3D reconstruction from confocal microscopy data Alex Sossick Wellcome/CRC Institute University of Cambridge.

3D reconstruction from confocal3D reconstruction from confocalmicroscopy datamicroscopy data

3D reconstruction from confocal3D reconstruction from confocalmicroscopy datamicroscopy data

Alex SossickAlex Sossick

Wellcome/CRC InstituteWellcome/CRC InstituteUniversity of CambridgeUniversity of Cambridge

A brief historyA brief history

Interest in magnification has been around for a long time,Interest in magnification has been around for a long time, 2nd Century BC: Claudius Ptolemy:2nd Century BC: Claudius Ptolemy:

Described a stick appearing to bend in a pool of water, and accurately recorded the angles to Described a stick appearing to bend in a pool of water, and accurately recorded the angles to within 1/2 degree for this relationship. He then very accurately calculated the refraction within 1/2 degree for this relationship. He then very accurately calculated the refraction constant of water. constant of water.

1st Century AD: Seneca: 1st Century AD: Seneca: Described actual magnification by a globe of water. He wrote the following: "Letters, however Described actual magnification by a globe of water. He wrote the following: "Letters, however

small and indistinct, are seen enlarged and more clearly through a globe of glass filled with small and indistinct, are seen enlarged and more clearly through a globe of glass filled with water."water."

Specticals were reinvented circa 1280-1285, Specticals were reinvented circa 1280-1285, (the Chinese already ‘cosmetically’ had invented specticals by along time before this) (the Chinese already ‘cosmetically’ had invented specticals by along time before this)

A brief historyA brief history

Credit for the first microscope is usually Credit for the first microscope is usually given to Zacharias Jansen, in Middleburg, given to Zacharias Jansen, in Middleburg, Holland, around the year 1595. Holland, around the year 1595.

By the 1880’s the theoretical resolving By the 1880’s the theoretical resolving power was achieved, 2 points only 0.2 power was achieved, 2 points only 0.2 microns apart.microns apart.

First production confocal late 1980’sFirst production confocal late 1980’s

What is Confocal Microscopy?What is Confocal Microscopy?

It is similar to conventional epi-illumination It is similar to conventional epi-illumination light microscopy.light microscopy.

The confocal pinhole removes out of focus The confocal pinhole removes out of focus light, therefore optical sectioning is possible.light, therefore optical sectioning is possible.

The main advantage is the ability to optical The main advantage is the ability to optical section through a sample.section through a sample.

It is non-invasiveIt is non-invasive

A Confocal MicroscopyA Confocal Microscopy

Nipkow ConfocalNipkow Confocal

Nipkow ConfocalNipkow Confocal

Why 3D reconstruction?Why 3D reconstruction?

Alot more structural information can be Alot more structural information can be gained from looking at a sample at different gained from looking at a sample at different view points.view points.

AVS/EXPRESSAVS/EXPRESS

AVS/Express gives a flexible approach to AVS/Express gives a flexible approach to 3D image processing3D image processing

The Video!!!The Video!!!

A Wellcome/CRC productionA Wellcome/CRC production

The future with AVS/ExpressThe future with AVS/Express

Better 3D ImagingBetter 3D ImagingSegmentationSegmentation4D Image processing4D Image processing

Projections through timeProjections through timeSlices through timeSlices through time

A function of Z through timeA function of Z through time

The people who did the work!The people who did the work!

Andrea BrandAndrea BrandJim HasloffJim HasloffEmma DormandEmma DormandIsabel PalaciosIsabel Palacios