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- Title
Ultra-fast processing of gigapixel Tissue MicroArray images using high performance computing.
- Authors
Yinhai Wang; McCleary, David; Ching-Wei Wang; Kelly, Paul; James, Jackie; Fennell, Dean A.; Hamilton, Peter
- Abstract
Background: Tissue MicroArrays (TMAs) are a valuable platform for tissue based translational research and the discovery of tissue biomarkers. The digitised TMA slides or TMA Virtual Slides, are ultra-large digital images, and can contain several hundred samples. The processing of such slides is time-consuming, bottlenecking a potentially high throughput platform. Methods: A High Performance Computing (HPC) platform for the rapid analysis of TMA virtual slides is presented in this study. Using an HP high performance cluster and a centralised dynamic load balancing approach, the simultaneous analysis of multiple tissue-cores were established. This was evaluated on Non-Small Cell Lung Cancer TMAs for complex analysis of tissue pattern and immunohistochemical positivity. Results: The automated processing of a single TMA virtual slide containing 230 patient samples can be significantly speeded up by a factor of circa 22, bringing the analysis time to one minute. Over 90 TMAs could also be analysed simultaneously, speeding up multiplex biomarker experiments enormously. Conclusions: The methodologies developed in this paper provide for the first time a genuine high throughput analysis platform for TMA biomarker discovery that will significantly enhance the reliability and speed for biomarker research. This will have widespread implications in translational tissue based research.
- Subjects
PARALLEL processing; HIGH performance computing; MICROARRAY technology; DIAGNOSTIC imaging; SLIDES (Photography); BIOMARKERS
- Publication
Analytical Cellular Pathology: Cellular Oncology, 2010, Vol 33, Issue 5/6, p271
- ISSN
2210-7177
- Publication type
Article
- DOI
10.1155/2010/918306