A map of nuclear matrix attachment regions within the breast cancer loss-of-heterozygosity region on human chromosome 16q22.1
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A map of nuclear matrix attachment regions within the breast cancer loss-of-heterozygosity region on human chromosome 16q22.1. / Shaposhnikov, Sergey A.; Akopov, Sergey B.; Chernov, Igor P.; Thomsen, Preben Dybdahl; Jørgensen, Claus Bøttcher; Collins, Andrew R.; Frengen, Eirik; Nikolaev, Lev G.
In: Genomics, Vol. 89, No. 3, 2007, p. 354-361.Research output: Contribution to journal › Journal article › Research › peer-review
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T1 - A map of nuclear matrix attachment regions within the breast cancer loss-of-heterozygosity region on human chromosome 16q22.1
AU - Shaposhnikov, Sergey A.
AU - Akopov, Sergey B.
AU - Chernov, Igor P.
AU - Thomsen, Preben Dybdahl
AU - Jørgensen, Claus Bøttcher
AU - Collins, Andrew R.
AU - Frengen, Eirik
AU - Nikolaev, Lev G.
PY - 2007
Y1 - 2007
N2 - There is abundant evidence that the DNA in eukaryotic cells is organized into loop domains that represent basic structural and functional units of chromatin packaging. To explore the DNA domain organization of the breast cancer loss-of-heterozygosity region on human chromosome 16q22.1, we have identified a significant portion of the scaffold/matrix attachment regions (S/MARs) within this region. Forty independent putative S/MAR elements were assigned within the 16q22.1 locus. More than 90% of these S/MARs are AT rich, with GC contents as low as 27% in 2 cases. Thirty-nine (98%) of the S/MARs are located within genes and 36 (90%) in gene introns, of which 15 are in first introns of different genes. The clear tendency of S/MARs from this region to be located within the introns suggests their regulatory role. The S/MAR resource constructed may contribute to an understanding of how the genes in the region are regulated and of how the structural architecture and functional organization of the DNA are related.
AB - There is abundant evidence that the DNA in eukaryotic cells is organized into loop domains that represent basic structural and functional units of chromatin packaging. To explore the DNA domain organization of the breast cancer loss-of-heterozygosity region on human chromosome 16q22.1, we have identified a significant portion of the scaffold/matrix attachment regions (S/MARs) within this region. Forty independent putative S/MAR elements were assigned within the 16q22.1 locus. More than 90% of these S/MARs are AT rich, with GC contents as low as 27% in 2 cases. Thirty-nine (98%) of the S/MARs are located within genes and 36 (90%) in gene introns, of which 15 are in first introns of different genes. The clear tendency of S/MARs from this region to be located within the introns suggests their regulatory role. The S/MAR resource constructed may contribute to an understanding of how the genes in the region are regulated and of how the structural architecture and functional organization of the DNA are related.
KW - Former LIFE faculty
KW - Functional genomics
KW - Gene regulation
KW - Physical mapping
KW - Nuclear matrix
KW - Scaffold/matrix attachment regions
U2 - 10.1016/j.ygeno.2006.11.003
DO - 10.1016/j.ygeno.2006.11.003
M3 - Journal article
C2 - 17188460
VL - 89
SP - 354
EP - 361
JO - Genomics
JF - Genomics
SN - 0888-7543
IS - 3
ER -
ID: 8048639