Digital microscopy:
Saved in:
| Format: | Book |
|---|---|
| Language: | English |
| Published: |
Amsterdam [u.a.]
Acad. Press, Elsevier
2013
|
| Edition: | 4. ed. |
| Series: | Methods in cell biology
114 |
| Subjects: | |
| Online Access: | Inhaltsverzeichnis |
| Physical Description: | XX, 655 S., [10] Bl. Ill., graph. Darst. |
| ISBN: | 9780124077614 |
Staff View
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Record in the Search Index
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|---|---|
| adam_text | Methods in Cell
Biology
Digital Microscopy,
4th Edition
Volume 114
Edited by
Greenfield Sluder
Department of Cellular and Developmental Biology
University of Massachusetts Medical School
Worcester, Massachusetts, USA
David E Wolf
Optics and Photonics Group
Radiation Monitoring Devices
Watertown, Massachusetts, USA
ELSEVIER
AMSTERDAM • BOSTON • HEIDELBERG • LONDON
NEW YORK • OXFORD • PARIS • SAN DIEGO
SAN FRANCISCO • SINGAPORE • SYDNEY • TOKYO
Academic Press is an imprint of Elsevier
Contents
Contributors xv
Preface xix
CHAPTER 1 Microscope Basics 1
Greenfield Sluder, Joshua J Nordberg
Introduction 2
1 1 How Microscopes Work 2
1 2 Objective Basics 6
1 3 Mounting Video Cameras on the Microscope 8
Reference 10
CHAPTER 2 The Optics of Microscope Image Formation 1
David E Wolf
Introduction 12
2 1 Physical Optics: The Superposition of Waves 13
2 2 Huygens Principle 14
2 3 Young s Experiment: Two-Slit Interference 15
2 4 Diffraction from a Single Slit 18
25 The Airy Disk and the Issue of Microscope Resolution 19
2 6 Fourier or Reciprocal Space: The Concept of Spatial
Frequencies 23
2 7 Resolution of the Microscope 28
2 8 Resolution and Contrast 30
Conclusions 31
2 9 Appendix A 31
2 10 Appendix B 35
2 11 Appendix C 39
i Acknowledgments 42
References 42
CHAPTER 3 Proper Alignment of the Microscope 43
Rudi Rottenfusser
3 1 Key Components and Image Locations of the
Light Microscope 44
3 2 Working the Microscope: Basic Setup 60
3 3 Addendum 66
Acknowledgments 67
6 5 Acquiring Digital Images Over Time 141
6 6 nD Imaging 145
6 7 Verifying Cell Health and Troubleshooting Sick Cells 146
Conclusion 148
Acknowledgments 148
References 148
CHAPTER 7 Practical Aspects of Adjusting Digital Cameras 151
Joshua J Nordberg, Greenfield Sluder
Introduction 152
7 1 Measuring Gray-Level Information 152
7 2 Camera Settings 154
7 3 Contrast Stretching 157
7 4 Camera Versus Image Display Controls 159
Acknowledgments 161
References 162
CHAPTER 8 Cameras for Digital Microscopy 163
Kenneth R Spring
8 1 Overview 164
8 2 Basic Principles 164
8 3 Application of CCD Cameras in Fluorescence
Microscopy 176
8 4 Future Developments in Imaging Detectors 178
Further Reading 178
CHAPTER 9 A High-Resolution Multimode Digital Microscope
System 179
Edward D Salmon, Sidney L Shaw, Jennifer C Waters,
Clare M Waterman-Storer, Paul S Maddox, Elaine Yeh,
Kerry Bloom
Introduction 181
i91 Design Criteria 182
9 2 Microscope Design 186
9 3 Cooled CCD Camera 193
9 4 Digital Imaging System 201
9 5 Example Applications 203
References 209
Further Reading 210
CHAPTER 10 Electronic Cameras for Low-Light Microscopy 211
Ivan Rasnik, Todd French, Ken Jacobson, Keith Berland
Introduction 212
10 1 Parameters Characterizing Imaging Devices 216
10 2 Specific Imaging Detectors and Features 228
Conclusions 239
References 239
CHAPTER 11 Camera Technologies for Low Light Imaging:
