Interphase chromosome behavior in normal and diseased cells

Human Interphase Chromosomes: Biomedical Aspects

Volumn 9781461465584, Issue , 2013, Pages 9-33

  Bourne, Gemma ^a   Moir, Catherine ^a   Bikkul, Ural ^a   Ahmed, Mai Hassan ^a   Kill, Ian R ^a   Eskiw, Christopher H ^a   Tosi, Sabrina ^a   Bridger, Joanna M ^a  

^a BRUNEL UNIVERSITY   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84949177916     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1007/978-1-4614-6558-4_2     Document Type: Chapter

References (122)

1. Anderson RM, Stevens DL, Goodhead DT (2002) M-FISH analysis shows that complex chromosome aberrations induced by alpha-particle tracks are cumulative products of localized rearrangements. Proc Natl Acad Sci U S A 99:12167-12172
2. Andrulis ED, Neiman AM, Zappulla DC, Sternglanz R (1998) Perinuclear localization of chromatin facilitates transcriptional silencing. Nature (Lond) 394:592-595
3. Ballabio E, Cantarella CD, Federico C, Di Mare P, Hall G, Harbott J, Hughes J, Saccone S, Tosi S (2009) Ectopic expression of the HLXB9 gene is associated with an altered nuclear position in T(7;12) leukaemias. Leukemia 23:1179-1182
4. Bickmore WA, Teague P (2002) Influences of chromosome size, gene density and nuclear position on the frequency of constitutional translocations in the human population. Chromosome Res 10:707-715
5. Boisvert FM, Van Koningsbruggen S, Navacues J, Lamond AI (2007) The multifunctional nucleolus. Nat Rev Mol Cell Biol 8:574-585
6. Boyle S, Gilchrist S, Bridger JM, Mahy NL, Ellis JA, Bickmore WA (2001) The spatial organization of human chromosomes within the nuclei of normal and emerin-mutant cells. Hum Mol Genet 10:211-219
7. Branco MR, Pombo A (2006) Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations. PLoS Biol 4:e138
8. Branco MR, Branco T, Ramirez F, Pombo A (2008) Changes in chromosome organization during PHA-activation of resting human lymphocytes measured by cryo-FISH. Chromosome Res 16:413-426
9. Bridger JM, Kill IR (2004) Aging of Hutchinson-Gilford progeria syndrome fibroblasts is characterised by hyperproliferation and increased apoptosis. Exp Gerontol 39:717-724
10. Bridger JM, Kill IR, Lichter P (1998) Association of pKi-67 with satellite DNA of the human genome in early G 1 cells. Chromosome Res 6:13-24
11. Bridger JM, Boyle S, Kill IR, Bickmore WA (2000) Re-modelling of nuclear architecture in quiescent and senescent human fibroblasts. Curr Biol 10:149-152
12. Bridger JM, Mehta IS (2011) Nuclear molecular motors for active, directed chromatin movement in interphase nuclei. Advances in nuclear architecture. Eds Niall Adams and Paul Freemont. Springer.
13. Brown JM, Green J, das Neves RP, Wallace HA, Smith AJ, Hughes J, Gray N, Taylor S, Wood WG, Higgs DR, Iborra FJ, Buckle VJ (2008) Association between active genes occurs at nuclear speckles and is modulated by chromatin environment. J Cell Biol 182:1083-1097
14. Butin-Israeli V, Adam SA, Goldman AE, Goldman RD (2012) Nuclear lamin functions and disease. Trends Genet 28:464-471
15. Cafourkova A, Luka-ova E, Kozubek S, Kozubek M, Govorun RD, Koutna I, Bartova E, Skalnikova M, Jirsova P, Pasekova R, Krasavin EA (2001) Exchange aberrations among 11 chromosomes of human lymphocytes induced by gamma-rays. Int J Radiat Biol 77:419-429
16. Carter D, Chakalova L, Osborne CS, Dai Y-F, Fraser P (2002) Long-range chromatin regulatory interactions in vivo. Nat Genet 32(4):623-626. doi: 10.1038/ng1051
17. Cavalli G (2007) Chromosome kissing. Curr Opin Genet Dev 17:443-450
18. Chambeyron S, Bickmore WA (2004) Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription. Genes Dev 18:1119-1130
19. Chaumeil J, Baccon PL, Wutz A, Heard E (2006) A novel role for Xist RNA in the formation of a repressive nuclear compartment into which genes are recruited when silenced. Genes Dev 20:2223-2237
20. Chuang CH, Carpenter AE, Fuchsova B, Johnson T, de Lanerolle P, Belmont AS (2006) Longrange directional movement of an interphase chromosome site. Curr Biol 16:825-831
21. Chubb JR, Boyle S, Perry P, Bickmore WA (2002) Chromatin motion is constrained by association with nuclear compartments in human cells. Curr Biol 12(6)439-445.
