7.2 KiB
| title | chunk | source | category | tags | date_saved | instance |
|---|---|---|---|---|---|---|
| CaBIG | 2/2 | https://en.wikipedia.org/wiki/CaBIG | reference | science, encyclopedia | 2026-05-05T14:01:59.198753+00:00 | kb-cron |
=== Results === In 2008, GlaxoSmithKline announced it would share cancer cell genomic data with caBIG. Some private companies claimed benefits from caBIG technology in 2010. A caGrid community web site was created in 2007. The 1.x version of the core software was added to a GitHub project in mid-2013, under the BSD 3-Clause license. It used version 4.03 of the Globus Toolkit, and the Taverna workbench system to manage workflow and the Business Process Execution Language. Software called Introduce was developed around 2006. Contributors included the Ohio State University Center for Clinical and Translational Science, Duke University, University of Chicago - Argonne National Laboratory, and private companies Booze Allen Hamilton, Ekagra Software Technologies and Semantic Bits.
=== Criticism === By 2008, some questioned if the program was benefiting large pharmaceutical companies. By 2011, the project had spent an estimated $350 million. Although the goal was considered laudable, much of the software was unevenly adopted after being developed at great expense to compete with commercial offerings. In March 2011, an NCI working group assessment concluded that caBIG "...expanded far beyond those goals to implement an overly complex and ambitious software enterprise of NCI-branded tools, especially in the Clinical Trial Management System (CTMS) space. These have produced limited traction in the cancer community, compete against established commercial vendors, and create financially untenable long-term maintenance and support commitments for the NCI". In 2012, the NCI announced a new program the National Cancer Informatics Program (NCIP) as a successor to caBIG.
== caGrid ==
The caGrid computer network and software supported the cancer Biomedical Informatics Grid (caBIG) initiative of the National Cancer Institute of the US National Institutes of Health. caBIG was a voluntary virtual informatics infrastructure that connects data, research tools, scientists, and organizations. In 2013, the National Cancer Informatics Program (NCIP) re-released caGrid under the BSD 3-Clause license, and migrated the source repository to github. caGrid used version 4.03 of the Globus Toolkit, produced by the Globus Alliance.
=== Program Management === The caGrid project and much of its funding was managed by Booz Allen Hamilton
=== Portal === The caGrid Portal was a Web-based application built on Liferay that enables users to discover and interact with the services that are available on the caGrid infrastructure. Portal serves as the primary visualization tool for the caGrid middleware. It also served as a caBIG information source. Through the caGrid Portal, users had access to information about caBIG participants, caGrid points of contact (POCs), and caGrid-related news and events.
=== Workflow === caGrid workflow uses:
Active BPEL Taverna
=== Contributors === NCI CBIIT Program Booz Allen Hamilton Ohio State University University of Chicago, Argonne National Laboratory Duke University SemanticBits, LLC Ekagra Software Technologies
=== Criticism === In March 2011, the NCI published an extensive review of CaBIG, the NCI CBIIT program that funded the caGrid software development (see [1], [2]), which included a long list of problems with the program, and recommended that most of the software development projects should be discontinued.
== References ==
== Further reading == Abernethy AP, Coeytauz R, Rowe K, Wheeler JL, Lyerly HK. Electronic patient-reported data capture as the foundation of a learning health care system. JCO. 2009;27:6522. Buetow KH. caBIG: proof of concept for personalized cancer care. JCO. 2009:27 Suppl 15S:e20712. Holford ME, Rajeevan H, Zhao H, Kidd KK, Cheung KH (2009). "Semantic web-based integration of cancer pathways and allele frequency data". Cancer Informatics. 8: 19–30. doi:10.4137/CIN.S1006. PMC 2664696. PMID 19458791. Huang T, Shenoy PJ, Sinha R, Graiser M, Bumpers KW, Flowers CR (2009). "Development of the Lymphoma Enterprise Architecture Database: A caBIG Silver level compliant System". Cancer Informatics. 8: 45–64. doi:10.4137/CIN.S940. PMC 2675136. PMID 19492074. Kunz I, Lin MC, Frey L (2009). "Metadata mapping and reuse in caBIG". BMC Bioinformatics. 10 (Suppl 2): S4. doi:10.1186/1471-2105-10-S2-S4. PMC 2646244. PMID 19208192. Ohmann C, Kuchinke W (2009). "Future developments of medical informatics from the viewpoint of networked clinical research. Interoperability and integration". Methods of Information in Medicine. 48 (1): 45–54. doi:10.3414/me9137. PMID 19151883. S2CID 23089030.{{cite journal}}: CS1 maint: deprecated archival service (link) Phan JH, Moffitt RA, Stokes TH, et al. (June 2009). "Convergence of biomarkers, bioinformatics and nanotechnology for individualized cancer treatment". Trends in Biotechnology. 27 (6): 350–8. doi:10.1016/j.tibtech.2009.02.010. PMC 3779321. PMID 19409634. Staes CJ, Xu W, LeFevre SD, et al. (2009). "A case for using grid architecture for state public health informatics: the Utah perspective". BMC Medical Informatics and Decision Making. 9: 32. doi:10.1186/1472-6947-9-32. PMC 2707374. PMID 19545428. Peter A. Covitz; Frank Hartel; Carl Schaefer; Sherri De Coronado; Gilberto Fragoso; Himanso Sahni; Scott Gustafson & Kenneth H. Buetow (April 23, 2003). "caCORE: A common infrastructure for cancer informatics". Bioinformatics. 19 (18): 2404–2412. doi:10.1093/bioinformatics/btg335. PMID 14668224. “Health IT gets personal,” InformationWeek (11/13/09) “Health data in the raw,” Archived 2010-12-26 at the Wayback Machine Government Health IT (11/6/09) “NCI to open research grid to cancer patient 'army',” Archived 2010-11-26 at the Wayback Machine Government Health IT (10/9/09) “GridBriefing: The future of Healthcare - eHealth and Grid Computing,” GridTalk (9/09) “Collaboration and Sustainability are Front and Center as caBIG Celebrates Fifth Anniversary,” GenomeWeb/BioInform (7/09) “Sharing the Wealth of Data,” Scientific American (5/09) “Translational Research Drives Demand for 'Virtual' Biobanks Built on caBIG Tools,” GenomeWeb/BioInfom (4/3/09) "caGrid". Archived from the original on 2012-02-05. Retrieved 2016-11-22. "caGrid 1.0: An Enterprise Grid Infrastructure for Biomedical Research". "Enabling the Provisioning and Management of a Federated Grid Trust Fabric". "Introduce: An Open Source Toolkit for Rapid Development of Strongly Typed Grid Services". "caGrid: design and implementation of the core architecture of the cancer biomedical informatics grid". Tan, Wei; Foster, Ian; Madduri, Ravi (2008). "Combining the Power of Taverna and caGrid: Scientific Workflows that Enable Web-Scale Collaboration". IEEE Internet Computing. 12 (6): 61–68. doi:10.1109/MIC.2008.120. S2CID 2690862.
== External links == caBIG Consumer/User Website (non-technical) caBIG Community Website (technical) caGrid wiki caGrid gforge project caGrid Portal
=== Components === Introduce Toolkit, also a Globus Incubator Project Data Services Metadata Security Credential Delegation Service (CDS) Dorian GAARDS Grid Grouper Grid Trust Service (GTS) WebSSO - Web Single Sign-on component, based on JASIG CAS