-
Notifications
You must be signed in to change notification settings - Fork 6
/
Copy pathThesis.bbl
1184 lines (1027 loc) · 52.5 KB
/
Thesis.bbl
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
607
608
609
610
611
612
613
614
615
616
617
618
619
620
621
622
623
624
625
626
627
628
629
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
661
662
663
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
682
683
684
685
686
687
688
689
690
691
692
693
694
695
696
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
713
714
715
716
717
718
719
720
721
722
723
724
725
726
727
728
729
730
731
732
733
734
735
736
737
738
739
740
741
742
743
744
745
746
747
748
749
750
751
752
753
754
755
756
757
758
759
760
761
762
763
764
765
766
767
768
769
770
771
772
773
774
775
776
777
778
779
780
781
782
783
784
785
786
787
788
789
790
791
792
793
794
795
796
797
798
799
800
801
802
803
804
805
806
807
808
809
810
811
812
813
814
815
816
817
818
819
820
821
822
823
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
841
842
843
844
845
846
847
848
849
850
851
852
853
854
855
856
857
858
859
860
861
862
863
864
865
866
867
868
869
870
871
872
873
874
875
876
877
878
879
880
881
882
883
884
885
886
887
888
889
890
891
892
893
894
895
896
897
898
899
900
901
902
903
904
905
906
907
908
909
910
911
912
913
914
915
916
917
918
919
920
921
922
923
924
925
926
927
928
929
930
931
932
933
934
935
936
937
938
939
940
941
942
943
944
945
946
947
948
949
950
951
952
953
954
955
956
957
958
959
960
961
962
963
964
965
966
967
968
969
970
971
972
973
974
975
976
977
978
979
980
981
982
983
984
985
986
987
988
989
990
991
992
993
994
995
996
997
998
999
1000
\begin{thebibliography}{156}
\providecommand{\natexlab}[1]{#1}
\providecommand{\url}[1]{\texttt{#1}}
\expandafter\ifx\csname urlstyle\endcsname\relax
\providecommand{\doi}[1]{doi: #1}\else
\providecommand{\doi}{doi: \begingroup \urlstyle{rm}\Url}\fi
\bibitem[Wikipedia(2010{\natexlab{a}})]{Cash}
Wikipedia.
\newblock {You'll Never Walk Alone (song) --- Wikipedia{,} The Free
Encyclopedia}, 2010{\natexlab{a}}.
\newblock URL
\url{http://en.wikipedia.org/w/index.php?title=You%27ll_Never_Walk_Alone_(song)&oldid=360900902}.
\newblock [Online; accessed 11-May-2010].
\bibitem[Watterson(1996)]{Watterson1996}
Bill Watterson.
\newblock \emph{It's A Magical World: A Calvin and Hobbes Collection}.
\newblock Andrews McMeel Publishing, original edition, 9 1996.
\newblock ISBN 9780836221367.
\newblock URL
\url{http://books.google.com/books?id=wmjG5g4Yx7gC&lpg=PA4&pg=PA481}.
\bibitem[Downing et~al.(2007)Downing, Sui, Auer, and Manfred]{Downing2007}
Kenneth~H. Downing, Haixin Sui, Auer, and Manfred.
\newblock Electron tomography: A 3d view of the subcellular world.
\newblock \emph{Analytical Chemistry}, 79\penalty0 (21):\penalty0 7949--7957,
November 2007.
\newblock ISSN 0003-2700.
\newblock URL \url{http://dx.doi.org/10.1021/ac071982u}.
\bibitem[Stampanoni et~al.(2010)Stampanoni, Mokso, Marone, Vila-Comamala,
Gorelick, Trtik, Jefimovs, and David]{Stampanoni2010}
Marco Stampanoni, Rajmund Mokso, Federica Marone, Joan Vila-Comamala, Sergey
Gorelick, Pavel Trtik, Konstantin Jefimovs, and Christian David.
\newblock Phase-contrast tomography at the nanoscale using hard x rays.
\newblock \emph{Phys. Rev. B}, 81\penalty0 (14):\penalty0 140105, Apr 2010.
\newblock URL \url{http://dx.doi.org/10.1103/PhysRevB.81.140105}.
\bibitem[Woodward and Maina(2005)]{Woodward2005}
J.D. Woodward and J.N. Maina.
\newblock {A 3D digital reconstruction of the components of the gas exchange
tissue of the lung of the muscovy duck, Cairina moschata}.
\newblock \emph{J.Anat.}, 206\penalty0 (5):\penalty0 477--492, May 2005.
\newblock URL \url{http://dx.doi.org/10.1111/j.1469-7580.2005.00413.x}.
\bibitem[Marvin(1961)]{Minsky1961}
Minsky Marvin.
\newblock Microscopy apparatus, December 1961.
\newblock URL \url{http://www.freepatentsonline.com/3013467.html}.
\bibitem[Hounsfield(1976{\natexlab{a}})]{Hounsfield1976a}
GN~Hounsfield.
\newblock {Historical notes on computerized axial tomography.}
\newblock \emph{Journal of the Canadian Association of Radiologists},
27\penalty0 (3):\penalty0 135, 1976{\natexlab{a}}.
\bibitem[Bonse(2008)]{Bonse2008}
Ulrich Bonse.
\newblock X-ray imaging: past and present.
\newblock volume 7078, page 707802. SPIE, 2008.
\newblock URL \url{http://dx.doi.org/10.1117/12.794694}.
\bibitem[Danovaro et~al.(2010)Danovaro, Dell'Anno, Pusceddu, Gambi, Heiner, and
Mobjerg~Kristensen]{Danovaro2010}
Roberto Danovaro, Antonio Dell'Anno, Antonio Pusceddu, Cristina Gambi, Iben
Heiner, and Reinhardt Mobjerg~Kristensen.
\newblock The first metazoa living in permanently anoxic conditions.
\newblock \emph{BMC Biology}, 8\penalty0 (1):\penalty0 30, 2010.
\newblock ISSN 1741-7007.
\newblock URL \url{http://dx.doi.org/10.1186/1741-7007-8-30}.
\bibitem[Weibel(2009)]{Weibel2009}
Ewald~R Weibel.
\newblock What makes a good lung?
\newblock \emph{Swiss Med Wkly}, 139\penalty0 (27-28):\penalty0 375--386, Jul
2009.
\bibitem[Schittny and Burri(2008)]{Schittny2007a}
Johannes~C. Schittny and Peter~H. Burri.
\newblock \emph{Development and Growth of the Lung}, chapter~5, pages 91--114.
\newblock McGraw-Hill Professional, 2008.
\newblock URL \url{http://books.google.com/books?id=3FjqNJI148oC&pg=PT150}.
\bibitem[Hyde et~al.(2007)Hyde, Blozis, Avdalovic, Putney, Dettorre,
Quesenberry, Singh, and Tyler]{Hyde2007}
Dallas~M. Hyde, Shelley~A. Blozis, Mark~V. Avdalovic, Lei~F. Putney, Rachel
Dettorre, Nathanial~J. Quesenberry, Paramjit Singh, and Nancy~K. Tyler.
\newblock {Alveoli increase in number but not size from birth to adulthood in
rhesus monkeys}.
\newblock \emph{Am J Physiol Lung Cell Mol Physiol}, 293\penalty0 (3):\penalty0
L570--579, 2007.
\newblock URL \url{http://dx.doi.org/10.1152/ajplung.00467.2006}.
\bibitem[Tsuda et~al.(2002)Tsuda, Rogers, Hydon, and Butler]{Tsuda2002}
A.~Tsuda, R.A. Rogers, P.E. Hydon, and J.P. Butler.
\newblock Chaotic mixing deep in the lung.
