Systems Biology (Methods in Molecular Biology)

INDEX

A

Adaptive landscape...............................................237–239
Algorithms............................ 29, 30, 73, 79, 91, 92,103,
119, 138, 139, 160, 252, 288, 299, 314, 320,
335, 346, 348, 354
Angiogenesis......................................133, 151, 218, 219,
221, 223, 235
Apoptosis...................................100, 135, 136, 143, 144,
153–155, 157, 158, 219, 221, 235, 266, 271
Asymmetry............................................................236, 241
Attractors.........30, 34, 50, 96,101, 102, 223–225, 227,
234–238

B

Basement membrane (BM)........................................7, 91
Belousov–Zhabotinsky reaction .................148, 182, 184
Bifurcation........................ 71, 72,81–86, 88, 89, 93, 98,
104, 127, 132, 135, 138–142, 159, 160, 163,
164, 192, 204, 251
Binarization ..........................................................320, 347
Bioinformatics..................... 92,237, 238, 248, 270, 347
Biophysical constraints..................................................129
Bistable response...........................................................186
Bottom-up causation........................................................ 3
Breast cancer cells MCF-7............................................146
Brusselator equations.................182, 184, 185, 191, 196

C

Cancer
regression.................................................................217
stem cell...................................................................216
therapy...........................................128, 227, 235, 236
Cell
adhesion.........................................105, 218, 219, 223
cycle .....................................196, 218, 219, 221, 223,
234, 253, 258, 259, 312, 338
density...................................105, 107, 119, 135, 312
Ips cells....................................................................219
membrane..............................................107, 277, 346
morphology..............................................29,100, 346
motility..................................................105, 107, 346
pluripotent cell...............................................190, 219
progenitor cell................................................196, 216
stem cell.................................. 9, 11, 12, 28,216, 219

Cell profiler..........................................348, 352, 354, 358

Cellular-automata........................................204, 206, 308

Chromatin .......................................................... 12,33–37

Coherence................................................23, 42,225, 348

Collective behavior.........................................98,308, 324

Complexity ...........................................3, 4, 8, 16, 68, 97,

106, 127–129, 132, 133, 138, 142, 143,

145–162, 164, 171–177, 179, 181–186,

190–192, 195, 196, 198, 200, 203, 248, 307,

308, 319, 328

Complex systems theory.............................133, 149, 159

Computational biology........................................203–211

Confocal microscopy..................................106, 346, 347

Connectivity................................... 5,105, 255, 315, 319

Constraints ...........................................18–21, 23–25, 43,

46, 52, 58, 70, 71, 129, 130, 340, 341

COPASI (software)........................................92,139, 160

Cytoskeleton.........................................98,103, 106, 338,

346–348, 356

D

Data-driven analyses......................................................129

Default state (of the metazoan cell)............................... 23

Differentiation............................... 3, 8, 9, 11, 12,27–37,

95–100, 106, 117, 126, 142, 151, 153, 173, 190,

198, 234–236, 240, 271, 272

Dissipative dynamics.....................................................204

DNA repair................................................62–64, 66, 154

Dormant state (of the tumor).............................133, 135

Double-edge effect..............................................153, 217

Drug resistance.......................................7,128, 129, 155,

217, 236, 250

E

Electronic phenotype....................................................347

Emergence..................................... 7, 11, 18, 37, 97,102,

107, 121, 133, 159, 307, 315, 319

ENCODE (project)......................................................237

Entropy............................................ 75, 96, 97,106, 109,

118, 130, 131, 133, 143, 144, 146–154,

156–159, 162–164, 198, 199, 348

Epigenetic................................................... 3, 8, 9, 11, 30,

33–37, 196, 219, 238, 247

Epistemology....................................................1, 7, 21, 23

Mariano Bizzarri (ed.),Systems Biology, Methods in Molecular Biology, vol. 1702,
https://doi.org/10.1007/978-1-4939-7456-6,©Springer Science+Business Media LLC 2018

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