Overview and Relative Advantages 243
Butch Moomaw
11 1 Overview 244
11 2 CCD and sCMOS Technologies 245
11 3 Low Light Camera Review 247
11 4 Sensitivity 252
11 5 Signal to Noise 255
11 6 Comparing Camera Noise in Different Technologies 258
11 7 DR and Detectable Signal Change 261
11 8 Required Levels of Signal to Noise 271
11 9 Sensitivity Comparison 275
11 10 Spatial Resolution Considerations 276
11 11 Temporal Resolution Considerations 278
11 12 Geometric Distortion 279
11 13 Shading 279
11 14 Usability 280
11 15 Advanced Technology Nutshell 282
Acknowledgments 283
Reference 283
CHAPTER 12 Post-Processing for Statistical Image
Analysis in Light Microscopy 285
Richard A Cardullo, Edward H Hinchcliffe
Introduction 286
12 1 Digitization of Images 286
12 2 Using Gray Values to Quantify Intensity
in the Microscope 288
12 3 Noise Reduction 289
12 4 Contrast Enhancement 294
12 5 Transforms, Convolutions, and Further Uses
for Digital Masks 299
12 6 Thresholding 312
Conclusions 314
References 314
CHAPTER 13 65,000 Shades of Grey: Use of Digital Image
Files in Light Microscopy 317
Sidney L Shaw, Edward H Hinchcliffe
Introduction 318
13 1 What is an Image File? 320
13 2 Bit Depth 320
13 3 File Formats 322
13 4 Sampling and Spatial Resolution 325
13 5 Color 325
13 6 Converting RGB to CMYK 327
13 7 Compression 329
13 8 Video Files 329
13 9 Video Codecs 331
13 10 Choosing a Codec 332
Conclusions 335
Acknowledgments 335
References 336
CHAPTER 14 Quantitative Analysis of Digital
Microscope Images 337
David E Wolf, Champika Samarasekera, Jason R Swedlow
14 1 So You Want to do Digital Imaging 338
14 2 An Illustrative Example 339
14 3 What is an Image? 340
14 4 What Kind of Quantitative Information Do You Want? 341
14 5 Quantitative Microscopy: A Tool Kit 341
14 6 Exercise 1: A Simple Calibration Curve, Relative Scale 342
14 7 Exercise 2: A Simple Calibration Curve, Absolute Scale 345
14 8 Exercise 3: Precision in a Calibration Curve 346
14 9 Standard Deviations, Standard Errors of the Mean,
f-Tests, and Other Confusions 348
14 10 Dynamic Range, Do Not Waste it 350
14 11 Signal-to-Noise Ratio, S /N , and Signal-to-Background
Ratio, S /B 350
14 12 Propagation of Error in Calculated Quantities 351
14 13 Exercise 4: Error Propagation in Imaging 352
14 14 Accuracy and Precision, Calibrating Against
a Reference Standard 354
14 15 Flatfield Correction 354
14 16 Exercise 5: Flatfield Correction 355
14 17 Applications Requiring Spatial Corrections 355
x Contents
14 18 Maximizing Resolution Before You Start 356
14 19 Exercise 6: Converting Pixels to Microns 357
14 20 Exercise 7: Imaging Warping 357
14 21 Exercise 8: Two-Color Coincidence 361
14 22 Two-Camera and Two-Color Imaging 363
14 23 Putting it All Together 364
14 24 Appendix A Error Propagation: A Generalized Equation 364
14 25 Appendix B Image Translation and Rotation 366
Acknowledgments 367
References 367
CHAPTER 15 Evaluating Optical Aberrations Using
Fluorescent Microspheres: Methods,
Analysis, and Corrective Actions 369
Paul C Goodwin
Introduction 370
15 1 Rationale 371
15 2 Methods 371
15 3 Discussion 374
Summary 384
Acknowledgments 384
References 385
CHAPTER 16 Ratio Imaging: Practical Considerations for
Measuring Intracellular Ca2+ and pH in
Living Cells 387
Nathan O Connor, Randi B Silver
Introduction 388
16 1 Why Ratio Imaging? 388
