The tissue microarray data exchange specification: A community-based, open source tool for sharing tissue microarray data

The tissue microarray data exchange specification: A community-based, open source tool for sharing tissue microarray data

BACKGROUND Tissue Microarrays (TMAs) allow researchers to examine hundreds of small tissue samples on a single glass slide. The information held in a single TMA slide may easily involve Gigabytes of data. To benefit from TMA technology, the scientific community needs an open source TMA data exchange specification that will convey all of the data in a TMA experiment in a format that is understan...

Microarray Inspector: tissue cross contamination detection tool for microarray data.

Microarray technology changed the landscape of contemporary life sciences by providing vast amounts of expression data. Researchers are building up repositories of experiment results with various conditions and samples which serve the scientific community as a precious resource. Ensuring that the sample is of high quality is of utmost importance to this effort. The task is complicated by the fa...

The tissue microarray data exchange specification: A document type definition to validate and enhance XML data

BACKGROUND The Association for Pathology Informatics (API) Extensible Mark-up Language (XML) TMA Data Exchange Specification (TMA DES) proposed in April 2003 provides a community-based, open source tool for sharing tissue microarray (TMA) data in a common format. Each tissue core within an array has separate data including digital images; therefore an organized, common approach to produce, navi...

The tissue microarray object model: a data model for storage, analysis, and exchange of tissue microarray experimental data.

CONTEXT Tissue microarray (TMA) is an array-based technology allowing the examination of hundreds of tissue samples on a single slide. To handle, exchange, and disseminate TMA data, we need standard representations of the methods used, of the data generated, and of the clinical and histopathologic information related to TMA data analysis. OBJECTIVE To create a comprehensive data model with fl...

cDNA Microarray Data Normalization