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Pharmacogenomics. 2016 Sep;17(14):1533-45. doi: 10.2217/pgs-2016-0015. Epub 2016 Aug 22.

Minimum information required for a DMET experiment reporting.

Author information

1
Centre for Proteomic & Genomic Research, Cape Town, South Africa.
2
Computational Biology Group, Institute for Infectious Diseases & Molecular Medicine, University of Cape Town, South Africa.
3
Division of Biomedical Statistics & Informatics, Department of Health Sciences Research, Mayo Clinic, 200 First Street SW, Rochester, MN 55905, USA.
4
Institute of Biotechnology, University of Helsinki, Helsinki, Finland.
5
Department of Clinical Chemistry, Erasmus University Medical Center Rotterdam, Room Na-415, Wytemaweg 80, 3015CN Rotterdam, The Netherlands.
6
Pharmacogenetics Laboratory, Institute of Biochemistry, Faculty of Medicine, University of Ljubljana, Vrazov trg 2, SI-1000 Ljubljana, Slovenia.
7
Department of Bioinformatics, Faculty of Medicine & Health Sciences, Erasmus University Medical Center, Rotterdam, The Netherlands.
8
Department of Physiology & Biochemistry, Faculty of Medicine and Surgery, University of Malta, Malta.
9
UCT/SA MRC Human Genetics Research Unit, Division of Human Genetics, Institute for Infectious Diseases & Molecular Medicine, Division of Human Genetics, University of Cape Town, South Africa.
10
Department of Biology & Medical Genetics, Charles University Prague & 2nd Faculty of Medicine, Prague, Czechia.
11
Department of Pharmacy, School of Health Sciences, University of Patras, Patras, Greece.
12
Laboratory of Pharmacogenomics, Section of Neuroscience & Clinical Pharmacology, Department of Biomedical Sciences, University of Cagliari, sp 8 Sestu-Monserrato, Km 0.700, 09042 Cagliari, Italy.

Abstract

AIM:

To provide pharmacogenomics reporting guidelines, the information and tools required for reporting to public omic databases.

MATERIAL & METHODS:

For effective DMET data interpretation, sharing, interoperability, reproducibility and reporting, we propose the Minimum Information required for a DMET Experiment (MIDE) reporting.

RESULTS:

MIDE provides reporting guidelines and describes the information required for reporting, data storage and data sharing in the form of XML.

CONCLUSION:

The MIDE guidelines will benefit the scientific community with pharmacogenomics experiments, including reporting pharmacogenomics data from other technology platforms, with the tools that will ease and automate the generation of such reports using the standardized MIDE XML schema, facilitating the sharing, dissemination, reanalysis of datasets through accessible and transparent pharmacogenomics data reporting.

KEYWORDS:

DMET; bioinformatics; minimum information requirement guidelines; personalized genomics; personalized medicine; pharmacogenomics; standardization

PMID:
27548815
PMCID:
PMC6123892
DOI:
10.2217/pgs-2016-0015
[Indexed for MEDLINE]
Free PMC Article

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