SNP-based somatic deletion mapping of chromosomal region 11p15.5 identifies potential breakpoint mutations within the TRIM3 gene. A. Superimposition of single nucleotide polymorphism (SNP) and sequence tag site (STS)-based LOH data. (Note that compared to Fig. 1, the map has been inverted to comply with the 5'-3' transcription orientation of the TRIM3 gene). STS markers (D11S series) are indicated on the top; tumor histology, grades and numbers are indicated on the left. Allelic retention, allelic loss and non-informative data are represented by open, closed and grey circles, respectively. Minimal and maximal extension of STS-based areas of allelic loss described in Fig. 1, are shown with filled and hatched grey areas, respectively. Areas of local allelic retention defined by SNP analysis within segments of allelic loss defined by STS analysis are framed by open rectangles. SNP and STS data, as well as SNP markers (rs series) used are related to a structural map of the TRIM3 gene with its coding regions shown in black (bottom). Thus, SNP-based allelic retention of short sections within the areas of LOH in primary gliomas ASIII 098, GBM 157, and GBM 164 suggest potential homozygous deletions within the TRIM3 gene. B. SNP bi-allelism in primary tumors with 11p15.5 allelic loss. Sequence electrophoretograms of genomic DNA extracted from primary tumor samples amplified at indicated SNP markers of the TRIM3 gene area; peak color codes: green (A), blue (C), black (G), red (T). Abbreviations: GBM, Glioblastoma multiforme; AS, astrocytoma; OG, oligodendroglioma; RET, retention; LOH, loss of heterozygosity; NI, non-informative.