Charting functional and physical properties of chromatin in living cells

被引：4

作者：

Lam, Eric ^{[1
,2
]}

Luo, Chongyuan ^{[1
,2
]}

Watanabe, Naohide ^{[1
]}

机构：

[1] Rutgers State Univ, Biotechnol Ctr Agr & Environm, New Brunswick, NJ 08901 USA

[2] Rutgers State Univ, Grad Program Plant Biol, New Brunswick, NJ 08901 USA

来源：

CURRENT OPINION IN GENETICS & DEVELOPMENT | 2009年 / 19卷 / 02期

关键词：

ARABIDOPSIS-THALIANA; CHROMOSOME TERRITORIES; INTERPHASE CHROMOSOMES; TRANSCRIPTOME MAP; GENE-EXPRESSION; HUMAN GENOME; IN-VIVO; DOMAINS; ORGANIZATION; ORDER;

D O I：

10.1016/j.gde.2009.02.004

中图分类号：

Q2 [细胞生物学];

学科分类号：

071009 ; 090102 ;

摘要：

With the vast transcriptome database now available, global patterns of gene expression have been mapped in various species to reveal higher order structures in the genome. Location-dependent control of gene expression has also been studied in human cell cultures and in Arabidopsis plants using well-characterized insertion and transposition cell line collections. With the added genome-wide mapping of chromatin features at a high resolution, via advanced microarray and sequencing technologies, comprehensive analysis of structure-function relationships deduced from chromatin organization and gene expression data is now feasible. This has begun to reveal micro-heterogeneity in the genome with respect to structural and functional segmentations.

引用

页码：135 / 141

页数：7

共 38 条

[1] Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project [J].

Birney, Ewan ;

Stamatoyannopoulos, John A. ;

Dutta, Anindya ;

Guigo, Roderic ;

Gingeras, Thomas R. ;

Margulies, Elliott H. ;

Weng, Zhiping ;

Snyder, Michael ;

Dermitzakis, Emmanouil T. ;

Stamatoyannopoulos, John A. ;

Thurman, Robert E. ;

Kuehn, Michael S. ;

Taylor, Christopher M. ;

Neph, Shane ;

Koch, Christoph M. ;

Asthana, Saurabh ;

Malhotra, Ankit ;

Adzhubei, Ivan ;

Greenbaum, Jason A. ;

Andrews, Robert M. ;

Flicek, Paul ;

Boyle, Patrick J. ;

Cao, Hua ;

Carter, Nigel P. ;

Clelland, Gayle K. ;

Davis, Sean ;

Day, Nathan ;

Dhami, Pawandeep ;

Dillon, Shane C. ;

Dorschner, Michael O. ;

Fiegler, Heike ;

Giresi, Paul G. ;

Goldy, Jeff ;

Hawrylycz, Michael ;

Haydock, Andrew ;

Humbert, Richard ;

James, Keith D. ;

Johnson, Brett E. ;

Johnson, Ericka M. ;

Frum, Tristan T. ;

Rosenzweig, Elizabeth R. ;

Karnani, Neerja ;

Lee, Kirsten ;

Lefebvre, Gregory C. ;

Navas, Patrick A. ;

Neri, Fidencio ;

Parker, Stephen C. J. ;

Sabo, Peter J. ;

Sandstrom, Richard ;

Shafer, Anthony .

NATURE, 2007, 447 (7146) :799-816

[2] The human transcriptome map:: Clustering of highly expressed genes in chromosomal domains [J].

Caron, H ;

van Schaik, B ;

van der Mee, M ;

Baas, F ;

Riggins, G ;

van Sluis, P ;

Hermus, MC ;

van Asperen, R ;

Boon, K ;

Voûte, PA ;

Heisterkamp, S ;

van Kampen, A ;

Versteeg, R .

SCIENCE, 2001, 291 (5507) :1289-+

[3] Genome-wide localization of the nuclear transport machinery couples transcriptional status and nuclear organization [J].

Casolari, JM ;

Brown, CR ;

Komili, S ;

West, J ;

Hieronymus, H ;

Silver, PA .

CELL, 2004, 117 (04) :427-439

[4] Long-range directional movement of an interphase chromosome site [J].

Chuang, CH ;

Carpenter, AE ;

Fuchsova, B ;

Johnson, T ;

de Lanerolle, P ;

Belmont, AS .

CURRENT BIOLOGY, 2006, 16 (08) :825-831

[5] Chromatin motion is constrained by association with nuclear compartments in human cells [J].

Chubb, JR ;

Boyle, S ;

Perry, P ;

Bickmore, WA .

CURRENT BIOLOGY, 2002, 12 (06) :439-445

[6] Sequence-dependent Nucleosome Positioning [J].

Chung, Ho-Ryun ;

Vingron, Martin .

JOURNAL OF MOLECULAR BIOLOGY, 2009, 386 (05) :1411-1422

[7] Chromosome territories -: a functional nuclear landscape [J].

Cremer, Thomas ;

Cremer, Marion ;

Dietzel, Steffen ;

Mueller, Stefan ;

Solovei, Irina ;

Fakan, Stanislav .

CURRENT OPINION IN CELL BIOLOGY, 2006, 18 (03) :307-316

[8] Domain-wide regulation of gene expression in the human genome [J].

Gierman, Hinco J. ;

Indemans, Mireille H. G. ;

Koster, Jan ;

Goetze, Sandra ;

Seppen, Jurgen ;

Geerts, Dirk ;

van Driel, Roel ;

Versteeg, Rogier .

GENOME RESEARCH, 2007, 17 (09) :1286-1295

[9] The three-dimensional structure of human interphase chromosomes is related to the transcriptome map [J].

Goetze, Sandra ;

Mateos-Langerak, Julio ;

Gierman, Hinco J. ;

de Leeuw, Wim ;

Giromus, Osdilly ;

Indemans, Mireille H. G. ;

Koster, Jan ;

Ondrej, Vladan ;

Versteeg, Rogier ;

van Driel, Roel .

MOLECULAR AND CELLULAR BIOLOGY, 2007, 27 (12) :4475-4487

[10] POSITION-EFFECT VARIEGATION AFTER 60 YEARS [J].

HENIKOFF, S .

TRENDS IN GENETICS, 1990, 6 (12) :422-426

← 1 2 3 4 →