Chromosome conformation capture

Cold Spring Harbor Protocols

Volumn 4, Issue 2, 2009, Pages

  Cope, Nathan F ^a   Fraser, Peter ^a  

^a BABRAHAM INSTITUTE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; FORMALDEHYDE; REAGENT;

ARTICLE; ARTIFICIAL CHROMOSOME; CHROMOSOME CONFORMATION CAPTURE; CIS TRANS ISOMERISM; CONTROLLED STUDY; CROSS LINKING; CYTOLYSIS; DNA CONFORMATION; DNA PURIFICATION; ENZYME DEGRADATION; GENE AMPLIFICATION; GENE SEQUENCE; GENETIC ANALYSIS; NONHUMAN; QUANTITATIVE ANALYSIS; REAL TIME POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS; TISSUE FIXATION;

EID: 65749102055     PISSN: None     EISSN: 15596095     Source Type: Journal    
DOI: 10.1101/pdb.prot5137     Document Type: Article

References (11)

1. Dekker, J. 2006. The three 'C's of chromosome conformation capture: Controls, controls, controls. Nat. Methods 3: 17-21.
2. Dekker, J., Rippe, K., Dekker, M., and Kleckner, N. 2002. Capturing chromosome conformation. Science 295: 1306-1311.
3. Dostie, J., Richmond, T.A., Arnaout, R.A., Selzer, R.R., Lee, W.L., Honan, T.A., Rubio, E.D., Krumm, A., Lamb, J., Nusbaum, C., et al. 2006. Chromosome Conformation Capture Carbon Copy (5C): A massively parallel solution for mapping interactions between genomic elements. Genome Res. 16: 1299-1309.
4. Hagège, H., Klous, P., Braem, C., Splinter, E., Dekker, J., Cathala, G., de Laat, W., and Forné, T. 2007. Quantitative analysis of chromosome conformation capture assays (3C-qPCR). Nat. Protoc. 2: 1722-1733.
5. Mitchell, J.A. and Fraser, P. 2008. Transcription factories are nuclear subcompartments that remain in the absence of transcription. Genes & Dev. 22: 20-25.
6. Osborne, C.S., Chakalova, L., Brown, K.E., Carter, D., Horton, A., Debrand, E., Goyenechea, B., Mitchell, J.A., Lopes, S., Reik, W., and Fraser, P. 2004. Active genes dynamically colocalize to shared sites of ongoing transcription. Nat. Genet. 36: 1065-1071.
7. Simonis, M., Klous, P., Splinter, E., Moshkin, Y., Willemsen, R., de Wit, E., van Steensel, B., and de Laat, W. 2006. Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C). Nat. Genet. 38: 1348-1354.
8. Splinter, E., Heath, H., Kooren, J., Palstra, R.J., Klous, P., Grosveld, F., Galjart, N., and de Laat, W. 2006. CTCF mediates long-range chromatin looping and local histone modification in the β-globin locus. Genes & Dev. 20: 2349-2354.
9. Tolhuis, B., Palstra, R.J., Splinter, E., Grosveld, F., and de Laat, W. 2002. Looping and interaction between hypersensitive sites in the active β-globin locus. Mol. Cell 10: 1453-1465.
10. Vernimmen, D., De Gobbi, M., Sloane-Stanley, J.A., Wood, W.G., and Higgs, D.R. 2007. Long-range chromosomal interactions regulate the timing of the transition between poised and active gene expression. EMBO J. 26: 2041-2051.
11. Zhao, Z., Tavoosidana, G., Sjölinder, M., Göndör, A., Mariano, P., Wang, S., Kanduri, C., Lezcano, M., Sandhu, K.S., Singh, U., et al. 2006. Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra- and interchromosomal interactions. Nat. Genet. 38: 1341-1347