The association of epidermal growth factor receptor DNA fragments with nuclear matrix in glioblastoma cell lines was investigated. Two different DNA fragments (primer I-III, 940 bp and primer IV-V, 110 bp) were amplified in both genomic DNA and nuclear matrix-associated DNA. It was found that the 110 bp DNA fragment (primer IV-V) from a non-encoding region was more closely associated with the nuclear matrices of cell line U343, U373, A172, and T98 than with U87. The other DNA fragment (primer I-III) was found in both the genomic DNA and NM DNA from cell line of U343 and U87. Another long DNA fragment (primer I-II, 1015 bp) was not detected in the DNA of all cell lines. Our findings suggest that the attachment of the 110 bp DNA fragments to nuclear matrix may contribute to the growth and malignancy of glioblastoma.