Identifier Mapping in Cytoscape [version 2; referees: 3 approved] [PDF]
F1000Research, 2018 Identifier Mapping, the association of terms across disparate taxonomies and databases, is a common hurdle in bioinformatics workflows. The idmapper app for Cytoscape simplifies identifier mapping for genes and proteins in the context of common ...
Adam Treister, Alexander R. Pico
doaj +3 more sources
BridgeDb app: unifying identifier mapping services for Cytoscape [v1; ref status: indexed, http://f1000r.es/3qb] [PDF]
F1000Research, 2014 The BridgeDb app for Cytoscape allows users to map and annotate identifiers of genes, proteins and metabolites in the context of biological networks. The app greatly simplifies the identifier mapping process in Cytoscape by providing a unified interface ...
Jianjiong Gao +6 more
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Identifier mapping performance for integrating transcriptomics and proteomics experimental results [PDF]
BMC Bioinformatics, 2011 Background Studies integrating transcriptomic data with proteomic data can illuminate the proteome more clearly than either separately. Integromic studies can deepen understanding of the dynamic complex regulatory relationship between the transcriptome ...
Kolli VS +9 more
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g:Profiler-interoperable web service for functional enrichment analysis and gene identifier mapping (2023 update). [PDF]
Nucleic Acids Res, 2023 g:Profiler is a reliable and up-to-date functional enrichment analysis tool that supports various evidence types, identifier types and organisms.
Kolberg L +5 more
europepmc +2 more sources
A decision theory paradigm for evaluating identifier mapping and filtering methods using data integration. [PDF]
BMC Bioinformatics, 2013 In bioinformatics, we pre-process raw data into a format ready for answering medical and biological questions. A key step in processing is labeling the measured features with the identities of the molecules purportedly assayed: “molecular identification”
Day RS, McDade KK.
europepmc +2 more sources
BMC Bioinformatics, 2010 Background Many complementary solutions are available for the identifier mapping problem. This creates an opportunity for bioinformatics tool developers.
Hanspers Kristina +7 more
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Human Genomics, 2011 Many primary biological databases are dedicated to providing annotation for a specific type of biological molecule such as a clone, transcript, gene or protein, but often with limited cross-references.
Chavan Shweta S +2 more
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From memorization to generalization: fine-tuning large language models for biomedical term-to-identifier normalization [PDF]
Frontiers in Digital HealthIntroductionBiomedical data integration requires term-to-identifier normalization, the process of linking natural-language biomedical terms to standardized ontology codes so that extracted concepts become computable and interoperable.
Suswitha Pericharla +2 more
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Applied Sciences, 2023 The Common Information Model (CIM) defined in international electrotechnical commission technical committee 57 (IEC TC57) has been utilized for achieving interoperability by employing a canonical data model strategy for standardizing interfaces in the ...
Jin-Uk Song +3 more
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A Hierarchical Mapping System for Flat Identifier to Locator Resolution Based on Active Degree
Future Internet, 2018 Overloading of IP address semantics appeals for a new network architecture based on Identifier (ID)/Locator separation. The challenge of Identifier (ID)/Locator separation is how to solve the scalability and efficiency challenges of identity-to-location ...
Jianqiang Liu, Shuai Huo, Yi Wang
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