\newblock \emph{Proceedings of the National Academy of Sciences of the United
States of America}, 99\penalty0 (15):\penalty0 10173--10178, July 2002.
\newblock URL \url{http://dx.doi.org/10.1073/pnas.102318299}.
\bibitem[Hoffman and Chon(2005)]{Hoffman2005}
Eric~A. Hoffman and Deokiee Chon.
\newblock {Computed Tomography Studies of Lung Ventilation and Perfusion}.
\newblock \emph{Proc Am Thorac Soc}, 2\penalty0 (6):\penalty0 492--498, 2005.
\newblock URL \url{http://dx.doi.org/10.1513/pats.200509-099DS}.
\bibitem[Bayat et~al.(2006)Bayat, Porra, Suhonen, Nemoz, Suortti, and
Sovij\"{a}rvi]{Bayat2006}
S.~Bayat, L.~Porra, H.~Suhonen, C.~Nemoz, P.~Suortti, and A.~R. Sovij\"{a}rvi.
\newblock {{D}ifferences in the time course of proximal and distal airway
response to inhaled histamine studied by synchrotron radiation {C}{T}}.
\newblock \emph{J. Appl. Physiol.}, 100:\penalty0 1964--1973, Jun 2006.
\newblock URL \url{http://dx.doi.org/10.1152/japplphysiol.00594.2005}.
\bibitem[Bayat et~al.(2009)Bayat, Porra, Suhonen, Suortti, and
Sovij\"{a}rvi]{Bayat2009}
S.~Bayat, L.~Porra, H.~Suhonen, P.~Suortti, and A.~R. Sovij\"{a}rvi.
\newblock {{P}aradoxical conducting airway responses and heterogeneous regional
ventilation after histamine inhalation in rabbit studied by synchrotron
radiation {C}{T}}.
\newblock \emph{J. Appl. Physiol.}, 106:\penalty0 1949--1958, Jun 2009.
\newblock URL \url{http://dx.doi.org/10.1152/japplphysiol.90550.2008}.
\bibitem[Mund et~al.(2008)Mund, Stampanoni, and Schittny]{Mund2008}
Sonja~I. Mund, Marco Stampanoni, and Johannes~C. Schittny.
\newblock Developmental alveolarization of the mouse lung.
\newblock \emph{Developmental Dynamics}, 237\penalty0 (8):\penalty0 2108--2116,
2008.
\newblock URL \url{http://dx.doi.org/10.1002/dvdy.21633}.
\bibitem[Schittny et~al.(2008)Schittny, Mund, and Stampanoni]{Schittny2008}
Johannes~C. Schittny, Sonja~I. Mund, and Marco Stampanoni.
\newblock Evidence and structural mechanism for late lung alveolarization.
\newblock \emph{Am J Physiol Lung Cell Mol Physiol}, 294\penalty0 (2):\penalty0
L246--254, 2008.
\newblock URL \url{http://dx.doi.org/10.1152/ajplung.00296.2007}.
\bibitem[Tsuda et~al.(2008)Tsuda, Filipovic, Haberth\"{u}r, Dickie, Matsui,
Stampanoni, and Schittny]{Tsuda2008}
A.~Tsuda, N.~Filipovic, D.~Haberth\"{u}r, R.~Dickie, Y.~Matsui, M.~Stampanoni,
and J.~C. Schittny.
\newblock {Finite element 3D reconstruction of the pulmonary acinus imaged by
synchrotron X-ray tomography}.
\newblock \emph{J Appl Physiol}, 105\penalty0 (3):\penalty0 964--976, 2008.
\newblock URL \url{http://dx.doi.org/10.1152/japplphysiol.90546.2008}.
\bibitem[Lynch(2010{\natexlab{a}})]{Alveoli}
Patrick~J. Lynch.
\newblock Bronchial anatomy detail of alveoli and lung circulation,
2010{\natexlab{a}}.
\newblock URL \url{http://en.wikipedia.org/wiki/File:Bronchial_anatomy.jpg}.
\newblock [Online; 20.04.2010].
\bibitem[Burri et~al.(1974)Burri, Dbaly, and Weibel]{Burri1974}
Peter~H. Burri, Jaroslav Dbaly, and Ewald~R. Weibel.
\newblock {The postnatal growth of the rat lung. I. Morphometry}.
\newblock \emph{The Anatomical Record}, 178\penalty0 (4):\penalty0 711--730,
1974.
\newblock ISSN 1097-0185.
\newblock URL \url{http://dx.doi.org/10.1002/ar.1091780405}.
\bibitem[Verhoeven(2000)]{HollowMan}
Paul Verhoeven.
\newblock {Hollow Man}.
\newblock Columbia Pictures Corporation, August 2000.
\newblock URL \url{http://www.imdb.com/title/tt0164052}.
\bibitem[Takahashi and Kiyono(1999)]{Takahashi1999}
Ichiro Takahashi and Hiroshi Kiyono.
\newblock {Gut as the Largest Immunologic Tissue}.
\newblock \emph{JPEN J Parenter Enteral Nutr}, 23:\penalty0 S7--12, 1999.
\newblock URL \url{http://dx.doi.org/10.1177/014860719902300503}.
\bibitem[Haycock et~al.(1978)Haycock, Schwartz, and Wisotsky]{Haycock1978}
G.B. Haycock, G.J. Schwartz, and D.H. Wisotsky.
\newblock {Geometric method for measuring body surface area: A height-weight
formula validated in infants, children, and adults+}.
\newblock \emph{The Journal of Pediatrics}, 93\penalty0 (1):\penalty0 62--66,
1978.
\newblock URL \url{http://dx.doi.org/10.1016/S0022-3476(78)80601-5}.
\bibitem[Richardson(1961)]{Richardson1961}
Lewis~F. Richardson.
\newblock \emph{{The problem of contiguity: An appendix to Statistic of Deadly
Quarrels}}, volume~6, pages 139--187.
\newblock Ann Arbor, Mich. : The Society, 1961.
\bibitem[Mandelbrot(1967)]{Mandelbrot1967}
B.~Mandelbrot.
\newblock {How long is the coast of Britain? Statistical self-similarity and
fractional dimension}.
\newblock \emph{Science}, 156\penalty0 (3775):\penalty0 636, 1967.
\newblock URL \url{http://dx.doi.org/10.1126/science.156.3775.636}.
\bibitem[Schittny and Burri(2004)]{Schittny2004}
J.C. Schittny and P.H. Burri.
\newblock \emph{Morphogenesis of the Mammalian Lung: Aspects of Structure and
Extracellular Matrix Components}, pages 275--317.
\newblock Marcel Dekker Inc, 2004.
\bibitem[Rodriguez et~al.(1987)Rodriguez, Bur, Favre, and
Weibel]{Rodriguez1987}
M.~Rodriguez, S.~Bur, A.~Favre, and E.~R. Weibel.
\newblock Pulmonary acinus: Geometry and morphometry of the peripheral airway
system in rat and rabbit.
\newblock \emph{American Journal of Anatomy}, 180\penalty0 (2):\penalty0
143--155, 1987.
\newblock URL \url{http://dx.doi.org/10.1002/aja.1001800204}.
\bibitem[Burri(1999)]{Burri1999}
P.H. Burri.
\newblock \emph{Lung Disease}, chapter Lung development and pulmonary
angiogenesis, pages 122--151.
\newblock Oxford University Press, New York., 1999.
\bibitem[Haefeli-Bleuer and Weibel(1988{\natexlab{a}})]{Haefeli-Bleuer1988}
Beatrice Haefeli-Bleuer and Ewald~R. Weibel.
\newblock Morphometry of the human pulmonary acinus.
\newblock \emph{The Anatomical Record}, 220\penalty0 (4):\penalty0 401--414,
1988{\natexlab{a}}.
\newblock URL \url{http://dx.doi.org/10.1002/ar.1092200410}.
