Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

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

Jules J Berman1, Mary E Edgerton, Bruce A Friedman

  • 1Cancer Diagnosis Program, National Cancer Institute, Bethesda, MD, USA. bermanj@mail.nih.gov

BMC Medical Informatics and Decision Making
|May 29, 2003
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Delineating the copy-number substructure of metastatic tumors with CopyKit.

Molecular cell·2026
Same author

Advancements in Interoperability: Achieving Anatomic Pathology Reports That Adhere to International Standards and Are Both Human-Readable and Readily Computable.

JCO clinical cancer informatics·2025
Same author

Analysis of laboratory data transmission between two healthcare institutions using a widely used point-to-point health information exchange platform: a case report.

JAMIA open·2024
Same author

Utility of Whole Slide Imaging for Intraoperative Consultation: Experience of a Large Academic Center.

Archives of pathology & laboratory medicine·2023
Same author

DIFFERENTIATION OF A PRIMARY CHEMICALLY INDUCED RAT NEPHROBLASTOMA IN ORGAN CULTURE.

Development, growth & differentiation·2023
Same author

In Reply.

Archives of pathology & laboratory medicine·2022
Same journal

Established machine learning matches tabular foundation models in clinical predictions.

BMC medical informatics and decision making·2026
Same journal

Explainable AI machine learning framework for chronic kidney disease prediction utilizing electronic health records.

BMC medical informatics and decision making·2026
Same journal

Interpretable SHAP-based machine learning framework for patient satisfaction prediction: a case study in Thammasat University Hospital.

BMC medical informatics and decision making·2026
Same journal

Automated generation of structured breast ultrasound reports using BreastViT and ChatGPT.

BMC medical informatics and decision making·2026
Same journal

Shared decision-making and medication adherence among community adults with chronic diseases: a cross-sectional study in Hubei Province, China.

BMC medical informatics and decision making·2026
Same journal

Classification of periapical radiographic findings for root canal therapy decision support using deep neural networks.

BMC medical informatics and decision making·2026
See all related articles

A new data exchange specification for Tissue Microarrays (TMAs) enables standardized sharing of large experimental datasets. This open, XML-based format facilitates data integration and submission for researchers worldwide.

Area of Science:

  • Bioinformatics
  • Computational Pathology
  • Data Science

Background:

  • Tissue Microarrays (TMAs) generate large datasets (Gigabytes per slide).
  • A standardized, open-source data exchange specification is needed for TMA data.
  • Current data formats hinder sharing, merging, and submission to journals/repositories.

Purpose of the Study:

  • To develop an open, community-supported data exchange specification for TMAs.
  • To create a format understandable by both humans and computers.
  • To facilitate data sharing and integration across research laboratories.

Main Methods:

  • Development through a series of four workshops sponsored by the Association for Pathology Informatics (API) and NCI.
  • Creation of an XML-based specification with community-approved Common Data Elements (CDEs).

Related Experiment Videos

  • Establishment of a strategy for organizing TMA data in self-describing XML documents.

    • Main Results:

    • A draft TMA data exchange specification is available.
    • The specification uses a well-formed XML document with four sections: Header, Block, Slide, and Core.
    • Eighty CDEs, conforming to ISO-11179, are used as XML tags.
    • A Perl-based software implementation for file validation is provided.

    Conclusions:

    • The draft TMA data exchange specification is community-approved and freely available.
    • The specification offers a standardized file format and data structure for TMA experiments.
    • Ongoing refinement efforts are underway, with opportunities for public participation.