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DOI | 10.1016/j.chemosphere.2017.08.136 |
A statistical framework for applying RNA profiling to chemical hazard detection | |
Kostich, Mitchell S. | |
发表日期 | 2017-12-01 |
ISSN | 0045-6535 |
卷号 | 188页码:49-59 |
英文摘要 | Use of 'omics technologies in environmental science is expanding. However, application is mostly restricted to characterizing molecular steps leading from toxicant interaction with molecular receptors to apical endpoints in laboratory species. Use in environmental decision-making is limited, due to difficulty in elucidating mechanisms in sufficient detail to make quantitative outcome predictions in any single species or in extending predictions to aquatic communities. Here we introduce a mechanism-agnostic statistical approach, supplementing mechanistic investigation by allowing probabilistic outcome prediction even when understanding of molecular pathways is limited, and facilitating extrapolation from results in laboratory test species to predictions about aquatic communities. We use concepts familiar to environmental managers, supplemented with techniques employed for clinical interpretation of 'omics-based biomedical tests. We describe the framework in step-wise fashion, beginning with single test replicates of a single RNA variant, then extending to multi-gene RNA profiling, collections of test replicates, and integration of complementary data. In order to simplify the presentation, we focus on using RNA profiling for distinguishing presence versus absence of chemical hazards, but the principles discussed can be extended to other types of 'omics measurements, multi-class problems, and regression. We include a supplemental file demonstrating many of the concepts using the open source R statistical package. Published by Elsevier Ltd. |
英文关键词 | Aquatic;Chemical;Biomarker;Microarray;RNA-seq |
语种 | 英语 |
WOS记录号 | WOS:000413378400006 |
来源期刊 | CHEMOSPHERE
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来源机构 | 美国环保署 |
文献类型 | 期刊论文 |
条目标识符 | http://gcip.llas.ac.cn/handle/2XKMVOVA/59453 |
作者单位 | US EPA, ORD, NERL, EMMD, 26 West ML King Dr, Cincinnati, OH 45268 USA |
推荐引用方式 GB/T 7714 | Kostich, Mitchell S.. A statistical framework for applying RNA profiling to chemical hazard detection[J]. 美国环保署,2017,188:49-59. |
APA | Kostich, Mitchell S..(2017).A statistical framework for applying RNA profiling to chemical hazard detection.CHEMOSPHERE,188,49-59. |
MLA | Kostich, Mitchell S.."A statistical framework for applying RNA profiling to chemical hazard detection".CHEMOSPHERE 188(2017):49-59. |
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