GPU Panel for Medicine at UMD Measurement Science Based on Full - PowerPoint PPT Presentation

GPU Panel for Medicine at UMD Measurement Science Based on Full Coverage Microscopic Measurements Peter Bajcsy Information Technology Laboratory National Institute of Standards and Technology (NIST) Gaithersburg, MD, USA

Measurement Problem Full coverage measurement science Current measurement science Measurement SPECIMEN SPECIMEN MEASUREMENT SPECIMEN SMALL COVERAGE FULL COVERAGE DECISION -IMAGE COMPARISON -SPECIMEN COMPARISON -LIMITED ACCESS -WEB ACCESS -RESTRICTED SCIENCE -COMMUNITY SCIENCE TECHNICAL MERIT: QUANTITATIVE MEASUREMENTS AT MULTIPLE LENGTH SCALES DATA (access, preservation, dissemination) and QUALITY (decision, scientific discovery)

Measurement Challenges Measurement Science Impact: Interactive quantitative measurements at multiple length scales will enable: • To guarantee everyday function and safety of products by full coverage measurements To increase reproducibility of scientific results • • To understand phenomena statistically at macro scale while observed at micro scale and hence prevent catastrophic events

Wanted: “The Truman Microscopic Show” CELL BIOLOGY The way we might observe and measure tomorrow … The way we observe Frame Slider and measure today … Information Layer Overview Intensity Information Movie Player Sub-setting Modes Scale Bar 3D Volume Dimensions: 22,912 x 20,775 x 161 ~.15 cm x .15 cm (~1 MB) 1 sample ≅ 18 × 14 images × 2 color channels × 24*4 images per day × 5 days of imaging = 241,920 images Bottom of a 10 cm dish = 58 cm 2 @ 2.8 MB/image = 0.677TB (17% sampled) (0.034% sampled) 3 replicas ≅ 2.032TB Bottom of 6-well dish = 9.5 cm 2 (0.2% sampled) Interactive measurements: 11 info layers ~ 14 million files in 0.5 million folders

Computational Goal: Enable Interactive Measurements in a Browser LINEAGE UI IMAGE UI FEATURE UI INTERACTIVE MEASUREMENTS BROWSER NETWORK GFP CHANNEL IMAGE TILES ANNOTATIONS IMAGE PC CHANNEL A SET OF INPUT PREDICTIONS FEATURES IMAGE TILES PYRAMIDS Conversion to 8bpp & Pyramid Building Feature Prediction Re-Projection Segmentation Tracking Corrections Stitching Modeling Extraction OFF-LINE PRE-PROCESSING

Enable Science From Big Image Data https://isg.nist.gov Intensity Measurements Distance to Spectral Peaks One TB-sized XYT Cube One TB-sized XY λ Cube Thousands of MB-sized XYT Cubes Thousands of MB-sized XYZ Cubes HOMOGENEOUS HETEROGENEOUS Shape Measurements Heterogeneity Measurements DARK