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

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

Sep 16, 2023 203 likes •276 views

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

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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

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Measurement Problem

Current measurement science Full coverage measurement science

SPECIMEN SPECIMEN SPECIMEN MEASUREMENT

DECISION

Measurement

TECHNICAL MERIT: QUANTITATIVE MEASUREMENTS AT MULTIPLE LENGTH SCALES DATA (access, preservation, dissemination) and QUALITY (decision, scientific discovery) SMALL COVERAGE FULL COVERAGE

  • IMAGE COMPARISON
  • LIMITED ACCESS
  • RESTRICTED SCIENCE
  • SPECIMEN COMPARISON
  • WEB ACCESS
  • COMMUNITY SCIENCE
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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

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~.15 cm x .15 cm (~1 MB) Bottom of a 10 cm dish = 58 cm 2 (0.034% sampled) Bottom of 6-well dish = 9.5 cm 2 (0.2% sampled)

The way we observe and measure today…

Wanted: “The Truman Microscopic Show”

1 sample ≅ 18×14 images × 2 color channels × 24*4 images per day × 5 days of imaging = 241,920 images @ 2.8 MB/image = 0.677TB (17% sampled)

3 replicas ≅2.032TB

The way we might observe and measure tomorrow…

CELL BIOLOGY

Interactive measurements: 11 info layers ~14 million files in 0.5 million folders

Movie Player Frame Slider Intensity Information Information Layer Sub-setting Modes Scale Bar

3D Volume Dimensions: 22,912 x 20,775 x 161

Overview

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ANNOTATIONS PREDICTIONS GFP CHANNEL IMAGE TILES Corrections Stitching Segmentation PC CHANNEL IMAGE TILES Feature Extraction Conversion to 8bpp & Pyramid Building OFF-LINE PRE-PROCESSING Tracking Re-Projection IMAGE FEATURES A SET OF PYRAMIDS INPUT NETWORK Prediction Modeling

Computational Goal: Enable Interactive Measurements in a Browser

BROWSER INTERACTIVE MEASUREMENTS IMAGE UI FEATURE UI LINEAGE UI

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Enable Science From Big Image Data https://isg.nist.gov

Intensity Measurements Distance to Spectral Peaks

One TB-sized XYλ Cube One TB-sized XYT Cube Thousands of MB-sized XYZ Cubes

HOMOGENEOUS HETEROGENEOUS DARK Shape Measurements Heterogeneity Measurements

Thousands of MB-sized XYT Cubes