Serial sections, 156
Shape information, 304
Shrinkage, 11
Side-entry cryoholder, 68
Signal-to-noise, 272
Signal-to-noise ratio, 39, 210, 302
Simultaneous algebraic reconstruction
technique, 216
Simultaneous Iterative Reconstruction
Technique (SIRT), 16, 216
Single-axis tomography, 266
Single-particle analysis, 3
Single-scattering approximation, 36
SIRT, 78
Skeletonization, 308
Small semi-convergence angle, 45
Sodium azide, 167
Sodium pentobarbital, 167
Software packages, 71, 248
Soft X-ray tomography, 1
Span cellular and structural biology, 81
Spatial frequencies, 79
Specimen charging, 13, 69
Specimen movement, 69
26S proteasome, 249
Stained samples, 39
Starting volume, 216
STEM biological imaging, 44
STEM contrast of biological samples, 38
STEM detector, 40
STEM image formation, 35
STEM imaging, 33
STEM tomography, 41, 43, 44, 46, 50
Stereological techniques, 25
Stochastic variability, 6
Stopping condition, 216
Stopping point, 224
Subframe alignment, 69
Subjectivity, 311
Sub-nanometer resolution, 273
Subtomogram, 210
Subtomogram alignment, 242
Subtomogram averaging, 79
Subtomogram reconstruction, 230
Synapse, 151, 161
T
Template bias, 244
Template matching, 18, 80, 239, 242, 251, 307
Template structure, 252
Thick biological samples, 40
Thick biological sections, 44
Thicker biological sections, 50
Thick sample, 45
Thin-plate spline, 306
Thin specimen limit, 36
Thresholding, 308
Throughput, 86
Tilt compensation, 221
Tilt increment, 75
Tilt range, 75
Tilt series, 13
Time-resolved electron tomography, 26
Tomographic experiments, 41
Tomography applications, 39
Total elastic scattering, 37
Total elastic scattering cross-section, 36
Total inelastic scattering, 37
Translocon, 249
Transmission Electron Microscope (TEM), 2
True positives, 240, 253
U
Ultra-small gold labels, 51
Ultra-stable supports, 85
Ultrathin sectioning, 174
Unique insights into biological systems, 87
Unstained biological specimens, 46
Updating the 3D map volume, 218
V
Visual proteomics, 5, 20, 80
Vitreous ice, 65
Vitrification, 6, 66
Vitrified human cells, 52
Vitrified samples, 51
Volta phase plate, 22, 273, 302
Volume rendering, 79
Volumetric rendering, 49
W
Watershed algorithm, 304
Watersnake method, 304
Weighted back-projection, 16, 78, 209, 213
Weighting function, 213
X
X-rays, 220
Index
323
Shape information, 304
Shrinkage, 11
Side-entry cryoholder, 68
Signal-to-noise, 272
Signal-to-noise ratio, 39, 210, 302
Simultaneous algebraic reconstruction
technique, 216
Simultaneous Iterative Reconstruction
Technique (SIRT), 16, 216
Single-axis tomography, 266
Single-particle analysis, 3
Single-scattering approximation, 36
SIRT, 78
Skeletonization, 308
Small semi-convergence angle, 45
Sodium azide, 167
Sodium pentobarbital, 167
Software packages, 71, 248
Soft X-ray tomography, 1
Span cellular and structural biology, 81
Spatial frequencies, 79
Specimen charging, 13, 69
Specimen movement, 69
26S proteasome, 249
Stained samples, 39
Starting volume, 216
STEM biological imaging, 44
STEM contrast of biological samples, 38
STEM detector, 40
STEM image formation, 35
STEM imaging, 33
STEM tomography, 41, 43, 44, 46, 50
Stereological techniques, 25
Stochastic variability, 6
Stopping condition, 216
Stopping point, 224
Subframe alignment, 69
Subjectivity, 311
Sub-nanometer resolution, 273
Subtomogram, 210
Subtomogram alignment, 242
Subtomogram averaging, 79
Subtomogram reconstruction, 230
Synapse, 151, 161
T
Template bias, 244
Template matching, 18, 80, 239, 242, 251, 307
Template structure, 252
Thick biological samples, 40
Thick biological sections, 44
Thicker biological sections, 50
Thick sample, 45
Thin-plate spline, 306
Thin specimen limit, 36
Thresholding, 308
Throughput, 86
Tilt compensation, 221
Tilt increment, 75
Tilt range, 75
Tilt series, 13
Time-resolved electron tomography, 26
Tomographic experiments, 41
Tomography applications, 39
Total elastic scattering, 37
Total elastic scattering cross-section, 36
Total inelastic scattering, 37
Translocon, 249
Transmission Electron Microscope (TEM), 2
True positives, 240, 253
U
Ultra-small gold labels, 51
Ultra-stable supports, 85
Ultrathin sectioning, 174
Unique insights into biological systems, 87
Unstained biological specimens, 46
Updating the 3D map volume, 218
V
Visual proteomics, 5, 20, 80
Vitreous ice, 65
Vitrification, 6, 66
Vitrified human cells, 52
Vitrified samples, 51
Volta phase plate, 22, 273, 302
Volume rendering, 79
Volumetric rendering, 49
W
Watershed algorithm, 304
Watersnake method, 304
Weighted back-projection, 16, 78, 209, 213
Weighting function, 213
X
X-rays, 220
Index
323
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