22. Clemson CM, McNeil JA, Willard HF, Lawrence JB (1996) XIST RNA paints the inactive X chromosome at interphase: evidence for a novel RNA involved in nuclear/chromosome structure. J Cell Biol 132:259-275
23. Coffinier C, Jung HJ, Nobumori C, Chang S, Tu Y, Barnes RH II, Yoshinaga Y, de Jong PJ, Vergnes L, Reue K, Fong LG, Young SG (2011) Deficiencies in lamin B1 and lamin B2 cause neurodevelopmental defects and distinct nuclear shape abnormalities in neurons. Mol Biol Cell 22:4683-4693
24. Cremer M, Kupper K, Wagler B, Wizelman L, von Hase J, Weiland Y, Kreja L, Diebold J, Speicher MR, Cremer T (2003) Inheritance of gene density-related higher order chromatin arrangements in normal and tumor cell nuclei. J Cell Biol 162:809-820
25. Croft JA, Bridger JM, Boyle S, Perry P, Teague P, Bickmore WA (1999) Differences in the localization and morphology of chromosomes in the human nucleus. J Cell Biol 145:1119-1131
26. de Laat W, Grosveld F (2003) Spatial organization of gene expression: the active chromatin hub. Chromosome Res 11:447-459
27. De Sandre-Giovannoli A, Bernard R, Cau P, Navarro C, Amiel J, Boccaccio I, Lyonnet S, Stewart CL, Munnich A, Le Merrer M, Levy N (2003) Lamin A truncation in Hutchinson-Gilford progeria. Science 300:2055
28. Dundr M, Ospina JK, Sung MH, John S, Upender M, Ried T, Hager GL, Matera AG (2007) Actindependent intranuclear repositioning of an active gene locus in vivo. J Cell Biol 179:1095-1103
29. Engreitz JM, Agarwala V, Mirny LA (2012) Three-dimensional genome architecture influences partner selection for chromosomal translocations in human disease. PLoS One 7:e44196
30. Eriksson M, Brown WT, Gordon LB, Glynn MW, Singer J, Scott L, Erdos MR, Robbins CM, Moses TY, Berglund P, Dutra A, Pak E, Durkin S, Csoka AB, Boehnke M, Glover TW, Collins FS (2003) Recurrent de novo point mutation in lamin A cause Hutchinson-Gilford progeria syndrome. Nature (Lond) 423:293-298
31. Ferrai C, de Castro IJ, Lavitas L, Chotalia M, Pombo A (2010) Gene positioning. Cold Spring Harb Perspect Biol 2:a000588
32. Ferraiuolo MA, Rousseau M, Miyamoto C, Shenker S, Wang XQ, Nadler M, Blanchette M, Dostie J (2010) The three-dimensional architecture of Hox cluster silencing. Nucleic Acids Res 38:7472-7484
33. Feuerbach F, Galy V, Trelles-Sticken E, Fromont-Racine M, Jacquier A, Gilson E, Olivo-Marin JC, Scherthan H, Nehrbass U (2002) Nuclear architecture and spatial positioning help establish transcriptional states of telomeres in yeast. Nat Cell Biol 4:214-221
34. Fischer AH, Bond JA, Taysavang P, Battles OE, Wynford-Thomas D (1998) Papillary thyroid carcinoma oncogene (RET/PTC) alters the nuclear envelope and chromatin structure. Am J Pathol 153:1443-1450
35. Forment JV, Kaidi A, Jackson SP (2012) Chromothripsis and cancer: causes and consequences of chromosome shattering. Nat Rev Cancer 12:663-670
36. Foster HA, Bridger JM (2005) The genome and the nucleus: a marriage made by evolution. Genome organisation and nuclear architecture. Chromosoma (Berl) 114:212-229
37. Galiova G, Bartova E, Raska I, Krejci J, Kozubek S (2008) Chromatin changes induced by lamin A/C deficiency and the histone deacetylase inhibitor trichostatin A. Eur J Cell Biol 87:291-303
38. Gandhi M, Medvedovic M, Stringer JR, Nikiforov YE (2006) Interphase chromosome folding determines spatial proximity of genes participating in carcinogenic RET/PTC rearrangements. Oncogene 25:2360-2366
