1-20 of 8741
Journal Article
Standardized pipelines support and facilitate integration of diverse datasets at the Rat Genome Database
Database, Volume 2025, 2025, baae132, https://doi.org/10.1093/database/baae132
Published: 22 January 2025
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An example of a user-initiated change request handled by Ontobot.
Published: 22 January 2025
Figure 4.
An example of a user-initiated change request handled by Ontobot.
Journal Article
A change language for ontologies and knowledge graphs
Database, Volume 2025, 2025, baae133, https://doi.org/10.1093/database/baae133
Published: 22 January 2025
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Diagram illustrating how only updating a subset of the data in a database w...
Published: 22 January 2025
Figure 2.
Diagram illustrating how only updating a subset of the data in a database when that subset changes at the source can prevent a failure in one pipeline from interfering with other data loading pipelines that run against the same datastore. ALT TEXT: Diagram showing multiple independent incremental
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The list of folders and files that constitute the PharmGKB pipeline with sh...
Published: 22 January 2025
Figure 4.
The list of folders and files that constitute the PharmGKB pipeline with short descriptions of the function of each file in the list, presented as an image. ALT TEXT: An image that shows the file structure of the program files that are run to carry out the functionality of the PharmGKB pipeline.
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Changes in GO terms (number created, merged, or obsoleted) between major re...
Published: 22 January 2025
Figure 1.
Changes in GO terms (number created, merged, or obsoleted) between major releases between late 2018 and early 2024.
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The drop-and-reload paradigm. Dropping and reloading data introduces multip...
Published: 22 January 2025
Figure 1.
The drop-and-reload paradigm. Dropping and reloading data introduces multiple potential points of failure in a sequence of data loading pipelines. At each step, the loading pipeline pulls data in from the source (INCOMING DATA 1, 2, 3, …, n ). The corresponding data in the database, represented by
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Flowchart illustrating the steps of the PharmGKB pipeline which associates ...
Published: 22 January 2025
Figure 3.
Flowchart illustrating the steps of the PharmGKB pipeline which associates PharmGKB identifiers with human gene records in the RGD database. ALT TEXT: Flowchart detailing the processes and logic amployed by the PharmGKB pipeline. The pipeline associates PharmGKB identifiers with human gene record
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Overview of the three components of KGCL: (a) A classification of change ty...
Published: 22 January 2025
Figure 3.
Overview of the three components of KGCL: (a) A classification of change types (here showing that NodeRename is a subtype of NodeChange and a sibling of NodeCreation and NodeDeletion); (b) A CNL for expressing changes in a simple human-readable yet computable syntax; (c) A data model that can be dir
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Requesting an ontology change in BioPortal.
Published: 22 January 2025
Figure 5.
Requesting an ontology change in BioPortal.
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An overview of the distribution of relations in LSD600.
Published: 17 January 2025
Figure 4.
An overview of the distribution of relations in LSD600.
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Illustration of the eight LSF–disease relation types in LSD600.
Published: 17 January 2025
Figure 1.
Illustration of the eight LSF–disease relation types in LSD600.
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LSD600 statistics for the eight distinct LSF–disease relation types.
Published: 17 January 2025
Figure 2.
LSD600 statistics for the eight distinct LSF–disease relation types.
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LSD600 statistics for eight distinct LSF–disease relation types per disease...
Published: 17 January 2025
Figure 3.
LSD600 statistics for eight distinct LSF–disease relation types per disease category.
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Performance plot for relation extraction across different relation types.
Published: 17 January 2025
Figure 6.
Performance plot for relation extraction across different relation types.
Journal Article
LSD600: the first corpus of biomedical abstracts annotated with lifestyle–disease relations
Database, Volume 2025, 2025, baae129, https://doi.org/10.1093/database/baae129
Published: 17 January 2025
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Distribution of disease and LSF mentions in LSD600 abstracts.
Published: 17 January 2025
Figure 5.
Distribution of disease and LSF mentions in LSD600 abstracts.
Journal Article
Correction to: The landscape of microRNA interaction annotation: analysis of three rare disorders as a case study
Database, Volume 2025, 2025, baae131, https://doi.org/10.1093/database/baae131
Published: 13 January 2025
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Genome catalogues were created for each system. HoloFood-derived metagenome...
Published: 11 January 2025
Figure 2.
Genome catalogues were created for each system. HoloFood-derived metagenome-assembled genomes were combined with other publicly available chicken and fish data to produce genome catalogues for the MGnify Genomes resource [ 11 ]. In this example, the HoloFood genome clusters with three other genomes
