NIH | National Cancer Institute | NCI Wiki  

WIKI MAINTENANCE NOTICE

Please be advised that NCI Wiki will be will be undergoing maintenance on Monday, June 24th between 1000 ET and 1100 ET.
Wiki will remain available, but users may experience screen refreshes or HTTP 502 errors during the maintenance period. If you encounter these errors, wait 1-2 minutes, then refresh your page.

If you have any questions or concerns, please contact the CBIIT Atlassian Management Team.

Versions Compared

Key

  • This line was added.
  • This line was removed.
  • Formatting was changed.

...

Section
Column
width220px
Panel
titleUseful Links




Panel
titleICR Active Working Groups
Panel
titleInactive ICR Working Groups
Column

The Integrative Cancer Research Workspace is producing modular and interoperable tools and interfaces that provide for integration between biomedical informatics applications and data. This will ultimately enable translational and integrative research by providing for the integration of clinical and basic research data. The Workspace is developing a software-engineered, well-documented and validated biomedical informatics toolset for use throughout the research community.

Additional information is also found on the Molecular Analysis Knowledge Center site.

Recent News


Info
titleLife Sciences Domain Analysis Model

caBIG® Life Sciences Domain Analysis Model (LS DAM) v2.1 has been released. The LS DAM is a shared view of the semantics for Life Sciences, which includes hypothesis driven basic and pre-clinical research as well as discovery sciences. It is aligned, where appropriate, with the Clinical Sciences BRIDG model, which covers protocol driven clinical research. The LS DAM is a foundational component for achieving semantic interoperability among the various applications across caBIG® and is bound to the ISO 21090 data type standard.

The major changes in this release are described in the Release Summary and include:

  • Creation of a Life Sciences Scope Statement
  • Update to the Molecular Biology core component to promote consistent use of the model when dealing with physical entities and/or information about those entities
  • Expansion of Experiment Core(formerly called the Generic Assay model) to include ExperimentalParameters
  • Addition of the BRIDG aligned Performer role based class which was identified as a gap through analysis of Pathology Imaging Use Cases
  • Representation for biologic models by inclusion of classes for CellCulture, CellLine, MicrobiologicCulture, subSpeciesRank identified through analysis of Pathology Imaging Use Cases
  • Support for material compositions by addition of MaterialRelationship class (and removal of caNanoLab derived specializations of Material that can now be handled more elegantly)
  • Further development of the Container concept
  • Addition of attributes to the Software class
  • Common Biorepository Model mappings are documented and added as tags in the UML model

For a complete list of modifications and additions to the LS DAM v 2.1, please see the Release Notes and Model Documentation.

For those interested in viewing the LS DAM v2.1 model

For more information on the LS DAM see the LS DAM Wiki page.


Info
titleNanoParticle Ontology

We have released a new version of the NanoParticle Ontology(NPO). This version includes new terms that describe “scales of measurement” and nanomaterials. We made some modification to the nanomaterial branch and added new terms based on ISO terminology.

NPO RELEASE DOCUMENTS: To view the new release documents, please go to http://www.nano-ontology.org/documentation/version-release-notes/2011-02-12 .

NPO VISUALIZATION: To browse and visualize the NPO, please go to http://purl.bioontology.org/ontology/npo .

NPO INCLUDED IN NCI METATHESAURUS: The NPO is now included in the NCI metathesaurus (NCIm), which can be accessed at http://ncimeta.nci.nih.gov/ .
The NCI metathesaurus contains about 3,600,000 terms from over 76 vocabularies, and these terms are mapped to about 1,400,000 biomedical concepts. Terms from multiple vocabularies that are mapped to a single biomedical concept allows the user to choose from the multiple vocabularies to annotate data. Simultaneously, this facilitates discovery of vocabularies unknown to the user. By the inclusion of NPO into the NCI metathesaurus, we expect that NPO accessibility and usage will be extended within the NCIm; NPO will add semantics into the NCIm; and that NCIm users will be able to take advantage of the knowledge provided by NPO.

NPO TERM SUGGESTION: The NCI term suggestion application allows for users to suggest terms for NPO. To suggest terms for NPO, you may use the NCI term suggestion application, available at: http://ncitermform.nci.nih.gov/

...