A map of nuclear matrix attachment regions within the breast cancer loss-of-heterozygosity region on human chromosome 16q22.1

TY - JOUR

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

SN - 0888-7543

VL - 89

SP - 354

EP - 361

JO - Genomics

JF - Genomics

IS - 3

ER -