39. Gandhi MS, Stringer JR, Nikiforova MN, Medvedovic M, Nikiforov YE (2009) Gene position within chromosome territories correlates with their involvement in distinct rearrangement types in thyroid cancer cells. Genes Chromosomes Cancer 48:222-228
40. Gandhi M et al (2012) Frequency of close positioning of chromosomal loci detected by FRET correlates with their participation in carcinogenic rearrangements in human cells. Genes Chromosomes Cancer 51:1037-44
41. Goldman JM (2010) Chronic myeloid leukaemia: a historical perspective. Semin Hematol 47:302-311
42. Goldman RD, Shumaker DK, Erdos MR, Eriksson M, Goldman AE, Gordon LB, Gruenbaum Y, Khuon S, Mendez M, Varga R, Collins FS (2004) Accumulation of mutant lamin A causes progressive changes in nuclear architecture in Hutchinson-Gilford progeria syndrome. Proc Natl Acad Sci U S A 101:8963-8968
43. Gomez-Cavazos JS, Hetzer MW (2012) Outfits for different occasions: tissue-specific roles of nuclear envelope proteins. Curr Opin Cell Biol 24(6):775-783
44. Gribnau J, de Boer E, Trimborn T, Wijgerde M, Milot E, Grosveld F, Fraser P (1998) Chromatin interaction mechanism of transcriptional control in vivo. EMBO J 17:6020-6027
45. Gruszka-Westwood AM et al (2004) Comparative expressed sequence hybridization studies of high-hyperdiploid childhood acute lymphoblastic leukemia. Genes Chromosomes Cancer 41:191-202
46. Guelen L, Pagie L, Brasset E, Meuleman W, Faza MB, Talhout W, Eussen BH, de Klein A, Wessels L, de Laat W, van Steensel B (2008) Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions. Nature (Lond) 453:948-951
47. Hahn M, Dambacher S, Schotta G (2010) Heterochromatin dysregulation in human diseases. J Appl Physiol 109:232-242
48. Haluska FG, Tsujimoto Y, Croce CM (1987) The t(8;14) chromosome translocation of the Burkitt lymphoma cell line Daudi occurred during immunoglobulin gene rearrangement and involved the heavy chain diversity region. Proc Natl Acad Sci U S A 84:6835-6839
49. Harewood L, Schutz F, Boyle S, Perry P, Delorenzi M, Bickmore WA, Reymond A (2010) The effect of translocation-induced nuclear reorganization on gene expression. Genome Res 20:554-564
50. Harrison CJ et al (2010) Detection of prognostically relevant genetic abnormalities in childhood B-cell precursor acute lymphoblastic leukaemia: recommendations from the Biology and Diagnosis Committee of the International Berlin-Frankfürt-Münster study group. Br J Haematol 151:132-142
51. Hennekam RC (2006) Hutchinson-Gilford progeria syndrome: review of the phenotype. Am J Med Genet A 140:2603-2624
52. Hewitt SL, High FA, Reiner SL, Fisher AG, Merkenschlager M (2004) Nuclear repositioning marks the selective exclusion of lineage-inappropriate transcription factor loci during T helper cell differentiation. Eur J Immunol 34:3604-3613
53. Holaska JM, Lee KK, Kowalski AK, Wilson KL (2003) Transcriptional repressor germ cell-less (GCL) and barrier to autointegration factor (BAF) compete for binding to emerin in vitro. J Biol Chem 278:6969-6975
54. Ishii K, Arib G, Lin C, Van Houwe G, Laemmli UK (2002) Chromatin boundaries in budding yeast: the nuclear pore connection. Cell 109:551-562
55. Kill IR (1996) Localisation of the Ki-67 antigen within the nucleolus. Evidence for a fibrillarindeficient region of the dense fibrillar component. J Cell Sci 109:1253-1263
