Guidelines for the design, analysis and interpretation of 'omics' data: Focus on human endometrium

Signe Altmäe, Francisco J. Esteban, Anneli Stavreus-Evers, Carlos Simón, Linda Giudice, Bruce A. Lessey, Jose A. Horcajadas, Nick S. Macklon, Thomas D'Hooghe, Cristina Campoy, Bart C. Fauser, Lois A. Salamonsen, Andres Salumets

Research output: Contribution to journalArticleResearchpeer-review

78 Citations (Scopus)

Abstract

Background: 'Omics' high-throughput analyses, including genomics, epigenomics, transcriptomics, proteomics and metabolomics, are widely applied in human endometrial studies. Analysis of endometrial transcriptome patterns in physiological and pathophysiological conditions has been to date the most commonly applied 'omics' technique in human endometrium. As the technologies improve, proteomics holds the next big promise for this field. The 'omics' technologies have undoubtedly advanced our knowledge of human endometrium in relation to fertility and different diseases. Nevertheless, the challenges arising fromthe vast amount of data generated and the broad variation of 'omics' profiling according to different environments and stimuli make it difficult to assess the validity, reproducibility and interpretation of such 'omics' data.With the expansion of 'omics' analyses in the study of the endometrium, there is a growing need to develop guidelines for the design of studies, and the analysis and interpretation of 'omics' data. methods: Systematic review of the literature in PubMed, and references from relevant articles were investigated up to March 2013. results: The current review aims to provide guidelines for future 'omics' studies on human endometrium, together with a summary of the status and trends, promise and shortcomings in the high-throughput technologies. In addition, the approaches presented here can be adapted to other areas of high-throughput 'omics' studies. conclusion: A highly rigorous approach to future studies, based on the guidelines provided here, is a prerequisite for obtaining data on biological systems which can be shared among researchers worldwide and will ultimately be of clinical benefit.

Original languageEnglish
Article numberdmt048
Pages (from-to)12-28
Number of pages17
JournalHuman Reproduction Update
Volume20
Issue number1
DOIs
Publication statusPublished - Jan 2014

Keywords

  • Endometrium
  • Epigenomics
  • Genomics
  • Metabolomics
  • Proteomics

Cite this

Altmäe, S., Esteban, F. J., Stavreus-Evers, A., Simón, C., Giudice, L., Lessey, B. A., Horcajadas, J. A., Macklon, N. S., D'Hooghe, T., Campoy, C., Fauser, B. C., Salamonsen, L. A., & Salumets, A. (2014). Guidelines for the design, analysis and interpretation of 'omics' data: Focus on human endometrium. Human Reproduction Update, 20(1), 12-28. [dmt048]. https://doi.org/10.1093/humupd/dmt048