The development and deployment of Common Data Elements for tissue banks for translational research in cancer - an emerging standard based approach for the Mesothelioma Virtual Tissue Bank.
The development and deployment of Common Data Elements for tissue banks for translational research in cancer - an emerging standard based approach for the Mesothelioma Virtual Tissue Bank.
复制标题
DOI：
10.1186/1471-2407-8-91
复制
发表时间：
2008-04-08
期刊：
影响因子：
3.8
通讯作者：
Becich MJ
中科院分区：
文献类型：
--
作者：
Mohanty SK;Mistry AT;Amin W;Parwani AV;Pople AK;Schmandt L;Winters SB;Milliken E;Kim P;Whelan NB;Farhat G;Melamed J;Taioli E;Dhir R;Pass HI;Becich MJ
基因组学、蛋白质组学的最新进展以及对生物标志物验证研究日益增长的需求催化了癌症研究格局的变化，推动了转化研究组织库的发展。这种转变的结果是需要足够数量的临床注释和良好表征的生物标本，以支持癌症研究界不断增长的需求。临床注释允许样本更好地匹配手头的研究问题，并确保实验结果更好地理解和验证。为了促进和标准化生物库中的这种注释，我们结合了三套公认的和互补的数据标准：美国病理学家学院（CAP）癌症检查表，解剖和外科病理学主任协会（ADASP）推荐的病理学数据协议，以及北美中央癌症登记协会（NAACCR）流行病学，治疗和随访数据元素。结合这些方法，创建了一套符合国际标准化组织（ISO）的通用数据元素（CDE）的间皮瘤组织库倡议支持的国家职业安全与健康研究所（NIOSH）的疾病控制和预防中心（CDC）。该项目的目的是遵循CAP清单、ADASP癌症方案和NAACCR元素制定的标准，开发一组用于注释间皮瘤标本的核心数据元素。我们已经将这些元素与建模架构相关联，以增强语法和语义的互操作性。该系统具有基于统一建模语言（UML）的基于Java的多层体系结构。通用数据元素是使用受控词汇表、本体和语义建模方法开发的。每个病例的CDE类型不同：人口统计学、流行病学数据、临床病史、病理学数据（包括块级注释）和随访数据（包括治疗、复发和生命状态）。这种努力的最终结果将最终为研究人员提供更多的样本集，并使系统在机构之间具有互操作性。CAP、ADASP和NAACCR元素代表了许多癌症中心广泛使用的数据元素。在这里，我们已经表明，这些表示可以结合起来，并正式创建一个核心集的注释库间皮瘤标本。由于这些数据元素是作为医疗中心正常工作流程的一部分收集的，因此基于这些元素开发的数据集可以很容易地实现和维护。
Recent advances in genomics, proteomics, and the increasing demands for biomarker validation studies have catalyzed changes in the landscape of cancer research, fueling the development of tissue banks for translational research. A result of this transformation is the need for sufficient quantities of clinically annotated and well-characterized biospecimens to support the growing needs of the cancer research community. Clinical annotation allows samples to be better matched to the research question at hand and ensures that experimental results are better understood and can be verified. To facilitate and standardize such annotation in bio-repositories, we have combined three accepted and complementary sets of data standards: the College of American Pathologists (CAP) Cancer Checklists, the protocols recommended by the Association of Directors of Anatomic and Surgical Pathology (ADASP) for pathology data, and the North American Association of Central Cancer Registry (NAACCR) elements for epidemiology, therapy and follow-up data. Combining these approaches creates a set of International Standards Organization (ISO) – compliant Common Data Elements (CDEs) for the mesothelioma tissue banking initiative supported by the National Institute for Occupational Safety and Health (NIOSH) of the Center for Disease Control and Prevention (CDC). The purpose of the project is to develop a core set of data elements for annotating mesothelioma specimens, following standards established by the CAP checklist, ADASP cancer protocols, and the NAACCR elements. We have associated these elements with modeling architecture to enhance both syntactic and semantic interoperability. The system has a Java-based multi-tiered architecture based on Unified Modeling Language (UML). Common Data Elements were developed using controlled vocabulary, ontology and semantic modeling methodology. The CDEs for each case are of different types: demographic, epidemiologic data, clinical history, pathology data including block level annotation, and follow-up data including treatment, recurrence and vital status. The end result of such an effort would eventually provide an increased sample set to the researchers, and makes the system interoperable between institutions. The CAP, ADASP and the NAACCR elements represent widely established data elements that are utilized in many cancer centers. Herein, we have shown these representations can be combined and formalized to create a core set of annotations for banked mesothelioma specimens. Because these data elements are collected as part of the normal workflow of a medical center, data sets developed on the basis of these elements can be easily implemented and maintained.
登录
查看更多内容
影响因子：
3.5
作者：
Butnor, Kelly J.;Sporn, Thoinas A.;Ordonez, Nelson G.
通讯作者：
Ordonez, Nelson G.
影响因子：
11.5
作者：
Melamed, J;Datta, MW;Berman, JJ
通讯作者：
Berman, JJ
影响因子：
3.8
作者：
Patel, Ashokkumar A.;Gilbertson, John R.;Becich, Michael J.
通讯作者：
Becich, Michael J.
DOI：
10.1016/s1386-5056(03)00005-4
发表时间：
2003-04-01
影响因子：
4.9
作者：
Winget, MD;Baron, JA;Feng, ZD
通讯作者：
Feng, ZD
多机构前列腺癌组织库的共同数据元素的发展：合作前列腺癌组织资源（CPCTR）经验。
影响因子：
3.8
作者：
Patel, AA;Kajdacsy-Balla, A;Berman, JJ;Bosland, M;Datta, MW;Dhir, R;Gilbertson, J;Melamed, J;Orenstein, J;Tai, KF;Becich, MJ
通讯作者：
Becich, MJ