\bibitem[Weibel(1963)]{Weibel1963}
Ewald~R Weibel.
\newblock \emph{Morphometry of the human lung}.
\newblock Springer-Verlag, Berlin, G\"{o}ttingen, etc., 1963.
\bibitem[Lynch(2010{\natexlab{b}})]{LungDiagram}
Patrick~J. Lynch.
\newblock Lungs diagram with internal detail, 2010{\natexlab{b}}.
\newblock URL
\url{http://en.wikipedia.org/wiki/File:Lungs_diagram_detailed.svg}.
\newblock [Online; 18.03.2010].
\bibitem[Massaro et~al.(1985)Massaro, Teich, Maxwell, Massaro, and
Whitney]{Massaro1985}
D.~Massaro, N.~Teich, S.~Maxwell, G.~D. Massaro, and P.~Whitney.
\newblock Postnatal development of alveoli. regulation and evidence for a
critical period in rats.
\newblock \emph{J Clin Invest}, 76\penalty0 (4):\penalty0 1297--1305, Oct 1985.
\newblock URL \url{http://dx.doi.org/10.1172/JCI112103}.
\bibitem[Ochs(2006)]{Ochs2006}
Matthias Ochs.
\newblock A brief update on lung stereology.
\newblock \emph{Journal of Microscopy}, 222\penalty0 (3):\penalty0 188--200,
2006.
\newblock URL \url{http://dx.doi.org/10.1111/j.1365-2818.2006.01587.x}.
\bibitem[Hsia et~al.(2010)Hsia, Hyde, Ochs, and Weibel]{Hsia2010}
Connie C.~W. Hsia, Dallas~M. Hyde, Matthias Ochs, and Ewald~R. Weibel.
\newblock {An Official Research Policy Statement of the American Thoracic
Society/European Respiratory Society: Standards for Quantitative Assessment
of Lung Structure}.
\newblock \emph{Am. J. Respir. Crit. Care Med.}, 181\penalty0 (4):\penalty0
394--418, 2010.
\newblock URL \url{http://dx.doi.org/10.1164/rccm.200809-1522ST}.
\bibitem[Hinterm{\"{u}}ller et~al.(2010)Hinterm{\"{u}}ller, Marone, Isenegger,
and Stampanoni]{Hintermueller2010}
C.~Hinterm{\"{u}}ller, F.~Marone, A.~Isenegger, and M.~Stampanoni.
\newblock {Image processing pipeline for synchrotron-radiation-based
tomographic microscopy}.
\newblock \emph{Journal of Synchrotron Radiation}, 17\penalty0 (4), Jul 2010.
\newblock URL \url{http://dx.doi.org/10.1107/S0909049510011830}.
\bibitem[Chapman et~al.(1983)Chapman, Cleese, Gilliam, Idle, Jones, and
Palin]{TheMeaningOfLife}
Graham Chapman, John Cleese, Terry Gilliam, Eric Idle, Terry Jones, and Michael
Palin.
\newblock {The Meaning of Life}.
\newblock Celandine Films, March 1983.
\newblock URL \url{http://is.gd/bpLvW}.
\bibitem[{Stampanoni} et~al.(2006){Stampanoni}, {Groso}, {Isenegger},
{Mikuljan}, {Chen}, {Bertrand}, {Henein}, {Betemps}, {Frommherz},
{B{\"{o}}hler}, {Meister}, {Lange}, and {Abela}]{Stampanoni2006a}
M.~{Stampanoni}, A.~{Groso}, A.~{Isenegger}, G.~{Mikuljan}, Q.~{Chen},
A.~{Bertrand}, S.~{Henein}, R.~{Betemps}, U.~{Frommherz}, P.~{B{\"{o}}hler},
D.~{Meister}, M.~{Lange}, and R.~{Abela}.
\newblock {Trends in synchrotron-based tomographic imaging: the SLS
experience}.
\newblock In \emph{Society of Photo-Optical Instrumentation Engineers (SPIE)
Conference Series}, volume 6318 of \emph{Society of Photo-Optical
Instrumentation Engineers (SPIE) Conference Series}, Aug. 2006.
\newblock URL \url{http://dx.doi.org/10.1117/12.679497}.
\bibitem[Frank(1942)]{Frank1942}
Gabriel Frank.
\newblock X-ray apparatus, May 1942.
\newblock URL \url{http://www.freepatentsonline.com/2281931.html}.
\bibitem[Hsieh(2003)]{Hsieh2003}
J.~Hsieh.
\newblock \emph{{Computed tomography: Principles, design, artifacts, and recent
advances}}.
\newblock SPIE press, 2003.
\newblock URL \url{http://books.google.com/books?id=JX__lLLXFHkC}.
\bibitem[Robb(2003)]{Robb2003}
W.L. Robb.
\newblock {Perspective on the first 10 years of the CT scanner industry}.
\newblock \emph{Academic Radiology}, 10\penalty0 (7):\penalty0 756--760, 2003.
\newblock URL \url{http://dx.doi.org/10.1016/S1076-6332(03)80121-6}.
\bibitem[Cormack(1963)]{Cormack1963}
AM~Cormack.
\newblock {Representation of a Function by Its Line Integrals, with Some
Radiological Applications}.
\newblock \emph{Journal of Applied Physics}, 34:\penalty0 2722, 1963.
\newblock URL \url{http://dx.doi.org/10.1063/1.1729798}.
\bibitem[Cormack(1979)]{Cormack1979}
AM~Cormack.
\newblock {Nobel lecture}, 1979.
\newblock URL
\url{http://nobelprize.org/nobel_prizes/medicine/laureates/1979/cormack-lecture.pdf}.
\bibitem[Hounsfield(1976{\natexlab{b}})]{Hounsfield1976}
EN) Hounsfield, Godfrey Newbold~(Newark.
\newblock Apparatus for examining objects by means of penetrating radiation,
February 1976{\natexlab{b}}.
\newblock URL \url{http://www.freepatentsonline.com/3940625.html}.
\bibitem[Grodzins(1983{\natexlab{a}})]{Grodzins1983}
L.~Grodzins.
\newblock {Optimum energies for x-ray transmission tomography of small
samples:: Applications of synchrotron radiation to computerized tomography
I}.
\newblock \emph{Nuclear Instruments and Methods in Physics Research},
206\penalty0 (3):\penalty0 541--545, 1983{\natexlab{a}}.
\newblock URL \url{http://dx.doi.org/10.1016/0167-5087(83)90393-9}.
\bibitem[Grodzins(1983{\natexlab{b}})]{Grodzins1983a}
L.~Grodzins.
\newblock {Critical absorption tomography of small samples:: Proposed
applications of synchrotron radiation to computerized tomography II}.
\newblock \emph{Nuclear Instruments and Methods in Physics Research},
206\penalty0 (3):\penalty0 547--552, 1983{\natexlab{b}}.
\newblock URL \url{http://dx.doi.org/10.1016/0167-5087(83)90394-0}.
\bibitem[Compton(1923)]{Compton1923}
Arthur~H. Compton.
\newblock A quantum theory of the scattering of x-rays by light elements.
\newblock \emph{Phys. Rev.}, 21\penalty0 (5):\penalty0 483--502, May 1923.
\newblock URL \url{http://ds.doi.org/10.1103/PhysRev.21.483}.
\bibitem[Stampanoni et~al.(2002)Stampanoni, Borchert, Wyss, Abela, Patterson,
Hunt, Vermeulen, and Ruegsegger]{Stampanoni2002}
Marco Stampanoni, Gunther Borchert, Peter Wyss, Rafael Abela, Bruce Patterson,
Steven Hunt, Detlef Vermeulen, and Peter Ruegsegger.
\newblock High resolution x-ray detector for synchrotron-based microtomography.
