Minimum Information about a Genotyping Experiment (MIGEN)

Jie Huang, Daniel Mirel, Elizabeth Pugh, Chao Xing, Peter N. Robinson, Alexander Pertsemlidis, Liang Hao Ding, Julia Kozlitina, Joseph Maher, Jonathan Rios, Michael Story, Nishanth Marthandan, Richard H. Scheuermann

Research output: Contribution to journalArticle

Abstract

Genotyping experiments are widely used in clinical and basic research laboratories to identify associations between genetic variations and normal/abnormal phenotypes. Genotyping assay techniques vary from single genomic regions that are interrogated using PCR reactions to high throughput assays examining genome-wide sequence and structural variation. The resulting genotype data may include millions of markers of thousands of individuals, requiring various statistical, modeling or other data analysis methodologies to interpret the results. To date, there are no standards for reporting genotyping experiments. Here we present the Minimum Information about a Genotyping Experiment (MIGen) standard, defining the minimum information required for reporting genotyping experiments. MIGen standard covers experimental design, subject description, genotyping procedure, quality control and data analysis. MIGen is a registered project under MIBBI (Minimum Information for Biological and Biomedical Investigations) and is being developed by an interdisciplinary group of experts in basic biomedical science, clinical science, biostatistics and bioinformatics. To accommodate the wide variety of techniques and methodologies applied in current and future genotyping experiment, MIGen leverages foundational concepts from the Ontology for Biomedical Investigations (OBI) for the description of the various types of planned processes and implements a hierarchical document structure. The adoption of MIGen by the research community will facilitate consistent genotyping data interpretation and independent data validation. MIGen can also serve as a framework for the development of data models for capturing and storing genotyping results and experiment metadata in a structured way, to facilitate the exchange of metadata.

Original languageEnglish (US)
Pages (from-to)224-229
Number of pages6
JournalStandards in Genomic Sciences
Volume5
Issue number2
DOIs
StatePublished - Dec 15 2011

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Biological Ontologies
Genotyping Techniques
Biostatistics
Computational Biology
Research
Quality Control
Research Design
Genotype
Genome
Phenotype
Polymerase Chain Reaction
Metadata

ASJC Scopus subject areas

  • Genetics

Cite this

Huang, J., Mirel, D., Pugh, E., Xing, C., Robinson, P. N., Pertsemlidis, A., ... Scheuermann, R. H. (2011). Minimum Information about a Genotyping Experiment (MIGEN). Standards in Genomic Sciences, 5(2), 224-229. https://doi.org/10.4056/sigs.1994602

Minimum Information about a Genotyping Experiment (MIGEN). / Huang, Jie; Mirel, Daniel; Pugh, Elizabeth; Xing, Chao; Robinson, Peter N.; Pertsemlidis, Alexander; Ding, Liang Hao; Kozlitina, Julia; Maher, Joseph; Rios, Jonathan; Story, Michael; Marthandan, Nishanth; Scheuermann, Richard H.

In: Standards in Genomic Sciences, Vol. 5, No. 2, 15.12.2011, p. 224-229.

Research output: Contribution to journalArticle

Huang, J, Mirel, D, Pugh, E, Xing, C, Robinson, PN, Pertsemlidis, A, Ding, LH, Kozlitina, J, Maher, J, Rios, J, Story, M, Marthandan, N & Scheuermann, RH 2011, 'Minimum Information about a Genotyping Experiment (MIGEN)', Standards in Genomic Sciences, vol. 5, no. 2, pp. 224-229. https://doi.org/10.4056/sigs.1994602
Huang J, Mirel D, Pugh E, Xing C, Robinson PN, Pertsemlidis A et al. Minimum Information about a Genotyping Experiment (MIGEN). Standards in Genomic Sciences. 2011 Dec 15;5(2):224-229. https://doi.org/10.4056/sigs.1994602
Huang, Jie ; Mirel, Daniel ; Pugh, Elizabeth ; Xing, Chao ; Robinson, Peter N. ; Pertsemlidis, Alexander ; Ding, Liang Hao ; Kozlitina, Julia ; Maher, Joseph ; Rios, Jonathan ; Story, Michael ; Marthandan, Nishanth ; Scheuermann, Richard H. / Minimum Information about a Genotyping Experiment (MIGEN). In: Standards in Genomic Sciences. 2011 ; Vol. 5, No. 2. pp. 224-229.
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