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Proceedings Paper

Acquisition and analysis of spectral image data by linear un-mixing, cluster computing and a novel spectral imager
Author(s): Paul Richard Barber; Richard James Edens; B. Vojnovic
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Paper Abstract

We describe how spectral imaging, linear un-mixing and cluster computing have been combined to aid biomedical researchers and allow the spatial segmentation and quantitative analysis of immunohistochemically stained tissue section images. A novel cost-effective spectral imager, with a bandwidth of 15 nm between 400 and 700 nm, allows us to record both spatial and spectral data from absorptive and fluorescent chemical probes. The linear un-mixing of this data separates the stain distributions revealing areas of co-localisation and extracts quantitative values of optical density. This has been achieved at the single-pixel level of an image by non-negative least squares fitting. This process can be computationally expensive but great processing speed increases have been achieved through the use of cluster computing. We describe how several personal computers, running Microsoft WindowsXP, can be used in parallel, linked by the MPI (Message Passing Interface) standard. We describe how the free MPICH libraries have been incorporated into our spectral imaging application under the C language and how this has been extended to support features of MPI2 via the commercial WMPI II libraries. A cluster of 8 processors, in 4 dual-Athlon-2600+ computers, offered a speed up of a factor of 5 compared to a singleton. This includes the time required to transfer the data throughout the cluster and reflects a processing efficiency of 0.62 (a Cluster Efficacy of 3.0). The cluster was based on a 1000Base-T Ethernet network and appears to be scalable efficiently beyond 8 processors.

Paper Details

Date Published: 23 March 2005
PDF: 9 pages
Proc. SPIE 5694, Spectral Imaging: Instrumentation, Applications, and Analysis III, (23 March 2005); doi: 10.1117/12.590547
Show Author Affiliations
Paul Richard Barber, Gray Cancer Institute, Mount Vernon Hospital (United Kingdom)
Richard James Edens, Gray Cancer Institute, Mount Vernon Hospital (United Kingdom)
B. Vojnovic, Gray Cancer Institute, Mount Vernon Hospital (United Kingdom)


Published in SPIE Proceedings Vol. 5694:
Spectral Imaging: Instrumentation, Applications, and Analysis III
Gregory H. Bearman; Anita Mahadevan-Jansen; Richard M. Levenson, Editor(s)

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