56. Klein IA, Resch W, Jankovic M, Oliveira T, Yamane A, Nakahashi H, Di Virgilio M, Bothmer A, Nussenzweig A, Robbiani DF, Casellas R, Nussenzweig MC (2011) Translocation-capture sequencing reveals the extent and nature of chromosomal rearrangements in B lymphocytes. Cell 147:95-106
57. Knight M, Ittiprasert W, Odoemelam EC, Adema CM, Miller A, Raghavan N, Bridger JM (2011) Non-random organization of the Biomphalaria glabrata genome in interphase Bge cells and the spatial repositioning of activated genes in cells co-cultured with Schistosoma mansoni . Int J Parasitol 41:61-70
58. Korfali N, Wilkie G, Swanson S, Srsen V, de las Heras J, Batrakou D, Malik P, Zuleger N, Kerr A, Florens L, Schirmer E (2012) The nuclear envelope proteome differs notably between tissues. Nucleus 3:552-564
59. Korostowski L, Raval A, Breuer G, Engel N (2011) Enhancer-driven chromatin interactions during development promote escape from silencing by a long non-coding RNA. Epigenetics Chromatin 4:21
60. Kosak ST, Skok JA, Medina KL, Riblet R, Le Beau MM, Fisher AG, Singh H (2002) Subnuclear compartmentalization of immunoglobulin loc. during lymphocyte development. Science 296:158-162
61. Koutna I, Kozubek S, Zaloudik J, Kozubek M, Lukasova E, Matula P, Bartova E, Skalnikova M, Cafourkova A, Jirsova P (2000) Topography of genetic loci in tissue samples: towards new diagnostic tool using interphase FISH and high-resolution image analysis techniques. Anal Cell Pathol 20:173-185
62. Kozubek S, Lukasova E, Ryznar L, Kozubek M, Liskova A, Govorun RD, Krasavin EA, Hornbeck G (1997) Distribution of ABL and BCR genes in cell nuclei of normal and irradiated lymphocytes. Blood 89:4537-4545
63. Kozubek S, Lukasova E, Mareckova A, Skalnikova M, Kozubek M, Bartova E, Kroha V, Krahulcova E, Slotova J (1999) The topological organization of chromosomes 9 and 22 in cell nuclei has a determinative role in the induction of t(9,22) translocations and in the pathogenesis of t(9,22) leukemias. Chromosoma (Berl) 108:426-435
64. Krystosek A (1998) Repositioning of human interphase chromosomes by nucleolar dynamics in the reverse transformation of HT1080 fibrosarcoma cells. Exp Cell Res 241:202-209
65. Kubben N, Adriaens M, Meuleman W, Voncken J, van Steensel B, Misteli T (2012) Mapping of lamin A- and progerin-interacting genome regions. Chromosoma (Berl) 121:447-464
66. Kuroda M, Tanabe H, Yoshida K, Oikawa K, Saito A, Kiyuna T, Mizusawa H, Mukai K (2004) Alteration of chromosome positioning during adipocyte differentiation. J Cell Sci 117:5897-5903
67. Lakshmikuttyamma A, Scott SA, DeCoteau JF, Geyer CR (2010) Reexpression of epigenetically silenced AML tumor suppressor genes by SUV39H1 inhibition. Oncogene 29:576-588
68. Li C, Shi Z, Zhang L, Huang Y, Liu A, Jin Y, Yu Y, Bai J, Chen D, Gendron C, Liu X, Fu S (2010) Dynamic changes of territories 17 and 18 during EBV-infection of human lymphocytes. Mol Biol Rep 37:2347-2354
69. Lukasova E, Kozubek S, Kozubek M, Kjeronska J, Ryznar L, Horakova J, Krahulcova E, Horneck G (1997) Localisation and distance between ABL and BCR genes in interphase nuclei of bone marrow cells of control donors and patients with chronic myeloid leukaemia. Hum Genet 100:525-535
70. Manuelidis L, Borden J (1988) Reproducible compartmentalization of individual chromosome domains in human CNS cells revealed by in situ hybridization and three-dimensional reconstruction. Chromosoma (Berl) 96:397-410
