Knowledge (XXG)

Transcriptional noise

Source πŸ“

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separated by irregular intervals, generating uneven protein expression between cells. Noise in gene expression can have tremendous consequences on cell behaviour, and must be mitigated or integrated. In certain contexts, such as establishment of viral latency, the survival of microbes in rapidly changing stressful environments, or several types of scattered differentiation, the variability may be essential. Variability also impacts upon the effectiveness of clinical treatment, with resistance of bacteria and yeast to
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although other sources of heterogeneity, such as unequal separation of cell contents at mitosis are also likely to contribute considerably. Bursting transcription, as opposed to simple probabilistic models of transcription, reflects multiple states of gene activity, with fluctuations between states
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Sharma, S. V.; Lee, D. Y.; Li, B.; Quinlan, M. P.; Takahashi, F.; Maheswaran, S.; McDermott, U.; Azizian, N.; Zou, L.; Fischbach, M. A.; Wong, K. K.; Brandstetter, K.; Wittner, B.; Ramaswamy, S.; Classon, M.; Settleman, J. (2010).
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Weinberger, L. S.; Burnett, J. C.; Toettcher, J. E.; Arkin, A. P.; Schaffer, D. V. (2005). "Stochastic gene expression in a lentiviral positive-feedback loop: HIV-1 Tat fluctuations drive phenotypic diversity".
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demonstrably caused by non-genetic differences. Variability in gene expression may also contribute to resistance of sub-populations of cancer cells to chemotherapy and appears to be a barrier to curing HIV.
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Blake, William J; BalΓ‘zsi, GΓ‘bor; Kohanski, Michael A; Isaacs, Farren J; Murphy, Kevin F; Kuang, Yina; Cantor, Charles R; Walt, David R; Collins, James J (2006).
579: 32: 363: 332: 306: 556: 515: 465: 424: 389: 324: 278: 229: 178: 129: 88: 546: 505: 497: 455: 416: 379: 371: 316: 268: 260: 219: 209: 168: 160: 119: 78: 70: 24: 420: 367: 510: 485: 384: 351: 273: 248: 224: 197: 173: 148: 83: 58: 28: 573: 486:"A chromatin-mediated reversible drug tolerant state in cancer cell subpopulations" 336: 460: 443: 214: 37: 551: 534: 501: 320: 124: 107: 74: 164: 59:"Nature, nurture, or chance: stochastic gene expression and its consequences" 375: 560: 519: 469: 428: 393: 328: 282: 233: 182: 133: 92: 249:"Non-genetic heterogeneity from stochastic partitioning at cell division" 311: 444:"Phenotypic Consequences of Promoter-Mediated Transcriptional Noise" 264: 20: 196:
Raj, A; Peskin, CS; Tranchina, D; Vargas, DY; Tyagi, S (2006).
108:"Real-time kinetics of gene activity in individual bacteria" 27:
occurring between cells in isogenic populations (see also
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Golding, I; Paulsson, J; Zawilski, SM; Cox, EC (2005).
535:"Stochastic fate selection in HIV-infected patients" 147:
Chubb, JR; Trcek, T; Shenoy, SM; Singer, RH (2006).
31:) . A proposed source of transcriptional noise is 149:"Transcriptional pulsing of a developmental gene" 198:"Stochastic mRNA synthesis in mammalian cells" 533:Weinberger, A. D.; Weinberger, L. S. (2013). 8: 550: 509: 459: 383: 310: 272: 223: 213: 172: 123: 82: 49: 19:is a primary cause of the variability ( 407:Lewis, K. (2010). "Persister Cells". 7: 421:10.1146/annurev.micro.112408.134306 57:Raj, A; Van Oudenaarden, A (2008). 14: 350:Losick, R.; Desplan, C. (2008). 247:Huh, D.; Paulsson, J. (2010). 