Toward a checklist for exchange and interpretation of data from a toxicology study
Toward a checklist for exchange and interpretation of data from a toxicology study
复制标题
DOI：
10.1093/toxsci/kfm090
复制
发表时间：
2007-09-01
影响因子：
3.8
通讯作者：
Termant, Raymond
中科院分区：
文献类型：
--
作者：
Fostel, Jennifer M.;Burgoon, Lyle;Termant, Raymond
来自毒理学和毒理基因组学研究的数据是有价值的，并且可以使用公共数据库（如生物系统知识库中的化学效应，ArrayExpress和基因表达综合数据库）进行荟萃分析。为了充分利用数据进行二次分析，有必要对研究进行描述，并对随附数据进行良好注释。本研究注释允许复杂的跨研究比较和分析，并允许识别和充分理解可比受试者的数据。提出了微阵列实验最小信息标准，以允许微阵列数据的存储和共享。我们提出的第一步，对一个类似的标准毒理基因组学/毒理学研究，通过描述的信息清单，最佳实践将建议包括与研究数据。当本清单中的信息与研究数据一起存放时，清单信息有助于公众在时间背景下探索研究数据，或识别来自类似治疗受试者的数据，并探索/识别实验变异性的潜在来源。拟议的清单总结了在共享研究数据以供发表、存入数据库或与合作者进行电子交换时应包含的有用信息。它不是对如何进行实验的描述，而是对如何描述实验的定义。预期一旦毒理学检查表被接受并投入使用，则毒理学数据库可以被配置为要求并输出这些字段，从而可以直接注释数据以供他人解释。
Data from toxicology and toxicogenomics studies are valuable, and can be combined for meta-analysis using public data repositories such as Chemical Effects in Biological Systems Knowledgebase, ArrayExpress, and Gene Expression Omnibus. In order to fully utilize the data for secondary analysis, it is necessary to have a description of the study and good annotation of the accompanying data. This study annotation permits sophisticated cross-study comparison and analysis, and allows data from comparable subjects to be identified and fully understood. The Minimal Information About a Microarray Experiment Standard was proposed to permit deposition and sharing of microarray data. We propose the first step toward an analogous standard for a toxicogenomics/toxicology study, by describing a checklist of information that best practices would suggest be included with the study data. When the information in this checklist is deposited together with the study data, the checklist information helps the public explore the study data in context of time, or identify data from similarly treated subjects, and also explore/identify potential sources of experimental variability. The proposed checklist summarizes useful information to include when sharing study data for publication, deposition into a database, or electronic exchange with collaborators. It is not a description of how to carry out an experiment, but a definition of how to describe an experiment. It is anticipated that once a toxicology checklist is accepted and put into use, then toxicology databases can be configured to require and output these fields, making it straightforward to annotate data for interpretation by others.