71. Marella NV, Bhattacharya S, Mukherjee L, Xu J, Berezney R (2009) Cell type specific chromosome territory organization in the interphase nucleus of normal and cancer cells. J Cell Physiol 221:130-138
72. Meaburn KJ, Misteli T (2008) Locus-specific and activity-independent gene repositioning during early tumorigenesis. J Cell Biol 180:39-50
73. Meaburn KJ, Cabuy E, Bonne G, Levy N, Morris GE, Novelli G, Kill IR, Bridger JM (2007a) Primary laminopathy fibroblasts display altered genome organization and apoptosis. Aging Cell 6:139-153
74. Meaburn KJ, Misteli T, Soutoglou E (2007b) Spatial genome organization in the formation of chromosomal translocations. Semin Cancer Biol 17:80-90
75. Meaburn KJ, Gudla PR, Khan S, Lockett SJ, Misteli T (2009) Disease-specific gene repositioning in breast cancer. J Cell Biol 187:801-812
76. Mehta IS, Figgitt M, Clements CS, Kill IR, Bridger JM (2007) Alterations to nuclear architecture and genome behavior in senescent cells. Ann N Y Acad Sci 1100:250-263
77. Mehta IS, Amira M, Harvey AJ, Bridger JM (2010) Rapid chromosome territory relocation by nuclear motor activity in response to serum removal in primary human fibroblasts. Genome Biol 11:R5
78. Mehta IS, Eskiw CH, Arican HD, Kill IR, Bridger JM (2011) Farnesyltransferase inhibitor treatment restores chromosome territory positions and active chromosomes dynamics in Hutchinson-Gilford progeria syndrome cells. Genome Biol 12:R74
79. Mewborn SK, Puckelwartz MJ, Abuisneineh F, Fahrenbach JP, Zhang Y, MacLeod H, Dellefave L, Pytel P, Selig S, Labno CM, Reddy K, Singh H, McNally E (2010) Altered chromosomal positioning, compaction, and gene expression with a lamin A/C gene mutation. PLoS One 5:e14342
80. Morgan R, Sandberg AA, Jarzabek V, Scheerer P, Hecht F (1987) An acquired Robertsonian translocation in prolymphocytic leukemia: a case presentation and review. Cancer Genet Cytogenet 25:293-301
81. Murata S, Nakazawa T, Ohno N, Terada N, Iwashina M, Mochizuki K, Kondo T, Nakamura N, Yamane T, Iwasa S, Ohno S, Katoh R (2007) Conservation and alteration of chromosome territory arrangements in thyroid carcinoma cell nuclei. Thyroid 17:489-496
82. Murmann AE, Gao J, Encinosa M, Gautier M, Peter ME, Eils R, Lichter P, Rowley JD (2005) Local gene density predicts the spatial position of genetic loci in the interphase nucleus. Exp Cell Res 311:14-26
83. Murphy KM, Reiner SL (2002) The lineage decisions of helper T cells. Nat Rev Immunol 2:933-944
84. Nagano T, Mitchell JA, Sanz LA, Pauler FM, Ferguson-Smith AC, Feil R, Fraser P (2008) The Air noncoding RNA epigenetically silences transcription by targeting G9a to chromatin. Science 322:1717-1720
85. Nemeth A, Conesa A, Santoyo-Lopez J, Medina I, Montaner D, Peterfia B, Solovei I, Cremer T, Dopazo J, Langst G (2010) Initial genomics of the human nucleolus. PLoS Genet 6:e1000889
86. Nikiforova MN, Stringer JR, Blough R, Medvedovic M, Fagin JA, Nikiforov YE (2000) Proximity of chromosomal loci that participate in radiation-induced rearrangements in human cells. Science 290:138-141
87. Noordermeer D, Leleu M, Splinter E, Rougemont J, De Laat W, Duboule D (2011) The dynamic architecture of Hox gene clusters. Science 334:222-225
88. Ondrej V, Lukasova E, Falk M, Kozubek S (2007) The role of actin and microtubule networks in plasmid DNA intracellular trafficking. Acta Biochim Pol 54:657-663
