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Neuroblastoma Stroma Classification on the Sony Playstation 3

Neuroblastoma Stroma Classification on the Sony Playstation 3. Tim Hartley , Olcay Sertel, Mansoor Khan, Umit Catalyurek, Joel Saltz, Metin Gurcan Department of Biomedical Informatics The Ohio State University. The Cell BE processor.

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Neuroblastoma Stroma Classification on the Sony Playstation 3

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  1. Neuroblastoma Stroma Classification on theSony Playstation 3 Tim Hartley, Olcay Sertel, Mansoor Khan, Umit Catalyurek, Joel Saltz, Metin Gurcan Department of Biomedical Informatics The Ohio State University

  2. The Cell BE processor • Designed at IBM in conjunction with Toshiba and Sony (processor for the PS3) • The Cell is a 9 core chip with a shared L2 cache • One PowerPC (PPE) core • Eight Synergistic Processing Elements (SPE) • High performance I/O to support data-intensive applications

  3. Cell BE parallelism • Some image analysis algorithms are appropriate to be parallelized • Levels of parallelism • Instruction-level parallelism via 128-bit vector operations • Thread-level parallelism via independent SPE processors • CPU-level parallelism for extreme-scale problems

  4. Image analysis on Cell • Neuroblastoma • Nerve cell cancer predominantly affecting children • Microscope slides can be very large (> 40 GB) • One SPE equivalent to 2.13 GHz 64-bit Intel or AMD CPU for this application

  5. Input image LA*B* conversion L A* B* LBP feature Statistical feature extraction Bhattacharyya distance KNN classifier Image label Flowchart of stroma classification algorithm Details of Cell port for analysis • Algorithm overview • Image partitioned into tiles • RGB to LAB transformation • LBP feature calculation • Computationally expensive portions • RGB to LAB transformation • LBP feature calculation • Two stages to Cell analysis pipeline • RGB->LAB and color-space statistics • LBP feature calculation

  6. ` More details of Cell port • Instruction-level parallelism • Vector operations in pipeline stages • Thread-level parallelism • Multiple SPEs analyzing multiple tiles concurrently • Dynamic scheduling of operations on SPEs • CPU-level parallelism • Use DataCutter to decouple tile I/O from analysis • Tiles are read from storage node(s) and pushed to PS3(s)‏

  7. Algorithm workflow Lab Disabled (yield) Reserved

  8. Demo

  9. Conclusion • Performance in analysis of Neuroblastoma slides • Up to 6 times faster than regular CPU with PS3 • Price/performance ratio is significantly better than regular CPU • Sony and IBM encourage Linux-based development with official Software Development Kits (SDK), Linux OS installation support PlayStation is a registered trademark of Sony Computer Entertainment Inc.

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