietary Fish Protein With Bacterial Single Cell Protein Results in Decreased Adiposity Coupled With Liver Expression Changes in Female Danio Rerio
  5. 23325
    “…Next, we identified 25 unique master regulators (MR) and 13 transcription factors (TFs) belonging to ontologies of integrin signalling and cell cycle to be upregulated in STS. …”
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    Comparative analysis of deeply phenotyped GBM cohorts of ‘short-term’ and ‘long-term’ survivors
  6. 23326
    “…METHODS: The ECA system was designed to support knowledge sharing through a knowledge management system based on an ontological knowledge model, with a web-based user interface for improved accessibility. …”
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    A web-based care assistant for caregivers of the elderly: Development and pilot study
  7. 23327
    “…PLS analysis and gene ontological analyses further revealed that genes were mainly enriched for metabolic, catabolic, cellular response to ions, and regulation of DNA transcription and RNA biosynthesis. …”
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    Association between gene expression and functional‐metabolic architecture in Parkinson's disease
  8. 23328
    “…Examination of gene ontologies revealed that the transcripts within the gene indices encode a similar suite of biological processes. …”
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    Comparative analyses of six solanaceous transcriptomes reveal a high degree of sequence conservation and species-specific transcripts
  9. 23329
    “…Semantic integration with other relevant databases has been supported through ontological annotation. Compatibility with other data formats is supported by automatic conversion.…”
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    MeMo: a hybrid SQL/XML approach to metabolomic data management for functional genomics
  10. 23330
    “…Gramene's core data types include genome assembly and annotations, other DNA/mRNA sequences, genetic and physical maps/markers, genes, quantitative trait loci (QTLs), proteins, ontologies, literature and comparative mappings. Since our last NAR publication 2 years ago, we have updated these data types to include new datasets and new connections among them. …”
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    Gramene: a growing plant comparative genomics resource
  11. 23331
    “…Third, Endeavour makes use of additional data sources and is now including numerous databases: ontologies and annotations, protein–protein interactions, cis-regulatory information, gene expression data sets, sequence information and text-mining data. …”
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    Endeavour update: a web resource for gene prioritization in multiple species
  12. 23332
    “…A significant fraction of the genes displayed temporal expression in six distinct clusters of expression, which were analyzed with assistance from ontological classifications in order to illuminate all known physiological observations and differentiation stages of this industrial organism. …”
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    The transcriptional program underlying the physiology of clostridial sporulation
  13. 23333
    “…Clustering expression data and identifying expression-independent properties of genes of interest including upstream transcriptional regulatory elements (TREs), ontologies and networks or pathways organizes the data into a biologically meaningful system. …”
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    From microarray to biology: an integrated experimental, statistical and in silico analysis of how the extracellular matrix modulates the phenotype of cancer cells
  14. 23334
    “…In addition, a Gene Builder tool has been developed to provide structured forms and tables to edit coordinates of gene models and edit functional annotation, based on standard ontologies, controlled vocabularies and free text. Availability: Artemis and ACT are freely available (under a GPL licence) for download (for MacOSX, UNIX and Windows) at the Wellcome Trust Sanger Institute web sites: http://www.sanger.ac.uk/Software/Artemis/ http://www.sanger.ac.uk/Software/ACT/ Contact: artemis@sanger.ac.uk Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database
  15. 23335
    “…Bioinformatics and gene ontological analyses of the data implicate genes which are involved in nervous system development, inflammation, and cytoskeletal organization, in addition to genes which may be relevant to gastrointestinal or other physiological symptoms often associated with autism. …”
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    Gene Expression Profiling of Lymphoblasts from Autistic and Nonaffected Sib Pairs: Altered Pathways in Neuronal Development and Steroid Biosynthesis
  16. 23336
    “…While evidence for effect on genes associated with energy production were seen, an ontological analysis also indicated an effect of Cd exposure on DNA integrity and transcriptional activity. …”
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    Linking toxicant physiological mode of action with induced gene expression changes in Caenorhabditis elegans
  17. 23337
    “…To achieve this goal, ontologically-linked modules with coordinated expression changes in melanoma samples were identified. …”
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    Gene network analyses point to the importance of human tissue kallikreins in melanoma progression
  18. 23338
    “…In combination with computational approaches to identify likely TBPH targets and orthologs of previously identified vertebrate TDP-43 targets, we provide a comprehensive analysis of enriched gene ontologies. Our data suggest that TDP-43 plays a role in synaptic transmission, synaptic release, and endocytosis. …”
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    Comparison of Parallel High-Throughput RNA Sequencing Between Knockout of TDP-43 and Its Overexpression Reveals Primarily Nonreciprocal and Nonoverlapping Gene Expression Changes in the Central Nervous System of Drosophila
  19. 23339
    “…Genes that were assigned the ontologies of multicellular organismal process, response to organic substance, hormone metabolic process, and growth factor receptor binding were hypomethylated. …”
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    Genome-wide methylation profiling of the bronchial mucosa of asthmatics: relationship to atopy
  20. 23340
    “…Significant alterations in the cellular composition of the spleen between LRRK2 knockout and wild type animals were identified by immunophenotyping and were associated with subtle differences in response to dual infection with rat-adapted influenza virus (RAIV) and Streptococcus pneumoniae. Ontological pathway analysis of LRRK2 across metabolic and kidney processes and pathological categories suggested that the thioredoxin network may play a role in perturbing these organ systems. …”
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    Leucine-Rich Repeat Kinase 2 (LRRK2)-Deficient Rats Exhibit Renal Tubule Injury and Perturbations in Metabolic and Immunological Homeostasis
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