89. Ondrej V, Lukasova E, Krejci J, Kozubek S (2008a) Intranuclear trafficking of plasmid DNA is mediated by nuclear polymeric proteins lamins and actin. Acta Biochim Pol 55:307-315
90. Ondrej V, Lukasova E, Krejci J, Matula P, Kozubek S (2008b) Lamin A/C and polymeric actin in genome organization. Mol Cells 26:356-361
91. Osborne CS, Chakalova L, Mitchell JA, Horton A, Wood AL, Bolland DJ, Corcoran AE, Fraser P (2007) Myc dynamically and preferentially relocates to a transcription factory occupied by Igh. PLoS Biol 5:e192
92. Parada LA, McQueen PG, Munson PJ, Misteli T (2002) Conservation of relative chromosome positioning in normal and cancer cells. Curr Biol 12:1692-1697
93. Parada LA, McQueen PG, Misteli T (2004) Tissue-specific spatial organization of genomes. Genome Biol 5:R44
94. Peric-Hupkes D, Meuleman W, Pagie L, Bruggeman SW, Solovei I, Brugman W, Graf S, Flicek P, Kerkhoven RM, van Lohuizen M, Reinders M, Wessels L, van Steensel B (2010) Molecular maps of the reorganization of genome-nuclear lamina interactions during differentiation. Mol Cell 38:603-613
95. Rodríguez S, Eriksson M (2010) Evidence for the involvement of lamins in aging. Curr Aging Sci 3:81-89
96. Roix JJ, McQueen PG, Munson PJ, Parada LA, Misteli T (2003) Spatial proximity of translocationprone gene loci in human lymphomas. Nat Genet 34:287-291
97. Ronkainen H, Kauppila S, Hirvikoski P, Vaarala MH (2010) Evaluation of myosin VI, E-cadherin and beta-catenin immunostaining in renal cell carcinoma. J Exp Clin Cancer Res 29:2
98. Schirmer EC, Florens L, Guan T, Yates JR III, Gerace L (2003) Nuclear membrane proteins with potential disease links found by substractive proteomics. Science 301:1380-1382
99. Sengupta K, Upender MB, Barenboim-Stapleton L, Nguyen QT, Wincovitch SM, Garfield SH, Difilippantonio MJ, Ried T (2007) Artificially introduced aneuploid chromosomes assume a conserved position in colon cancer cells. PLoS ONE 2(2):e199
100. Shimi T, Pfleghaar K, Kojima S, Pack CG, Solovei I, Goldman AE, Adam SA, Shumaker DK, Kinjo M, Cremer T, Goldman RD (2008) The A- and B-type nuclear lamin networks: microdomains involved in chromatin organization and transcription. Genes Dev 22:3409-3421
101. Somech R, Shaklai S, Geller O, Amariglio N, Simon AJ, Rechavi G, Gal-Yam EN (2005) The nuclear-envelope protein and transcriptional repressor LAP2beta interacts with HDAC3 at the nuclear periphery, and induces histone H4 deacetylation. J Cell Sci 118:4017-4025
102. Splinter E, de Wit E, Nora EP, Klous P, van de Werken HJG, Zhu Y, Kaaij LJT et al (2011) The inactive X chromosome adopts a unique three-dimensional conformation that is dependent on Xist RNA. Genes Dev 25:1371-1383
103. Starr DA (2009) A nuclear-envelope bridge positions nuclei and moves chromosomes. J Cell Sci 122:577-586
104. Stromme P, Mangelsdorf ME, Shaw MA, Lower KM, Lewis SM, Bruyere H, Lutcherath V, Gedeon AK, Wallace RH, Scheffer IE, Turner G, Partington M, Frints SG, Fryns JP, Sutherland GR, Mulley JC, Gecz J (2002) Mutations in the human ortholog of Aristaless cause X-linked mental retardation and epilepsy. Nat Genet 30:441-445
105. Sullivan GJ, Bridger JM, Cuthbert AP, Newbold RF, Bickmore WA, McStay B (2001) Human acrocentric chromosomes with transcriptionally silent nucleolar organizer regions associate with nucleoli. EMBO J 20:2867-2874
106. Szczerbal I, Bridger JM (2010) Association of adipogenic genes with SC-35 domains during porcine adipogenesis. Chromosome Res 18:887-895
