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Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved (Non-model) Organisms

Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved (Non-model) Organisms

Published on: May 9, 2017

Building a biomedical cyberinfrastructure for collaborative research.

Peter A Schad¹, Lee Rivers Mobley, Carol M Hamilton

¹RTI International, 3040 Cornwallis Road, Research Triangle Park, NC 27709, USA.

American Journal of Preventive Medicine

|April 28, 2011

Summary

This summary is machine-generated.

Standardizing measures and systems is crucial for advancing genomic research and translational medicine. Adopting common protocols enhances data comparability and collaboration for future biomedical discoveries.

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Published on: May 29, 2017

Area of Science:

Biomedical Informatics
Genomic Research
Translational Medicine

Background:

Genome-wide association studies (GWAS) and translational medicine require robust cyberinfrastructure.
Lack of standard measures hinders data comparability and meta-analysis across studies.
Existing variability in measurement attributes complicates cross-study findings.

Purpose of the Study:

To advocate for standard measures, vocabularies, and systems in biomedical research.
To highlight the importance of an extensible biomedical cyberinfrastructure.
To discuss approaches for enhancing data interoperability and collaboration.

Main Methods:

Description of two consensus-based approaches: PhenX (consensus measures for phenotypes and eXposures) and Open Geospatial Consortium (OGC).
Introduction of the PhenX Toolkit for GWAS and genomic research.
Presentation of the RTI Spatial Impact Factor Database (SIFD) conforming to OGC standards.

Main Results:

The PhenX Toolkit provides a catalog of standard measures for genomic research.
The SIFD offers a repository of geo-referenced variables and meta-data.
Standard protocols enhance data compatibility and interoperability.

Conclusions:

Adopting standard measures, vocabularies, and open-source systems is essential for future biomedical and translational research.
Coordinated cyberinfrastructure development is needed to support collaboration and data sharing.
A shift in researcher mindset regarding study design and data management is required.