16 2 Properties of the Indicators BCECF and Fura-2 389
16 3 Calibration of the Fluorescence Signal 396
16 4 Components of an Imaging Workstation 401
16 5 Experimental Chamber and Perfusion System:
A Simple Approach 403
Conclusion 405
Acknowledgments 405
References 405
CHAPTER 17 Quantitative Fluorescence Microscopy
and Image Deconvolution 407
Jason R Swedlow
Introduction 408
VJUI IICI IIS
17 1 Quantitative Imaging of Biological Samples Using
Fluorescence Microscopy 409
17 2 Image Blurring in Biological Samples 417
17 3 Applications for Image Deconvolution 423
17 4 Concluding Remarks 423
Acknowledgments 424
References 424
CHAPTER 18 Practical Aspects of Quantitative Confocal
Microscopy 427
John M Murray
Introduction 428
18 1 Setting Up for Quantitative Imaging 428
18 2 Correcting Nonuniformities (Flat Fielding) 430
18 3 Limitations to Exact Quantitation 432
18 4 Evaluating and Comparing Performance 438
References 440
CHAPTER 19 Theoretical Principles and Practical
Considerations for Fluorescence Resonance
Energy Transfer Microscopy 441
Richard A Cardullo
Introduction 441
19 1 Principles and Basic Methods of FRET 442
19 2 FRET Microscopy 448
Conclusions 455
Acknowledgments 455
References 455
CHAPTER 20 Fluorescence Lifetime Imaging Microscopy
for Quantitative Biological Imaging 457
Leng-Chun Chen, William R Lloyd, III, Ching-Wei Chang,
Dhruv Sud, Mary-Ann Mycek
Introduction to Fluorescence Lifetime Imaging
Microscopy 458
20 1 Fluorophore Excited-State Lifetime: T 460
20 2 Methods for Creating Fluorescence Lifetime Maps 465
20 3 FLIM Techniques for Quantitative Biological Imaging 477
Summary 483
Acknowledgment 483
References 484
f I I V_/WI IIV^I IIO
CHAPTER 21 Fluorescence Correlation Spectroscopy:
Molecular Complexing in Solution and
in Living Cells 489
Dylan A Bulseco, David E Wolf
Introduction 490
21 1 Studying Biological Systems with FCS 491
21 2 Designing and Building an FCS Instrument 509
21 3 What Are the Current Commercial Sources of FCS? 520
Summary 520
Acknowledgments 520
References 521
CHAPTER 22 Breaking the Resolution Limit in
Light Microscopy 525
Rainer Heintzmann, Gabriel la Ficz
Introduction 526
22 1 What Is Resolution? 529
22 2 Methods Within the Combined Illumination
and Detection Abbe Limit 534
22 3 Methods Circumventing the Abbe Limit 537
22 4 A Comment on Near Field Methods and Pendry s Lens 540
22 5 Key Points 541
Acknowledgment 542
References 542
Further Reading 544
CHAPTER 23 Circumventing Photodamage in Live-Cell
Microscopy 545
Valentin Magidson, Alexey Khodjakov
Introduction : 545
23 1 Light Intensity and Exposure Time 548
23 2 Optimization of Excitation Spectrum 551
23 3 Hardware Synchronization 554
23 4 Avoiding Unnecessary Irradiation Via Intelligent
Illumination 556
Conclusions 558
References 559
CHAPTER 24 A User s Guide to Localization-Based
Super-Resolution Fluorescence Imaging 561
Graham T Dempsey
Introduction 562
24 1 Fluorescent Probe Selection 565
24 2 Sample Preparation 571
24 3 Instrumentation 575
24 4 Data Collection and Analysis 581
Summary and Outlook 587
Acknowledgments 588
References 588
CHAPTER 25 Quantitative Ratiometric Imaging
of FRET-Biosensors in Living Cells 593
Desiree Spiering, Jose Javier Bravo-Cordero,
Yasmin Moshfegh, Veronika Miskolci, Louis Hodgson
Introduction 594
25 1 Image Processing Methods 596
25 2 Imaging Considerations and Caveats, Pitfalls 604