\newblock \emph{Nuclear Instruments and Methods in Physics Research Section A:
Accelerators, Spectrometers, Detectors and Associated Equipment},
491\penalty0 (1-2):\penalty0 291--301, September 2002.
\newblock URL \url{http://dx.doi.org/10.1016/S0168-9002(02)01167-1}.
\bibitem[Johns and Cunningham(1983)]{Johns1983}
Harold~Elford Johns and John~Robert Cunningham.
\newblock \emph{Physics of Radiology, Fourth Edition}.
\newblock Charles C. Thomas Publisher, 4 sub edition, 2 1983.
\newblock ISBN 9780398046699.
\newblock URL \url{http://amazon.com/o/ASIN/0398046697/}.
\bibitem[Berger et~al.(1998)Berger, Hubbell, Seltzer, Chang, Coursey, Sukumar,
and Zucker]{XCOM}
MJ~Berger, JH~Hubbell, SM~Seltzer, J.~Chang, JS~Coursey, R.~Sukumar, and
DS~Zucker.
\newblock {XCOM: photon cross sections database}.
\newblock \emph{NIST Standard Reference Database}, 8:\penalty0 87--3597, 1998.
\newblock URL \url{http://physics.nist.gov/PhysRefData/Xcom/Text/XCOM.html}.
\bibitem[Kak and Slaney(1988)]{Kak2002}
Avinash~C. Kak and Malcolm Slaney.
\newblock \emph{{Principles of computerized tomographic imaging}}.
\newblock IEEE Press, 1988.
\newblock URL \url{http://www.slaney.org/pct/}.
\bibitem[Radon(1917)]{Radon1917}
Johann Radon.
\newblock {{\"{U}}ber die Bestimmung von Funktionen durch ihre Integralwerte
l{\"{a}}ngs gewisser Mannigfaltigkeiten}.
\newblock \emph{Berichte S{\"{a}}chsische Akademie der Wissenschaften},
69:\penalty0 262--277, 1917.
\bibitem[Shannon(1949)]{Shannon1949}
CE~Shannon.
\newblock {Communication in the presence of noise}.
\newblock \emph{Proceedings of the IRE}, 37\penalty0 (1):\penalty0 10--21,
1949.
\bibitem[Stampanoni(2002)]{Stampanoni2002a}
Marco Stampanoni.
\newblock \emph{A novel approach towards hard X-ray submicrometer computer
tomography with synchrotron radiation}.
\newblock PhD thesis, ETH Z\"{u}rich, 2002.
\newblock URL \url{http://dx.doi.org/10.3929/ethz-a-004494073}.
\bibitem[Margaritondo(2002)]{Margaritondo2002}
Giorgio Margaritondo.
\newblock \emph{Elements of Synchrotron Light: For Biology, Chemistry, and
Medical Research (Physics)}.
\newblock Oxford University Press, USA, 2002.
\newblock ISBN 0198509316.
\bibitem[{SLS Web Site}(2010)]{wwwsls}
{SLS Web Site}.
\newblock {Description}, 2010.
\newblock URL \url{http://sls.web.psi.ch/}.
\newblock [Online; accessed 15-February-2010].
\bibitem[Wikipedia(2009)]{wiki:dipolemagnet}
Wikipedia.
\newblock {Dipole magnet --- Wikipedia{,} The Free Encyclopedia}, 2009.
\newblock URL
\url{http://en.wikipedia.org/w/index.php?title=Dipole_magnet&oldid=332257500}.
\newblock [Online; accessed 15-April-2010].
\bibitem[Attwood(2007)]{Attwood2007}
David Attwood.
\newblock \emph{Soft X-Rays and Extreme Ultraviolet Radiation: Principles and
Applications}.
\newblock Cambridge University Press, 2007.
\newblock ISBN 9780521029971.
\bibitem[Coen and Coen(1998)]{TheBigLebowski}
Joel Coen and Ethan Coen.
\newblock {The Big Lebowski}.
\newblock Polygram Filmed Entertainment, March 1998.
\newblock URL \url{http://www.imdb.com/title/tt0118715/}.
\bibitem[Massaro and Massaro(1992)]{Massaro1992}
G.~D. Massaro and D.~Massaro.
\newblock Formation of alveoli in rats: postnatal effect of prenatal
dexamethasone.
\newblock \emph{Am J Physiol}, 263\penalty0 (1 Pt 1):\penalty0 L37--L41, Jul
1992.
\bibitem[Stampanoni et~al.(2007)Stampanoni, Groso, Isenegger, Mikuljan, Chen,
Meister, Lange, Betemps, Henein, and Abela]{Stampanoni2007}
M.~Stampanoni, A.~Groso, A.~Isenegger, G.~Mikuljan, Q.~Chen, D.~Meister,
M.~Lange, R.~Betemps, S.~Henein, and R.~Abela.
\newblock {TOMCAT: A beamline for TOmographic Microscopy and Coherent rAdiology
experimenTs}.
\newblock \emph{AIP Conference Proceedings}, 879\penalty0 (1):\penalty0
848--851, 2007.
\newblock URL \url{http://dx.doi.org/10.1063/1.2436193}.
\bibitem[Tschanz et~al.(2003)Tschanz, Makanya, Haenni, and Burri]{Tschanz2003}
Stefan~A Tschanz, Andrew~N Makanya, Beat Haenni, and Peter~H Burri.
\newblock Effects of neonatal high-dose short-term glucocorticoid treatment on
the lung: a morphologic and morphometric study in the rat.
\newblock \emph{Pediatr Res}, 53\penalty0 (1):\penalty0 72--80, Jan 2003.
\newblock URL \url{http://dx.doi.org/10.1203/01.PDR.0000041513.93422.C8}.
\bibitem[Aykac et~al.(2003)Aykac, Hoffman, McLennan, and Reinhardt]{Aykac2003}
D.~Aykac, E.A. Hoffman, G.~McLennan, and J.M. Reinhardt.
\newblock {Segmentation and analysis of the human airway tree from
three-dimensional X-ray CT images}.
\newblock \emph{IEEE transactions on medical imaging}, 22\penalty0
(8):\penalty0 940--950, 2003.
\newblock URL \url{http://dx.doi.org/10.1109/TMI.2003.815905}.
\bibitem[Chaturvedi and Lee(2005)]{Chaturvedi2005}
A.~Chaturvedi and Z.~Lee.
\newblock {Three-dimensional segmentation and skeletonization to build an
airway tree data structure for small animals}.
\newblock \emph{Physics in Medicine and Biology}, 50\penalty0 (7):\penalty0
1405--1419, 2005.
\newblock URL \url{http://dx.doi.org/10.1088/0031-9155/50/7/005}.
\bibitem[Cheng et~al.(2007)Cheng, Nilufar, Flores-Mir, and Basu]{Cheng2007}
I.~Cheng, S.~Nilufar, C.~Flores-Mir, and A.~Basu.
\newblock {Airway segmentation and measurement in CT images}.
\newblock In \emph{Engineering in Medicine and Biology Society, 2007. EMBS
2007. 29th Annual International Conference of the IEEE}, pages 795--799,
2007.
\bibitem[Chooi and Morcos(2004)]{Chooi2004}
WK~Chooi and SK~Morcos.
\newblock {High resolution volume imaging of airways and lung parenchyma with
multislice CT}.
\newblock \emph{British Journal of Radiology}, 77\penalty0 (Special Issue
1):\penalty0 S98, 2004.
\newblock URL \url{http://dx.doi.org/10.1259/bjr/27596725}.
\bibitem[Dame~Carroll et~al.(2006)Dame~Carroll, Chandra, Jones, Berend,
Magnussen, and King]{Dame2006}
JR~Dame~Carroll, A.~Chandra, AS~Jones, N.~Berend, JS~Magnussen, and GG~King.