107. Szczerbal I, Foster HA, Bridger JM (2009) The spatial repositioning of adipogenesis genes is correlated with their expression status in a porcine mesenchymal stem cell adipogenesis model system. Chromosoma (Berl) 118:647-663
108. Taddei A, Van Houwe G, Hediger F, Kalck V, Cubizolles F, Schober H, Gasser SM (2006) Nuclear pore association confers optimal expression levels for an inducible yeast gene. Nature (Lond) 441:774-778
109. Taimen P, Pfleghaar K, Shimi T, Moller D, Ben-Harush K, Erdos MR, Adam SA, Herrmann H, Medalia O, Collins FS, Goldman AE, Goldman RD (2009) A progeria mutation reveals functions for lamin A in nuclear assembly, architecture, and chromosome organization. Proc Natl Acad Sci U S A 106:20788-20793
110. Taslerova R, Kozubek S, Lukasova E, Jirsova P, Bartova E, Kozubek M (2003) Arrangement of chromosome 11 and 22 territories, EWSR1 and FLI1 genes, and other genetic elements of these chromosomes in human lymphocytes and Ewing sarcoma cells. Hum Genet 112:143-155
111. Timme S, Schmitt E, Stein S, Schwarz-Finsterle J, Wagner J, Walch A, Werner M, Hausmann M, Wiech T (2011) Nuclear position and shape deformation of chromosome 8 territories in pancreatic ductal adenocarcinoma. Anal Cell Pathol (Amst) 34:21-33
112. Tolhuis B, Palstra RJ, Splinter E, Grosveld F, de Laat W (2002) Looping and interaction between hypersensitive sites in the active beta-globin loc.s. Mol Cell 10:1453-1465
113. Trinkle-Mulcahy L, Lamond AI (2007) Toward a high-resolution view of nuclear dynamics. Science 318:1402-1407
114. van Koningsbruggen S, Gierlinski M, Schofield P, Martin D, Barton GJ, Ariyurek Y, den Dunnen JT, Lamond AI (2010) High-resolution whole-genome sequencing reveals that specific chromatin domains from most human chromosomes associate with nucleoli. Mol Biol Cell 21:3735-3748
115. Wiech T, Timme S, Riede F, Stein S, Schuricke M, Cremer C, Werner M, Hausmann M, Walch A (2005) Human archival tissues provide a valuable source for the analysis of spatial genome organization. Histochem Cell Biol 123:229-238
116. Wiech T, Stein S, Lachenmaier V, Schmitt E, Schwarz-Finsterle J, Wiech E, Hildenbrand G, Werner M, Hausmann M (2009) Spatial allelic imbalance of BCL2 genes and chromosome 18 territories in nonneoplastic and neoplastic cervical squamous epithelium. Eur Biophys J 38:793-806
117. Yanaihara N, Nishioka M, Kohno T, Otsuka A, Okamoto A, Ochiai K, Tanaka T, Yokota J (2004) Reduced expression of MYO18B, a candidate tumor-suppressor gene on chromosome arm 22q, in ovarian cancer. Int J Cancer 112:150-154
118. Zhang L, Lan Q, Guo W, Hubbard AE, Li G, Rappaport SM, McHale CM, Shen M, Ji Z, Vermeulen R, Yin S, Rothman N, Smith MT (2011) Chromosome-wide aneuploidy study (CWAS) in workers exposed to an established leukemogen, benzene. Carcinogenesis (Oxf) 32:605-612
119. Zhang Y, McCord RP, Ho YJ, Lajoie BR, Hildebrand DG, Simon AC, Becker MS, Alt FW, Dekker J (2012) Spatial organization of the mouse genome and its role in recurrent chromosomal translocations. Cell 148:908-921
120. Zhu Q, Pao GM, Huynh AM, Suh H, Tonnu N, Nederlof PM, Gage FH, Verma IM (2011) BRCA1 tumour suppression occurs via heterochromatin-mediated silencing. Nature (Lond) 477:179-184
121. Zink D, Fischer AH, Nickerson JA (2004) Nuclear structure in cancer cells. Nat Rev Cancer 4:677-687
122. Zuleger N, Robson MI, Schirmer EC (2011) The nuclear envelope as a chromatin organizer. Nucleus 2:339-349