Biomedical Knowledge Graphs & Semantic Web — Hands-on

Build end-to-end biomedical Knowledge Graphs (KGs) that integrate omics, clinical, and literature data. Learn semantic web standards (RDF/OWL/SPARQL) , map to biomedical ontologies, validate with SHACL, embed graphs for ML, and design reproducible KG pipelines and APIs for downstream analytics and discovery.

Biomedical Knowledge Graphs & Semantic Web

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Session Index

Session 1 — RDF/OWL, Ontologies & Modeling Session 2 — SPARQL, SHACL & KG Construction Session 3 — KG Embeddings & Graph ML Session 4 — Mini Capstone: Biomedical KG

Session 1

Fee: Rs 15,200

RDF/OWL, Ontologies & Modeling

Semantic web foundations & graph data models

RDF/RDFS OWL 2 RDF-star

Biomedical ontologies & alignment

OBO/GO/DOID UMLS/MeSH/SNOMED BioPortal/OLS

Conceptual & logical modeling

classes/properties/shapes reasoning basics FAIR & provenance

Session 2

Fee: Rs 20,800

SPARQL, SHACL & KG Construction

Query & APIs

SPARQL 1.1 CONSTRUCT/UPDATE GraphQL over KGs

Validation & quality

SHACL shapes constraint checks provenance/ETL logs

ETL & tooling

RDFLib/Apache Jena OntoText/GraphDB Neo4j/TTL/CSV2RDF

Session 3

Fee: Rs 26,600

KG Embeddings & Graph ML

Knowledge graph embeddings

TransE/TransH/RotatE DistMult/ComplEx node2vec

Graph learning for bio tasks

GCN/GAT/GraphSAGE graph transformers link prediction

Pipelines & evaluation

pykeen/pyg/dgl hits@K/MRR/AUC leakage & splits

Session 4

Fee: Rs 33,000

Mini Capstone: Biomedical KG

Assemble a KG from multi-source bio data

Theory + Practical

Expose queries & analytics

SPARQL endpoint REST/GraphQL dashboards

Deliverables: TTL/OWL, queries & report

data package validation logs PDF/HTML

PDF

Biomedical Knowledge Graphs & Semantic Web Training | RDF/OWL, SPARQL/SHACL, KG Embeddings & Graph ML

Biomedical Knowledge Graphs & Semantic Web — Hands-on