\newblock {Airway dimensions measured from micro-computed tomography and
high-resolution computed tomography}.
\newblock \emph{European Respiratory Journal}, 28\penalty0 (4):\penalty0 712,
2006.
\newblock URL \url{http://dx.doi.org/10.1183/09031936.06.00012405}.
\bibitem[Driehuys et~al.(2007)Driehuys, Walker, Pollaro, Cofer, Mistry,
Schwartz, and Johnson]{Driehuys2007}
B.~Driehuys, J.~Walker, J.~Pollaro, G.P. Cofer, N.~Mistry, D.~Schwartz, and
G.A. Johnson.
\newblock {\textsuperscript{3}He MRI in mouse models of asthma}.
\newblock \emph{Magnetic resonance in medicine: official journal of the Society
of Magnetic Resonance in Medicine/Society of Magnetic Resonance in Medicine},
58\penalty0 (5):\penalty0 893, 2007.
\newblock URL \url{http://dx.doi.org/10.1002/mrm.21306}.
\bibitem[Kvistedal et~al.(2006)Kvistedal, Tawhai, Hunter, and
Nielsen]{Kvistedal2006}
YA~Kvistedal, M.~Tawhai, P.~Hunter, and PMF Nielsen.
\newblock {High resolution 3D imaging of lung tissue using structured light
microscopy}.
\newblock In \emph{Engineering in Medicine and Biology Society, 2005. IEEE-EMBS
2005. 27th Annual International Conference of the}, pages 193--195. IEEE,
2006.
\bibitem[Ley-Zaporozhan et~al.(2008)Ley-Zaporozhan, Ley, and Kauczor]{Ley2008}
J.~Ley-Zaporozhan, S.~Ley, and H.U. Kauczor.
\newblock {Morphological and functional imaging in COPD with CT and MRI:
present and future}.
\newblock \emph{European Radiology}, 18\penalty0 (3):\penalty0 510--521, 2008.
\newblock URL \url{http://dx.doi.org/10.1007/s00330-007-0772-1}.
\bibitem[Scadeng et~al.(2007)Scadeng, Rossiter, Dubowitz, and
Breen]{Scadeng2007}
M.~Scadeng, H.B. Rossiter, D.J. Dubowitz, and E.C. Breen.
\newblock {High-resolution three-dimensional magnetic resonance imaging of
mouse lung in situ}.
\newblock \emph{Investigative radiology}, 42\penalty0 (1):\penalty0 50, 2007.
\newblock URL \url{http://dx.doi.org/10.1097/01.rli.0000248850.13221.61}.
\bibitem[Sera et~al.(2003)Sera, Fujioka, Yokota, Makinouchi, Himeno, Schroter,
and Tanishita]{Sera2003}
T.~Sera, H.~Fujioka, H.~Yokota, A.~Makinouchi, R.~Himeno, R.C. Schroter, and
K.~Tanishita.
\newblock {Three-dimensional visualization and morphometry of small airways
from microfocal X-ray computed tomography}.
\newblock \emph{Journal of biomechanics}, 36\penalty0 (11):\penalty0
1587--1594, 2003.
\newblock URL \url{http://dx.doi.org/10.1016/S0021-9290(03)00179-9}.
\bibitem[Tawhai et~al.(2004)Tawhai, Hunter, Tschirren, Reinhardt, McLennan, and
Hoffman]{Tawhai2004}
M.H. Tawhai, P.~Hunter, J.~Tschirren, J.~Reinhardt, G.~McLennan, and E.A.
Hoffman.
\newblock {CT-based geometry analysis and finite element models of the human
and ovine bronchial tree}.
\newblock \emph{Journal of Applied Physiology}, 97\penalty0 (6):\penalty0 2310,
2004.
\newblock URL \url{http://dx.doi.org/10.1152/japplphysiol.00520.2004}.
\bibitem[van Ertbruggen et~al.(2005)van Ertbruggen, Hirsch, and
Paiva]{VanErtbruggen2005}
C.~van Ertbruggen, C.~Hirsch, and M.~Paiva.
\newblock {Anatomically based three-dimensional model of airways to simulate
flow and particle transport using computational fluid dynamics}.
\newblock \emph{Journal of Applied Physiology}, 98\penalty0 (3):\penalty0 970,
2005.
\newblock URL \url{http://dx.doi.org/10.1152/japplphysiol.00795.2004}.
\bibitem[Gehr et~al.(1978)Gehr, Bachofen, and Weibel]{Gehr1978}
Peter Gehr, Marianne Bachofen, and Ewald~R. Weibel.
\newblock The normal human lung - ultrastructure and morphometric estimation of
diffusion capacity.
\newblock \emph{Respiration Physiology}, 32:\penalty0 121--140, Feb. 1978.
\bibitem[Cookson et~al.(1993)Cookson, Davies, Entwistle, and
Whimster]{Cookson1993}
MJ~Cookson, CJ~Davies, A.~Entwistle, and WF~Whimster.
\newblock {The microanatomy of the alveolar duct of the human lung imaged by
confocal microscpy and visualised with computer-based 3D reconstruction}.
\newblock \emph{Computerized medical imaging and graphics}, 17\penalty0
(3):\penalty0 201--210, 1993.
\newblock URL \url{http://dx.doi.org/10.1016/0895-6111(93)90044-N}.
\bibitem[Berend et~al.(1991)Berend, Rynell, and Ward]{Berend1991}
N.~Berend, AC~Rynell, and HE~Ward.
\newblock {Structure of a human pulmonary acinus.}
\newblock \emph{British Medical Journal}, 46\penalty0 (2):\penalty0 117, 1991.
\newblock URL \url{http://dx.doi.org/10.1136/thx.46.2.117}.
\bibitem[Honda et~al.(2002)Honda, Ota, Arai, Hayama, Fujimoto, Yamazaki, and
Haniuda]{Honda2002}
T.~Honda, H.~Ota, K.~Arai, M.~Hayama, K.~Fujimoto, Y.~Yamazaki, and M.~Haniuda.
\newblock {Three-dimensional analysis of alveolar structure in usual
interstitial pneumonia}.
\newblock \emph{Virchows Archiv}, 441\penalty0 (1):\penalty0 47--52, 2002.
\newblock URL \url{http://dx.doi.org/10.1007/s00428-001-0567-8}.
\bibitem[Litzlbauer et~al.(2006)Litzlbauer, Neuhaeuser, Moell, Greschus,
Breithecker, Franke, Kummer, and Rau]{Litzlbauer2006}
H.D. Litzlbauer, C.~Neuhaeuser, A.~Moell, S.~Greschus, A.~Breithecker, F.E.
Franke, W.~Kummer, and W.S. Rau.
\newblock {Three-dimensional imaging and morphometric analysis of alveolar
tissue from microfocal X-ray-computed tomography}.
\newblock \emph{American Journal of Physiology- Lung Cellular and Molecular
Physiology}, 291\penalty0 (3):\penalty0 L535, 2006.
\newblock URL \url{http://dx.doi.org/10.1152/ajplung.00088.2005}.
\bibitem[Mercer et~al.(1987)Mercer, Laco, and Crapo]{Mercer1987}
RR~Mercer, JM~Laco, and JD~Crapo.
\newblock {Three-dimensional reconstruction of alveoli in the rat lung for
pressure-volume relationships}.
\newblock \emph{Journal of Applied Physiology}, 62\penalty0 (4):\penalty0 1480,
1987.
\bibitem[Randell et~al.(1989)Randell, Mercer, and Young]{Randell1989}
SH~Randell, RR~Mercer, and SL~Young.
\newblock {Postnatal growth of pulmonary acini and alveoli in normal and
oxygen-exposed rats studied by serial section reconstructions}.
