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GIATE Resources

There are a series of resources related to GIATE, which help cancer researchers record their therapy experiments in a exhaustive and unambiguous manner. Next, the GIATE resources are described, including their purpose and state of development.

GIATE Tree

GIATE was initally conceived as a set of common data elements (CDEs) indicating the key information elements required to describe a therapy experiment. Some of these CDEs were extracted from the Cancer Data Standards Registry and Repository (caDSR) developed by the National Cancer Institute Center for Biomedical Informatics and Information Technology (NCI CBIIT) and caBIG® research community. Other CDEs needed to be created specifically for GIATE. For more details, see [Yong:PEDS2009].

The list of CDEs has been represented as a tree, which can be visualised at the Antiboty Society website:
http://www.genscript.com/giate-viewer/

GIATE Checklist

GIATE is also presented as a list, or checklist, of key information to include when reporting therapy experiments.

Different biological and biomedical communities have developed their own 'minimum information' specifications. These communities are grouped in the  Minimum Information for Biological and Biomedical Investigations (MIBBI) project and the different checklists can be accessed through the MIBBI portal.

GIATE is part of the MIBBI project and its presence in MIBBI can be found here.

The GIATE checklist is presented as a spreadsheet listing the key information elements and it will be available here soon. For more information, contact us.

GIATE-Tab

In order to facilitate the recording of cancer therapy experiments, we have built a spreadsheet that contains the information required by GIATE, which will make possible to aggregate information from different experiments and compare them.

Cancer researchers are encouraged to use this spreadsheet to record the design, biological and methodological context of therapy experiments, as well as their outcomes and conclusions.

The GIATE-Tab spreadsheet constitutes a data exchange format for cancer therapy experiments. GIATE-Tab will be available here soon. For more information, contact us.

GIATE Ontology

While a minimum information specification is necessary to share data about a cancer therapy experiment and a data exchange format like GIATE-Tab is important to make the data exchange efficient, these two resources are not enough. It is also crucial to ensure that the data elements are used and interpreted in the same way across experiments. This can be achieved through the use of controlled vocabularies and/or ontologies.

We are currently developing an ontology for GIATE. This ontology exploits other existing and well-known ontologies in the cancer and biomedical domains.

GIATE Use Cases

We are working in some use cases of GIATE-Tab for particular cancer therapy experiments.

CHT-25

We represented in GIATE-Tab the phase I clinical trial of CHT-25, a ¹³¹I-labeled chimeric anti-CD25 antibody. This clinical trial is described in the following publication:

G. Dancey, J. Violet, A. Malaroda, A.J. Green, S.K. Sharma, R. Francis, S. Othman, S. Parker, J. Buscombe, N. Griffin, PS Chan, A. Malhotra, N. Woodward, A. Ramsay, P. Ross, T.A. Lister, P. Amlot, R. Begent, C. McNamara. "A Phase I Clinical Trial of CHT-25 a ¹³¹I-Labeled Chimeric Anti-CD25 Antibody Showing Efficacy in Patients with Refractory Lymphoma". Clinical Cancer Research, December 2009 15; 7701. http://clincancerres.aacrjournals.org/content/15/24/7701.abstract

We are grateful to Gairin Dancey for her contributions to GIATE-Tab for the CHT-25 experiment.