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Performance in omic...
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Hebels, Dennie G. A. J.
(author)
Performance in omics analyses of blood samples in long-term storage : opportunities for the exploitation of existing biobanks in environmental health research
- Article/chapterEnglish2013
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Environmental Health Perspectives,2013
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LIBRIS-ID:oai:DiVA.org:umu-80868
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https://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-80868URI
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https://doi.org/10.1289/ehp.1205657DOI
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Language:English
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Summary in:English
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Subject category:ref swepub-contenttype
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Subject category:art swepub-publicationtype
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Background: The suitability for omic analysis of biosamples collected in previous decades and currently stored in biobanks is unknown.Objectives: We evaluated the influence of handling and storage conditions of blood-derived biosamples on transcriptomic, epigenomic (CpG methylation), plasma metabolomic [UPLC-ToFMS (ultra performance liquid chromatography-time-of-flight mass spectrometry)], and wide-target proteomic profiles.Methods: We collected fresh blood samples without RNA preservative in heparin, EDTA, or citrate and held them at room temperature for ≤ 24 hr before fractionating them into buffy coat, erythrocytes, and plasma and freezing the fractions at -80oC or in liquid nitrogen. We developed methodology for isolating RNA from the buffy coats and conducted omic analyses. Finally, we analyzed analogous samples from the EPIC-Italy and Northern Sweden Health and Disease Study biobanks.Results: Microarray-quality RNA could be isolated from buffy coats (including most biobank samples) that had been frozen within 8 hr of blood collection by thawing the samples in RNA preservative. Different anticoagulants influenced the metabolomic, proteomic, and to a lesser extent transcriptomic profiles. Transcriptomic profiles were most affected by the delay (as little as 2 hr) before blood fractionation, whereas storage temperature had minimal impact. Effects on metabolomic and proteomic profiles were noted in samples processed ≥ 8 hr after collection, but no effects were due to storage temperature. None of the variables examined significantly influenced the epigenomic profiles. No systematic influence of time-in-storage was observed in samples stored over a period of 13-17 years.Conclusions: Most samples currently stored in biobanks are amenable to meaningful omics analysis, provided that they satisfy collection and storage criteria defined in this study.
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Georgiadis, Panagiotis
(author)
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Keun, Hector C.
(author)
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Athersuch, Toby J.
(author)
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Vineis, Paolo
(author)
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Vermeulen, Roel
(author)
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Portengen, Lützen
(author)
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Bergdahl, Ingvar A.Umeå universitet,Enheten för biobanksforskning,Yrkes- och miljömedicin,Arcum(Swepub:umu)inbe0001
(author)
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Hallmans, GöranUmeå universitet,Enheten för biobanksforskning,Näringsforskning(Swepub:umu)goha0001
(author)
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Palli, Domenico
(author)
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Bendinelli, Benedetta
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Krogh, Vittorio
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Tumino, Rosario
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Sacerdote, Carlotta
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Panico, Salvatore
(author)
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Kleinjans, Jos C. S.
(author)
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de Kok, Theo M. C. M.
(author)
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Smith, Martyn T.
(author)
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Kyrtopoulos, Soterios A.
(author)
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Umeå universitetEnheten för biobanksforskning
(creator_code:org_t)
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In:Journal of Environmental Health Perspectives: Environmental Health Perspectives121:4, s. 480-4870091-67651552-9924
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Keun, Hector C.
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Athersuch, Toby ...
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Vineis, Paolo
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Vermeulen, Roel
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Portengen, Lütze ...
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Hallmans, Göran
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Krogh, Vittorio
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Tumino, Rosario
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Sacerdote, Carlo ...
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Panico, Salvator ...
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Kleinjans, Jos C ...
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Smith, Martyn T.
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