\newblock \emph{American Journal of Anatomy}, 186\penalty0 (1):\penalty0
55--68, 1989.
\newblock URL \url{http://dx.doi.org/10.1002/aja.1001860105}.
\bibitem[Stelter et~al.(1966)Stelter, Hansen, and Fairchild]{Stelter1966}
GP~Stelter, JE~Hansen, and DG~Fairchild.
\newblock {A three-dimensional reconstruction of lung parenchyma.}
\newblock \emph{The American review of respiratory disease}, 94\penalty0
(1):\penalty0 79, 1966.
\bibitem[Watz et~al.(2005)Watz, Breithecker, Rau, and Kriete]{Watz2005}
Henrik Watz, Andreas Breithecker, Wigbert~Stephan Rau, and Andres Kriete.
\newblock {Micro-CT of the Human Lung: Imaging of Alveoli and Virtual Endoscopy
of an Alveolar Duct in a Normal Lung and in a Lung with Centrilobular
Emphysema--Initial Observations}.
\newblock \emph{Radiology}, 236\penalty0 (3):\penalty0 1053--1058, 2005.
\newblock URL \url{http://dx.doi.org/10.1148/radiol.2363041142}.
\bibitem[Schittny et~al.(1997)Schittny, Paulsson, Vallan, Burri, Kedei, and
Aeschlimann]{Schittny1997}
J.C. Schittny, M.~Paulsson, C.~Vallan, P.~H. Burri, N.~Kedei, and
D.~Aeschlimann.
\newblock Protein cross-linking mediated by tissue transglutaminase correlates
with the maturation of extracellular matrices during lung development.
\newblock \emph{Am J Respir Cell Mol Biol}, 17\penalty0 (3):\penalty0 334--343,
Sep 1997.
\bibitem[Schittny et~al.(1998)Schittny, Djonov, Fine, and Burri]{Schittny1998}
J.C. Schittny, V.~Djonov, L.~Fine, and P.H. Burri.
\newblock Programmed cell death contributes to postnatal lung development.
\newblock \emph{American Journal of Respiratory Cell and Molecular Biology},
18\penalty0 (6):\penalty0 786--793, June 1998.
\newblock URL
\url{http://ajrcmb.atsjournals.org/cgi/content/abstract/18/6/786}.
\bibitem[Scherle(1970)]{Scherle1970}
W.~Scherle.
\newblock A simple method for volumetry of organs in quantitative stereology.
\newblock \emph{Mikroskopie}, 26\penalty0 (1):\penalty0 57--60, Jun 1970.
\bibitem[Ballard and Brown(1982)]{Ballard1982}
D.H. Ballard and C.M. Brown.
\newblock {Computer Vision Prentice-Hall}.
\newblock \emph{Englewood Cliffs, NJ, USA}, 1982.
\bibitem[ER(1990)]{Davies1990}
Davies ER.
\newblock \emph{{Machine vision: theory, algorithms, practicalities}}.
\newblock Academics Press, 1990.
\bibitem[Gonzalez and Richard(1992)]{Gonzalez1992}
R.C. Gonzalez and E.~Richard.
\newblock {Woods, Digital image processing}.
\newblock \emph{Addison Wisley}, 1992.
\bibitem[Schneiders(1996)]{Schneiders1996}
R~Schneiders.
\newblock A grid-based algorithm for the generation of hexahedral element
meshes.
\newblock \emph{Engineering with Computers}, 12\penalty0 (3-4):\penalty0
168--177, 1996.
\newblock URL \url{http://dx.doi.org/10.1007/BF01198732}.
\bibitem[Bathe(1995)]{Bathe1995}
KJ~Bathe.
\newblock {Finite element procedures. 1995}, 1995.
\bibitem[Freitag and Plassmann(2000)]{Freitag2000}
L.A. Freitag and P.~Plassmann.
\newblock {Local optimization-based simplicial mesh untangling and
improvement}.
\newblock \emph{International Journal for Numerical Methods in Engineering},
49\penalty0 (1):\penalty0 109--125, 2000.
\bibitem[Roth-Kleiner et~al.(2005)Roth-Kleiner, Berger, Tarek, Burri, and
Schittny]{Roth2005}
M.~Roth-Kleiner, T.M. Berger, M.R. Tarek, P.H. Burri, and J.C. Schittny.
\newblock {Neonatal dexamethasone induces premature microvascular maturation of
the alveolar capillary network}.
\newblock \emph{Developmental Dynamics}, 233\penalty0 (4):\penalty0 1261--1271,
2005.
\newblock URL \url{http://dx.doi.org/10.1002/dvdy.20447}.
\bibitem[Boyden(1971)]{Boyden1971}
E.A. Boyden.
\newblock {The structure of the pulmonary acinus in a child of six years and
eight months}.
\newblock \emph{American Journal of Anatomy}, 132\penalty0 (3):\penalty0
275--299, 1971.
\bibitem[Haefeli-Bleuer and Weibel(1988{\natexlab{b}})]{Haefeli1988}
B.~Haefeli-Bleuer and E.R. Weibel.
\newblock {Morphometry of the human pulmonary acinus}.
\newblock \emph{The Anatomical Record}, 220\penalty0 (4):\penalty0 401--414,
1988{\natexlab{b}}.
\bibitem[Schreider and Raabe(1981)]{Schreider1981}
J.P. Schreider and O.G. Raabe.
\newblock {Structure of the human respiratory acinus}.
\newblock \emph{American Journal of Anatomy}, 162\penalty0 (3):\penalty0
221--232, 1981.
\bibitem[Hansen and Ampaya(1975)]{Hansen1975}
JE~Hansen and EP~Ampaya.
\newblock {Human air space shapes, sizes, areas, and volumes}.
\newblock \emph{Journal of Applied Physiology}, 38\penalty0 (6):\penalty0 990,
1975.
\bibitem[Hansen et~al.(1975)Hansen, Ampaya, Bryant, and Navin]{Hansen1975a}
JE~Hansen, EP~Ampaya, GH~Bryant, and JJ~Navin.
\newblock {Branching pattern of airways and air spaces of a single human
terminal bronchiole}.
\newblock \emph{Journal of Applied Physiology}, 38\penalty0 (6):\penalty0 983,
1975.
\bibitem[Parker et~al.(1971)Parker, Horsfield, and Cumming]{Parker1971}
H.~Parker, K.~Horsfield, and G.~Cumming.
\newblock {Morphology of distal airways in the human lung}.
\newblock \emph{J Appl Physiol}, 31\penalty0 (3):\penalty0 386--391, 1971.
\bibitem[Hoffman and Gefter(1990)]{Hoffman1990}
EA~Hoffman and WB~Gefter.
\newblock {Multimodality imaging of the upper airway: MRI, MR spectroscopy, and
ultrafast X-ray CT.}
\newblock \emph{Progress in clinical and biological research}, 345:\penalty0
291, 1990.
\bibitem[Sundaramoorthy et~al.(1995)Sundaramoorthy, Hoford, Hoffman, and
Higgins]{Sundaramoorthy1995}
G.~Sundaramoorthy, JD~Hoford, EA~Hoffman, and WE~Higgins.
\newblock {Impromptu: a system for automatic 3D medical image-analysis}.
\newblock \emph{Computerized medical imaging and graphics}, 19\penalty0
(1):\penalty0 131--143, 1995.
\newblock URL \url{http://dx.doi.org/10.1016/0895-6111(94)00042-5}.
\bibitem[Hanna et~al.(2005)Hanna, Saltzman, Mukai, Chen, Sasse, Milliken, Guo,
Jung, Colt, and Brenner]{Hanna2005}
N.~Hanna, D.~Saltzman, D.~Mukai, Z.~Chen, S.~Sasse, J.~Milliken, S.~Guo,
W.~Jung, H.~Colt, and M.~Brenner.