Summary 607
Acknowledgments 607
References 607
CHAPTER 26 Tip-Enhanced Raman Spectroscopy
for the Base Interrogation of DNA 611
Noah Kolodziejski
Introduction and Motivations 6I2
26 1 Materials 614
26 2 Methods 615
26 3 Discussion 624
Summary 627
References 627
Index 629
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| spelling | Digital microscopy ed. by Greenfield Sluder ... 4. ed. Amsterdam [u.a.] Acad. Press, Elsevier 2013 XX, 655 S., [10] Bl. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Methods in cell biology 114 Digitale technieken gtt Microscopie gtt Traitement d'images - Techniques numériques Vidéomicroscopie Image Processing, Computer-Assisted instrumentation Image Processing, Computer-Assisted methods Image processing Digital techniques Microscopy instrumentation Microscopy methods Video microscopy Videomikroskopie (DE-588)4367875-0 gnd rswk-swf Bildanalyse (DE-588)4145391-8 gnd rswk-swf Mikroskopie (DE-588)4039238-7 gnd rswk-swf Digitalkamera (DE-588)4519830-5 gnd rswk-swf Videomikroskopie (DE-588)4367875-0 s Bildanalyse (DE-588)4145391-8 s DE-604 Mikroskopie (DE-588)4039238-7 s Digitalkamera (DE-588)4519830-5 s b DE-604 Sluder, Greenfield Sonstige (DE-588)1043183825 oth Methods in cell biology 114 (DE-604)BV002534878 114 HEBIS Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=026186000&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Digital microscopy Methods in cell biology Digitale technieken gtt Microscopie gtt Traitement d'images - Techniques numériques Vidéomicroscopie Image Processing, Computer-Assisted instrumentation Image Processing, Computer-Assisted methods Image processing Digital techniques Microscopy instrumentation Microscopy methods Video microscopy Videomikroskopie (DE-588)4367875-0 gnd Bildanalyse (DE-588)4145391-8 gnd Mikroskopie (DE-588)4039238-7 gnd Digitalkamera (DE-588)4519830-5 gnd |
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| title | Digital microscopy |
| title_auth | Digital microscopy |
| title_exact_search | Digital microscopy |
| title_full | Digital microscopy ed. by Greenfield Sluder ... |
| title_fullStr | Digital microscopy ed. by Greenfield Sluder ... |
| title_full_unstemmed | Digital microscopy ed. by Greenfield Sluder ... |
| title_short | Digital microscopy |
| title_sort | digital microscopy |
| topic | Digitale technieken gtt Microscopie gtt Traitement d'images - Techniques numériques Vidéomicroscopie Image Processing, Computer-Assisted instrumentation Image Processing, Computer-Assisted methods Image processing Digital techniques Microscopy instrumentation Microscopy methods Video microscopy Videomikroskopie (DE-588)4367875-0 gnd Bildanalyse (DE-588)4145391-8 gnd Mikroskopie (DE-588)4039238-7 gnd Digitalkamera (DE-588)4519830-5 gnd |
| topic_facet | Digitale technieken Microscopie Traitement d'images - Techniques numériques Vidéomicroscopie Image Processing, Computer-Assisted instrumentation Image Processing, Computer-Assisted methods Image processing Digital techniques Microscopy instrumentation Microscopy methods Video microscopy Videomikroskopie Bildanalyse Mikroskopie Digitalkamera |
| url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=026186000&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| volume_link | (DE-604)BV002534878 |
| work_keys_str_mv | AT sludergreenfield digitalmicroscopy |