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Precision omics data integration and analysis with interoperable ontologies and their application for COVID-19 research

Zhigang Wang, Yongqun He
2021 Briefings in Functional Genomics  
Given the complexity of both omics and precision medicine, precision omics requires standardized representation and integration of heterogeneous data types.  ...  Ontology has emerged as an important artificial intelligence component to become critical for standard data and metadata representation, standardization and integration.  ...  Acknowledgements We acknowledge the support by the OBO Foundry ontology community.  ... 
doi:10.1093/bfgp/elab029 fatcat:2vr5c5luxbartb5sm75oetxemq

A Multimodal and Integrated Approach to Interrogate Human Kidney Biopsies with Rigor and Reproducibility: Guidelines from the Kidney Precision Medicine Project

Tarek M. El-Achkar, Michael T Eadon, Rajasree Menon, Blue B. Lake, Tara K. Sigdel, Theodore Alexandrov, Samir Parikh, Guanshi Zhang, Dejan Dobib, Kenneth W. Dunn, Edgar A. Otto, Christopher R. Anderton (+29 others)
2020 Physiological Genomics  
for precision medicine projects across laboratories, institutions and consortia.  ...  The Kidney Precision Medicine Project (KPMP) is an endeavor to generate 3-dimensional (3D) molecular atlases of healthy and diseased kidney biopsies using multiple state-of-the-art OMICS and imaging technologies  ...  The metadata fields are being modeled and represented using the Kidney Tissue Atlas Ontology (KTAO) (7) and Ontology of Precision Medicine and Investigation (OPMI) (6) two opensource biomedical ontologies  ... 
doi:10.1152/physiolgenomics.00104.2020 pmid:33197228 pmcid:PMC7847045 fatcat:w2ib4n4a75c7lbegoegy6hnfey

A Multimodal and Integrated Approach to Interrogate Human Kidney Biopsies with Rigor and Reproducibility: The Kidney Precision Medicine Project [article]

Tarek M El-Achkar, Michael T Eadon, Rajasree Menon, Blue B Lake, Tara K Sigdel, Theodore Alexandrov, Samir Parikh, Guanshi Zhang, Dejan Dobi, Kenneth W Dunn, Edgar A Otto, Christopher R Anderton (+29 others)
2019 bioRxiv   pre-print
The Kidney Precision Medicine Project (KPMP) is an endeavor to generate 3D molecular atlases of healthy and diseased kidney biopsies using multiple state-of-the-art OMICS and imaging technologies across  ...  An important outcome was identification of limitations and strengths of the different technologies, and how composite information can be leveraged for clinical application.  ...  These metadata fields are being modeled and represented using the Kidney Tissue Atlas Ontology (KTAO) (31) , and Ontology of Precision Medicine and Investigation (OPMI) (32) , two open source biomedical  ... 
doi:10.1101/828665 fatcat:r4qecdabcrafrnisp2rlipcxwu

Rational Vaccine Design by Reverse & Structural Vaccinology and Ontology

Edison Ong, University, My
2021
I developed the Vaccine Investigation Ontology (VIO) for standardized metadata representation for high throughput vaccine OMICS data analysis.  ...  Vaccination is one of the most successful public health interventions in modern medicine.  ...  I developed the Vaccine Investigation Ontology (VIO) for standardized metadata representation for high throughput vaccine OMICS data analysis.  ... 
doi:10.7302/1424 fatcat:khq2a4zisfexbf7cbmcrqr32fu