\newblock {Two-dimensional and 3-dimensional optical coherence tomographic
imaging of the airway, lung, and pleura}.
\newblock \emph{The Journal of Thoracic and Cardiovascular Surgery},
129\penalty0 (3):\penalty0 615--622, 2005.
\newblock URL \url{http://dx.doi.org/10.1016/j.jtcvs.2004.10.022}.
\bibitem[van Beek and Hoffman(2008)]{VanBeek2008}
E.J.R. van Beek and E.A. Hoffman.
\newblock {Functional imaging: CT and MRI}.
\newblock \emph{Clinics in chest medicine}, 29\penalty0 (1):\penalty0 195--216,
2008.
\newblock URL \url{http://dx.doi.org/10.1016/j.ccm.2007.12.003}.
\bibitem[Bonse and Busch(1996)]{Bonse1996}
U.~Bonse and F.~Busch.
\newblock {X-ray computed microtomography ($\mu$CT) using synchrotron radiation
(SR)}.
\newblock \emph{Progress in biophysics and molecular biology}, 65\penalty0
(1-2):\penalty0 133--169, 1996.
\bibitem[Pena et~al.(2007)Pena, Fabre, Debarre, Marchal-Somme, Crestani,
Martin, Beaurepaire, and Schanne-Klein]{Pena2007}
A.M. Pena, A.~Fabre, D.~Debarre, J.~Marchal-Somme, B.~Crestani, J.L. Martin,
E.~Beaurepaire, and M.C. Schanne-Klein.
\newblock {Three-dimensional investigation and scoring of extracellular matrix
remodeling during lung fibrosis using multiphoton microscopy}.
\newblock \emph{Microscopy Research and Technique}, 70\penalty0 (2):\penalty0
162, 2007.
\newblock URL \url{http://dx.doi.org/10.1002/jemt.20400}.
\bibitem[Whimster(1970)]{Whimster1970}
WF~Whimster.
\newblock {The microanatomy of the alveolar duct system}.
\newblock \emph{British Medical Journal}, 25\penalty0 (2):\penalty0 141, 1970.
\newblock URL \url{http://dx.doi.org/10.1136/thx.25.2.141}.
\bibitem[Brown et~al.(1991)Brown, Herold, Hirshman, Zerhouni, and
Mitzner]{Brown1991}
RH~Brown, CJ~Herold, CA~Hirshman, EA~Zerhouni, and W.~Mitzner.
\newblock {In vivo measurements of airway reactivity using high-resolution
computed tomography.}
\newblock \emph{The American review of respiratory disease}, 144\penalty0
(1):\penalty0 208, 1991.
\bibitem[McNamara et~al.(1992)McNamara, Muller, Okazawa, Arntorp, Wiggs, and
Pare]{Mcnamara1992}
AE~McNamara, NL~Muller, M.~Okazawa, J.~Arntorp, BR~Wiggs, and PD~Pare.
\newblock {Airway narrowing in excised canine lungs measured by high-resolution
computed tomography}.
\newblock \emph{Journal of Applied Physiology}, 73\penalty0 (1):\penalty0 307,
1992.
\bibitem[Higgins et~al.(1998)Higgins, Ramaswamy, Swift, McLennan, and
Hoffman]{Higgins1998}
WE~Higgins, K.~Ramaswamy, RD~Swift, G.~McLennan, and EA~Hoffman.
\newblock {Virtual bronchoscopy for three--dimensional pulmonary image
assessment: state of the art and future needs.}
\newblock \emph{Radiographics}, 18\penalty0 (3):\penalty0 761, 1998.
\bibitem[Park et~al.(1998)Park, Hoffman, and Sonka]{Park1998}
W.~Park, E.A. Hoffman, and M.~Sonka.
\newblock {Segmentation of intrathoracic airway trees: a fuzzy logic approach}.
\newblock \emph{IEEE Transactions on Medical Imaging}, 17\penalty0
(4):\penalty0 489--497, 1998.
\newblock URL \url{http://dx.doi.org/10.1109/42.730394}.
\bibitem[Reinhardt et~al.(1997)Reinhardt, D'Souza, and Hoffman]{Reinhardt1997}
JM~Reinhardt, N.~D'Souza, and EA~Hoffman.
\newblock {Accurate measurement of intrathoracic airways}.
\newblock \emph{IEEE transactions on medical imaging}, 16\penalty0
(6):\penalty0 820--827, 1997.
\newblock URL \url{http://dx.doi.org/10.1109/42.650878}.
\bibitem[Sauret et~al.(2002)Sauret, Halson, Brown, Fleming, and
Bailey]{Sauret2002}
V.~Sauret, PM~Halson, IW~Brown, JS~Fleming, and AG~Bailey.
\newblock {Study of the three-dimensional geometry of the central conducting
airways in man using computed tomographic (CT) images}.
\newblock \emph{Journal of Anatomy}, 200\penalty0 (2):\penalty0 123, 2002.
\newblock URL \url{http://dx.doi.org/10.1046/j.0021-8782.2001.00018.x}.
\bibitem[Wood et~al.(1995{\natexlab{a}})Wood, Hoford, Hoffman, Zerhouni, and
Mitzner]{Wood1995}
SA~Wood, JD~Hoford, EA~Hoffman, E.~Zerhouni, and W.~Mitzner.
\newblock {A method for measurement of cross sectional area, segment length,
and branching angle of airway tree structures in situ}.
\newblock \emph{Computerized medical imaging and graphics}, 19\penalty0
(1):\penalty0 145--152, 1995{\natexlab{a}}.
\newblock URL \url{http://dx.doi.org/10.1016/0895-6111(94)00034-4}.
\bibitem[Wood et~al.(1995{\natexlab{b}})Wood, Zerhouni, Hoford, Hoffman, and
Mitzner]{Wood1995a}
SA~Wood, EA~Zerhouni, JD~Hoford, EA~Hoffman, and W.~Mitzner.
\newblock {Measurement of three-dimensional lung tree structures by using
computed tomography}.
\newblock \emph{Journal of Applied Physiology}, 79\penalty0 (5):\penalty0 1687,
1995{\natexlab{b}}.
\bibitem[Langheinrich et~al.(2004{\natexlab{a}})Langheinrich, Bohle,
Breithecker, Lommel, and Rau]{Langheinrich2004}
A.~C. Langheinrich, R.~M. Bohle, A.~Breithecker, D.~Lommel, and W.~S. Rau.
\newblock Micro-computed tomography of the vasculature in parenchymal organs
and lung alveoli.
\newblock \emph{Rofo}, 176\penalty0 (9):\penalty0 1219--1225, Sep
2004{\natexlab{a}}.
\newblock URL \url{http://dx.doi.org/10.1055/s-2004-813403}.
\bibitem[IIda(2003)]{Iida2003}
Atsuo IIda.
\newblock {X-ray analysis by synchrotron radiation-X-ray fluorescence analysis
and XAFS}.
\newblock \emph{Biomed Res}, 14\penalty0 (3):\penalty0 188--195, 2003.
\bibitem[Jorgensen et~al.(1998)Jorgensen, Demirkaya, and Ritman]{Jorgensen1998}
S.M. Jorgensen, O.~Demirkaya, and E.L. Ritman.
\newblock {Three-dimensional imaging of vasculature and parenchyma in intact
rodent organs with X-ray micro-CT}.
\newblock \emph{American Journal of Physiology- Heart and Circulatory
Physiology}, 275\penalty0 (3):\penalty0 H1103, 1998.
\bibitem[Jheon et~al.(2006)Jheon, Youn, Kim, Choi, and Kim]{Jheon2006}
S.~Jheon, H.S. Youn, H.T. Kim, G.H. Choi, and J.K. Kim.
