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

Guidelines for the design, analysis and interpretation of 'omics' data: focus on human endometrium
Guidelines for the design, analysis and interpretation of 'omics' data: focus on human endometrium
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 from the 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.
1355-4786
Altmae, Signe
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Esteban, Francisco J.
453a8dd6-b6a7-4039-85a8-144550affb2a
Stavreus-Evers, Anneli
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Simon, Carlos
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Giudice, Linda
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Lessey, Bruce A.
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Horcajadas, Jose A.
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Macklon, Nick S.
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D'Hooghe, Thomas
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Campoy, Christina
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Fauser, Bart
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Salamonsen, Lois A.
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Salumets, Andres
e3b0cb63-5716-4260-9988-4e3753bd1bb2
Altmae, Signe
c7cf8a68-f4f3-43af-bb67-9aa150a94ab0
Esteban, Francisco J.
453a8dd6-b6a7-4039-85a8-144550affb2a
Stavreus-Evers, Anneli
2a1e7191-0921-4286-8337-bc4b3bc17934
Simon, Carlos
00c293f8-9735-44c7-b8cd-958eb2736ea1
Giudice, Linda
0b51bce5-c4b2-4f3d-8266-81f5a0558fc5
Lessey, Bruce A.
31e821bc-bd1e-4c19-b700-18e1adb7b058
Horcajadas, Jose A.
76df034a-60d7-474d-b2ff-e676ed95308f
Macklon, Nick S.
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D'Hooghe, Thomas
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Campoy, Christina
daa096ad-10a4-4ff2-a27c-cc47549c7bb1
Fauser, Bart
84c12014-3803-40c7-9b1d-944db3e38e6a
Salamonsen, Lois A.
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Salumets, Andres
e3b0cb63-5716-4260-9988-4e3753bd1bb2

Altmae, Signe, Esteban, Francisco J., Stavreus-Evers, Anneli, Simon, Carlos, Giudice, Linda, Lessey, Bruce A., Horcajadas, Jose A., Macklon, Nick S., D'Hooghe, Thomas, Campoy, Christina, Fauser, Bart, Salamonsen, Lois A. and Salumets, Andres (2013) Guidelines for the design, analysis and interpretation of 'omics' data: focus on human endometrium. Human Reproduction Update, 19 (5). (doi:10.1093/humupd/dmt048). (PMID:24082038)

Record type: Article

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 from the 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.

Full text not available from this repository.

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Published date: 29 September 2013
Organisations: Human Development & Health

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Local EPrints ID: 358208
URI: https://eprints.soton.ac.uk/id/eprint/358208
ISSN: 1355-4786
PURE UUID: f35b139c-19fd-4588-98fb-55705f61b696

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Date deposited: 09 Oct 2013 12:26
Last modified: 16 Jul 2019 21:21

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Contributors

Author: Signe Altmae
Author: Francisco J. Esteban
Author: Anneli Stavreus-Evers
Author: Carlos Simon
Author: Linda Giudice
Author: Bruce A. Lessey
Author: Jose A. Horcajadas
Author: Nick S. Macklon
Author: Thomas D'Hooghe
Author: Christina Campoy
Author: Bart Fauser
Author: Lois A. Salamonsen
Author: Andres Salumets

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