1: 409:Annual Review of Microbiology 352:"Stochasticity and cell fate" 461:10.1016/j.molcel.2006.11.003 215:10.1371/journal.pbio.0040309 596: 552:10.1016/j.cell.2013.09.039 502:10.1016/j.cell.2010.02.027 321:10.1016/j.cell.2005.06.006 125:10.1016/j.cell.2005.09.031 75:10.1016/j.cell.2008.09.050 165:10.1016/j.cub.2006.03.092 33:transcriptional bursting 376:10.1126/science.1147888 17:Transcriptional noise 368:2008Sci...320...65L 587: 565: 564: 554: 530: 524: 523: 513: 480: 474: 473: 463: 439: 433: 432: 404: 398: 397: 387: 347: 341: 340: 314: 293: 287: 286: 276: 244: 238: 237: 227: 217: 193: 187: 186: 176: 144: 138: 137: 127: 103: 97: 96: 86: 54: 595: 594: 590: 589: 588: 586: 585: 584: 580:Gene expression 570: 569: 568: 532: 531: 527: 482: 481: 477: 441: 440: 436: 406: 405: 401: 362:(5872): 65–68. 349: 348: 344: 295: 294: 290: 253:Nature Genetics 246: 245: 241: 195: 194: 190: 159:(10): 1018–25. 153:Current Biology 146: 145: 141: 105: 104: 100: 56: 55: 51: 47: 25:gene expression 12: 11: 5: 593: 591: 583: 582: 572: 571: 567: 566: 525: 475: 454:(6): 853–865. 448:Molecular Cell 434: 399: 342: 288: 265:10.1038/ng.729 239: 188: 139: 118:(6): 1025–36. 98: 48: 46: 43: 29:cellular noise 13: 10: 9: 6: 4: 3: 2: 592: 581: 578: 577: 575: 562: 558: 553: 548: 544: 540: 536: 529: 526: 521: 517: 512: 507: 503: 499: 495: 491: 487: 479: 476: 471: 467: 462: 457: 453: 449: 445: 438: 435: 430: 426: 422: 418: 414: 410: 403: 400: 395: 391: 386: 381: 377: 373: 369: 365: 361: 357: 353: 346: 343: 338: 334: 330: 326: 322: 318: 313: 312:q-bio/0608002 308: 305:(2): 169–82. 304: 300: 292: 289: 284: 280: 275: 270: 266: 262: 259:(2): 95–100. 258: 254: 250: 243: 240: 235: 231: 226: 221: 216: 211: 207: 203: 199: 192: 189: 184: 180: 175: 170: 166: 162: 158: 154: 150: 143: 140: 135: 131: 126: 121: 117: 113: 109: 102: 99: 94: 90: 85: 80: 76: 72: 69:(2): 216–26. 68: 64: 60: 53: 50: 44: 42: 39: 34: 30: 26: 22: 18: 545:(3): 497–9. 542: 538: 528: 496:(1): 69–80. 493: 489: 478: 451: 447: 437: 412: 408: 402: 359: 355: 345: 302: 298: 291: 256: 252: 242: 208:(10): e309. 205: 202:PLOS Biology 201: 191: 156: 152: 142: 115: 111: 101: 66: 62: 52: 16: 15: 415:: 357–372. 38:antibiotics 574:Category 561:24243007 520:20371346 470:17189188 429:20528688 394:18388284 329:16051143 283:21186354 234:17048983 183:16713960 134:16360033 93:18957198 511:2851638 385:2605794 364:Bibcode 356:Science 337:8061716 274:3208402 225:1563489 174:4764056 84:3118044 559:  518:  508:  468:  427:  392:  382:  335:  327:  281:  271:  232:  222:  181:  171:  132:  91:  81:  333:S2CID 307:arXiv 45:Notes 23:) in 21:noise 557:PMID 539:Cell 516:PMID 490:Cell 466:PMID 425:PMID 390:PMID 325:PMID 299:Cell 279:PMID 230:PMID 179:PMID 130:PMID 112:Cell 89:PMID 63:Cell 547:doi 543:155 506:PMC 498:doi 494:141 456:doi 417:doi 380:PMC 372:doi 360:320 317:doi 303:122 269:PMC 261:doi 220:PMC 210:doi 169:PMC 161:doi 120:doi 116:123 79:PMC 71:doi 67:135 576:: 555:. 541:. 537:. 514:. 504:. 492:. 488:. 464:. 452:24 450:. 446:. 423:. 413:64 411:. 388:. 378:. 370:. 358:. 354:. 331:. 323:. 315:. 301:. 277:. 267:. 257:43 255:. 251:. 228:. 218:. 204:. 200:. 177:. 167:. 157:16 155:. 151:. 128:. 114:. 110:. 87:. 77:. 65:. 61:. 563:. 549:: 522:. 500:: 472:. 458:: 431:. 419:: 396:. 374:: 366:: 339:. 319:: 309:: 285:. 263:: 236:. 212:: 206:4 185:. 163:: 136:. 122:: 95:. 73::

Index

noise
gene expression
cellular noise
transcriptional bursting
antibiotics
"Nature, nurture, or chance: stochastic gene expression and its consequences"
doi
10.1016/j.cell.2008.09.050
PMC
3118044
PMID
18957198
"Real-time kinetics of gene activity in individual bacteria"
doi
10.1016/j.cell.2005.09.031
PMID
16360033
"Transcriptional pulsing of a developmental gene"
doi
10.1016/j.cub.2006.03.092
PMC
4764056
PMID
16713960
"Stochastic mRNA synthesis in mammalian cells"
doi
10.1371/journal.pbio.0040309
PMC
1563489
PMID

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