OOIR: Observatory of International Research

Papers

(The median citation count of Journal of Biomedical Semantics is 2. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2020-11-01 to 2024-11-01.)

Article	Citations
Natural language processing algorithms for mapping clinical text fragments onto ontology concepts: a systematic review and recommendations for future studies	45
The Infectious Disease Ontology in the age of COVID-19	33
An integrative knowledge graph for rare diseases, derived from the Genetic and Rare Diseases Information Center (GARD)	28
Applying the FAIR principles to data in a hospital: challenges and opportunities in a pandemic	24
Semantic modelling of common data elements for rare disease registries, and a prototype workflow for their deployment over registry data	16
Structure-based knowledge acquisition from electronic lab notebooks for research data provenance documentation	15
Multimodal temporal-clinical note network for mortality prediction	15
Why and how to engage expert stakeholders in ontology development: insights from social and behavioural sciences	14
A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology	12
An ontology-based approach for developing a harmonised data-validation tool for European cancer registration	12
Pathling: analytics on FHIR	11
End-to-End provenance representation for the understandability and reproducibility of scientific experiments using a semantic approach	10
Ontological representation, classification and data-driven computing of phenotypes	9
CIDO ontology updates and secondary analysis of host responses to COVID-19 infection based on ImmPort reports and literature	9
Prefrontal fNIRS-based clinical data analysis of brain functions in individuals abusing different types of drugs	8
The Environmental Conditions, Treatments, and Exposures Ontology (ECTO): connecting toxicology and exposure to human health and beyond	8
IrGO: Iranian traditional medicine General Ontology and knowledge base	7
De-identifying Spanish medical texts - named entity recognition applied to radiology reports	7
BioVerbNet: a large semantic-syntactic classification of verbs in biomedicine	6
Synthetic data for annotation and extraction of family history information from clinical text	6
Linking common human diseases to their phenotypes; development of a resource for human phenomics	6
We are not ready yet: limitations of state-of-the-art disease named entity recognizers	6
Improved characterisation of clinical text through ontology-based vocabulary expansion	6
DCSO: towards an ontology for machine-actionable data management plans	5
FAIR-Checker: supporting digital resource findability and reuse with Knowledge Graphs and Semantic Web standards	4

An ontology network for Diabetes Mellitus in Mexico	4
Synthesizing evidence from clinical trials with dynamic interactive argument trees	4
An annotated corpus of clinical trial publications supporting schema-based relational information extraction	4
SemClinBr - a multi-institutional and multi-specialty semantically annotated corpus for Portuguese clinical NLP tasks	4
PhenoDEF: a corpus for annotating sentences with information of phenotype definitions in biomedical literature	4
Toward a systematic conflict resolution framework for ontologies	4
Syntax-based transfer learning for the task of biomedical relation extraction	4
Ontology-based identification and prioritization of candidate drugs for epilepsy from literature	4
MedLexSp – a medical lexicon for Spanish medical natural language processing	4
Exploiting document graphs for inter sentence relation extraction	3
Residual refinement for interactive skin lesion segmentation	3
Multi-domain knowledge graph embeddings for gene-disease association prediction	3
FAIR data representation in times of eScience: a comparison of instance-based and class-based semantic representations of empirical data using phenotype descriptions as example	3
Identification of missing hierarchical relations in the vaccine ontology using acquired term pairs	2
Features of a FAIR vocabulary	2
Extending electronic medical records vector models with knowledge graphs to improve hospitalization prediction	2
Anatomy and the type concept in biology show that ontologies must be adapted to the diagnostic needs of research	2
Classifying literature mentions of biological pathogens as experimentally studied using natural language processing	2
Defining health data elements under the HL7 development framework for metadata management	2
Semantically enabling clinical decision support recommendations	2
SIENA: Semi-automatic semantic enhancement of datasets using concept recognition	2
Improving reusability along the data life cycle: a regulatory circuits case study	2