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References

Calibration Standards
Calibration Grid Slide from Micro Brightfield:
http://www.mbfbioscience.com
Fluorescent Reference Slides from Micros-

copy Education:
http://www.microscopyeducation.com
Olympus
http://www.olympusamerica.com/seg_sec-

tion/seg_home.asp

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Olympus Microfire

 color CCD

• CCD Array: 1600 x 1200 Pixels

• CCD Size: 14.8 mm diagonal

• Pixel Size: 7.4 microns square

• Architecture: Interline CCD, Progressive scan 

(noninterlaced)

• Well Depth: 40,000 electrons

• Read Noise: 20 electrons rms

• Dark Current: 0.3 nA/cm2

• Dynamic Range: 60 dB

• Exposure Time Range: 500 microseconds - 60 

seconds

• Gain Range: 1x - 16x

• Bit Depth: 12-bit Monochrome

Commercial anti-fade mounting media

• 

ProLong Gold Antifade Mountant:

http://www.invitrogen.co.jp/products/pdf/

mp36930.pdf

• 

Vectashield Antifade Mounting Medium: 

http://www.vectorlabs.com/VECTASHIELD/ 

VECTASHIELD.html

• 

VECTASHIELD HardSet Mounting Medium:

http://www.vectorlabs.com/products.details.

asp?prodID=1483

Fluorescence Microscopy Books/Papers
Allan, V., Ed., Protein Localization by Fluo-

rescence Microscopy: A Practical Approach, 

Oxford University Press (1999).
Andreeff, M. and Pinkel, D., Eds., Introduction 

to Fluorescence In Situ Hybridization: Prin-

ciples and Clinical Applications, John Wiley 

and Sons (1999).
Herman, B., Fluorescence Microscopy, 

Second Edition, BIOS Scientific Publishers 

(1998).
Michalet, X., Kapanidis, A.N., Laurence, T., 

Pinaud, F., Doose, S., Pflughoefft, M. and 

Weiss S., “The power and prospects of 

fluorescence microscopies and spectrosco-

pies,” Annu Rev Biophys Biomolec Struct 32, 

161–182 (2003).
Murphy, D.B., Fundamentals of Light Micros-

copy and Electronic Imaging, John Wiley and 

Sons (2001). Molecular Probes.
Spector, D.L. and Goldman, R.D., Basic 

Methods in Microscopy, Cold Spring Harbor 

Laboratory Press (2005).
Yuste, R. and Konnerth, A., Eds., Imaging in 

Neuroscience and Development: A Labora-

tory Manual, Cold Spring Harbor Laboratory 

Press (2004).

Stereology References
Online Assistance:  
http://www.mbfbioscience.com/live-support/
FAQ:  
http://www.mbfbioscience.com/faqs/
Stereology References: 
http://www.mbfbioscience.com/stereo-investigator-bibliography/

Chroma Filter Sets for AxioImager A1

Excitation Wheel 

(1) Blank
(2) Dual Cy2/Cy3
(3) 350/50
(4) 402/15
(5) 490/20
(6) 555/25
(7) 645/30
(8) Blank-blocked
(9) Blank-blocked
(10) Blank-blocked

Emission Wheel by Camera

(1) IR filter
(2) Dual Cy2/Cy3
(3) 455/50
(4) 525/36
(5) 605/52
(6) 705/72
(7) Blank-blocked
(8) Blank-blocked
(9) Blank-blocked
(10) Blank no IR filter

Filter Cubes/Dichroics

(1) Transmitted cube with polarizer
(2)  Cy2/Cy3 filter cube for viewing 
through binoculars
(3) 3channel Dichroic --Camera only
(4) 4 channel Dichroic --Camera only
(5) Blank
(6) Reflected Brightfield cube

Imaging Technology Group

Beckman Institute for Advanced Science and Technology

University of Illinois at Urbana-Champaign

405 North Mathews, Urbana IL 61801 USA

Phone: 217.244.0170    FAX: 217.244.6219

Summary of Contents for AxioImager A1

Page 1: ...Instructions for Zeiss AxioImager A1 Microscope for Stereology Basic operation instructions as of 10 1 2009 The Stereology Workstation By Jon Ekman...

Page 2: ...fluorescence viewing Press the RL Key Set Reflector Turret to 2 Eyes DUAL 470EX 560EX 515EM 620EM Adjust the Incident Iris Stop Slider until light intensity is adequate Find Focus preferably on a dye...

Page 3: ...crews 3 5 Open luminous field diaphragm 1 to edge of field 6 Adjust contrast using condenser aperture diaphragm slider 4 In most cases adjust aperture diaphragm slider to mark matching the NA of the o...

Page 4: ...oscope and in the software Align for Koehler Illumination Grid Tune Calibration 8 Select Tools Grid Tune Current Lens 9 Tell the software the box size Large grid 250mm Small grid 25mm 10 Drop the anch...

Page 5: ...o ing a pilot study will ensure that quality data is generated by obtaining the best estimates of total cell number Step 1 Set up the subject 1 Number of sections to count De fault is 1 new sections c...

Page 6: ...eing counted NOTE Section Thickness measurements Guard Zones Step 8 Define Dissector Options Set Guard zones so that an over or under estimation of cell totals does not occur Do not count cells that f...

Page 7: ...of Results The first items to appear in the results window are the parameters for your study Marker will show the estimated total cell numbers Do not be alarmed if some of the results are 0 Here is t...

Page 8: ...with setting exposure Gain and other camera specific options 6 Adjust Exposure and white balance using More button in the Camera Set tings window another window will pop up with the basic Olympus Pic...

Page 9: ...3 Plan Apochromat excellent quality cor rect for spherical aberration and corrected for chromatic aberration in red blue and green wavelengths 4 EC Epiplan Enhanced Contrast Univer sal objectives for...

Page 10: ...as the Z drive in the windows environment ITG is equipped with gigabit ethernet and saving to the Z drive is relatively fast Also this permits easy access to the data from any computer in the world u...

Page 11: ...hers 1998 Michalet X Kapanidis A N Laurence T Pinaud F Doose S Pflughoefft M and Weiss S The power and prospects of fluorescence microscopies and spectrosco pies Annu Rev Biophys Biomolec Struct 32 16...

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