\newblock {High-resolution X-ray refraction imaging of rat lung and
histological correlations}.
\newblock \emph{Microscopy research and technique}, 69\penalty0 (8):\penalty0
656--659, 2006.
\newblock URL \url{http://dx.doi.org/10.1002/jemt.20335}.
\bibitem[Monfraix et~al.(2005)Monfraix, Bayat, Porra, Berruyer, Nemoz,
Thomlinson, Suortti, and Sovij\"{a}rvi]{Monfraix2005}
S.~Monfraix, S.~Bayat, L.~Porra, G.~Berruyer, C.~Nemoz, W.~Thomlinson,
P.~Suortti, and A.R.A. Sovij\"{a}rvi.
\newblock {Quantitative measurement of regional lung gas volume by synchrotron
radiation computed tomography}.
\newblock \emph{Physics in medicine \& biology(Print)}, 50\penalty0
(1):\penalty0 1--11, 2005.
\newblock URL \url{http://dx.doi.org/10.1088/0031-9155/50/1/001}.
\bibitem[Sera et~al.(2007)Sera, Uesugi, Himeno, and Yagi]{Sera2007}
T.~Sera, K.~Uesugi, R.~Himeno, and N.~Yagi.
\newblock {Small airway changes in healthy and ovalbumin-treated mice during
quasi-static lung inflation}.
\newblock \emph{Respiratory Physiology \& Neurobiology}, 156\penalty0
(3):\penalty0 304--311, 2007.
\newblock URL \url{http://dx.doi.org/10.1016/j.resp.2006.11.006}.
\bibitem[Sera et~al.(2005)Sera, Uesugi, and Yagi]{Sera2005}
T.~Sera, K.~Uesugi, and N.~Yagi.
\newblock {Morphometric deformations of small airways and alveoli under
quasi-static inflation process}.
\newblock \emph{Journal of PHYSIOLOGICAL ANTHROPOLOGY and Applied Human
Science}, 24\penalty0 (4):\penalty0 465--468, 2005.
\newblock URL \url{http://dx.doi.org/10.2114/jpa.24.465}.
\bibitem[Ikura et~al.(2004)Ikura, Shimizu, Ikezoe, Nagareda, and
Yagi]{Ikura2004}
H.~Ikura, K.~Shimizu, J.~Ikezoe, T.~Nagareda, and N.~Yagi.
\newblock {In vitro evaluation of normal and abnormal lungs with
ultra-high-resolution CT}.
\newblock \emph{Journal of Thoracic Imaging}, 19\penalty0 (1):\penalty0 8,
2004.
\bibitem[Tschanz and Burri(2002)]{Tschanz2002}
Stefan~A Tschanz and Peter~H Burri.
\newblock A new approach to detect structural differences in lung parenchyma
using digital image analysis.
\newblock \emph{Experimental Lung Research}, 28\penalty0 (6):\penalty0
457--471, September 2002.
\newblock URL \url{http://dx.doi.org/10.1080/01902140290096719}.
\bibitem[Luyet et~al.(2002)Luyet, Burri, and Schittny]{Luyet2002}
Cedric Luyet, Peter~H Burri, and Johannes~C Schittny.
\newblock {Suppression of cell proliferation and programmed cell death by
dexamethasone during postnatal lung development}.
\newblock \emph{American Journal of Physiology- Lung Cellular and Molecular
Physiology}, 282\penalty0 (3):\penalty0 477--483, 2002.
\newblock URL \url{http://dx.doi.org/10.1152/ajplung.00406.2000}.
\bibitem[Shepp and Logan(1974)]{Shepp1974}
LA~Shepp and BF~Logan.
\newblock {The Fourier reconstruction of a head section}.
\newblock \emph{IEEE Trans. Nucl. Sci}, 21\penalty0 (1):\penalty0 21--43, 1974.
\bibitem[{Dowd} et~al.(1999){Dowd}, {Campbell}, {Marr}, {Nagarkar}, {Tipnis},
{Axe}, and {Siddons}]{Dowd1999}
B.~A. {Dowd}, G.~H. {Campbell}, R.~B. {Marr}, V.~V. {Nagarkar}, S.~V. {Tipnis},
L.~{Axe}, and D.~P. {Siddons}.
\newblock {Developments in synchrotron x-ray computed microtomography at the
National Synchrotron Light Source}.
\newblock \emph{SPIE Developments in X-Ray Tomography II, Denver, CO (US),
07/18/1999--07/23/1999}, 3772:\penalty0 224--236, September 1999.
\newblock URL \url{http://dx.doi.org/10.1117/12.363725}.
\bibitem[Marone et~al.(2008)Marone, Hinterm\"{u}ller, Geus, and
Stampanoni]{Marone2008}
Federica Marone, Christoph Hinterm\"{u}ller, Roman Geus, and Marco Stampanoni.
\newblock {Towards real-time tomography: Fast reconstruction algorithms and GPU
implementation}.
\newblock In \emph{IEEE Nuclear Science Symposium Conference Record, 2008.
NSS'08}, pages 555--561. IEEE, 2008.
\bibitem[Otsu(1979)]{Otsu1979}
Nobuyuki Otsu.
\newblock {A threshold selection method from gray-level histograms}.
\newblock \emph{IEEE Transactions on Systems, Man, and Cybernetics}, 9\penalty0
(1):\penalty0 62--66, 1979.
\bibitem[Zucker(1976)]{Zucker1976}
S.W. Zucker.
\newblock {Region growing: Childhood and adolescence}.
\newblock \emph{Computer graphics and image processing}, 5\penalty0
(3):\penalty0 382--399, 1976.
\bibitem[Danielsson(1980)]{Danielsson1980}
P.E. Danielsson.
\newblock {Euclidean distance mapping}.
\newblock \emph{Computer Graphics and image processing}, 14\penalty0
(227-248):\penalty0 6--8, 1980.
\bibitem[Kohn(1893)]{Kohn1893}
Hans~Nathan Kohn.
\newblock {Zur Histologie der indurirenden fibrin\"{o}sen Pneumonie}.
\newblock \emph{M\"{u}nchener Medicinische Wochenschrift}, 40:\penalty0 42--45,
1893.
\bibitem[Van~Meir(1991)]{Vanmeir1991}
F.~Van~Meir.
\newblock {The alveolar pores of Kohn in young postnatal rat lungs and their
relation with type II pneumocytes.}
\newblock \emph{Histology and histopathology}, 6\penalty0 (1):\penalty0 55,
1991.
\bibitem[Wikipedia(2010{\natexlab{b}})]{Zim}
Wikipedia.
\newblock {Invader Zim --- Wikipedia{,} The Free Encyclopedia},
2010{\natexlab{b}}.
\newblock URL
\url{http://en.wikipedia.org/w/index.php?title=Invader_Zim&oldid=359199292}.
\newblock [Online; accessed 29-April-2010].
\bibitem[Martone et~al.(2002)Martone, Gupta, Wong, Qian, Sosinsky,
Lud{\"a}scher, and Ellisman]{Martone2002}
Maryann~E. Martone, Amarnath Gupta, Mona Wong, Xufei Qian, Gina Sosinsky,
Bertram Lud{\"a}scher, and Mark~H. Ellisman.
\newblock A cell-centered database for electron tomographic data.
\newblock \emph{Journal of Structural Biology}, 138\penalty0 (1-2):\penalty0
145 -- 155, 2002.
\newblock ISSN 1047-8477.
\newblock URL \url{http://dx.doi.org/10.1016/S1047-8477(02)00006-0}.
\bibitem[Lu\u{c}i\'{c} et~al.(2005)Lu\u{c}i\'{c}, F\"{o}rster, and
Baumeister]{Lucic2005}