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1.
Chinese Journal of Medical Genetics ; (6): 222-226, 2006.
Article in Chinese | WPRIM | ID: wpr-263811

ABSTRACT

<p><b>OBJECTIVE</b>To investigate single nucleotide polymorphisms (SNPs) and the distribution of their haplotypes in caspase-8, -10 genes in Zhejiang Han nationality in China.</p><p><b>METHODS</b>PCR, denaturing high-performance liquid chromatography (DHPLC) and DNA sequencing were used to detect the SNPs in the 2nd-5th exons of caspase-10 gene, the 8th-10th exons of caspase-8 and their flanking sequences. Expectation Maximization (EM) algorithm was used for haplotype frequencies analysis and pairwise linkage disequilibrium (LD) test.</p><p><b>RESULTS</b>(1) Two SNPs, A2823G and A12799G, were identified in caspase-10 gene, located in exon 2 and exon 5 respectively. A12799G was newly found with low informativeness. Three SNPs were identified in caspase-8 gene; A43466G, G51484A and G52951A were located in exon 8, exon 9 and intron 9, respectively. They do not change the primary structure of the encoded protein. (2) Linkage equilibrium was observed between A2823G in caspase-10 gene and the three sites in caspase-8 gene. A43466G and G52951A, and G51484A and G52951A in caspase-8 gene were also in linkage equilibrium. Their coefficients of disequilibrium were near 0. Whereas strong linkage disequilibrium was observed between A43466G and G51484A, because its coefficient of disequilibrium was near 1. (3) A total of 11 haplotypes were estimated within A2823G in caspase-10 gene and three sites in caspase-8 gene. A-2823/A-43466/G-51484/G-52951 was the main haplotype with a frequency of 0.3811. A-2823/A-43466/G-51484/A-52951 was the second haplotype with a frequency of 0.2536. The polymorphism information content of their haplotypes was 0.7106.</p><p><b>CONCLUSION</b>The SNPs of caspase-8, -10 genes in Han Chinese of Zhejiang could be parsed into at least three different haplotype blocks. The polymorphism information content can be improved by using haplotype analysis of several SNPs.</p>


Subject(s)
Humans , Alleles , Base Sequence , Caspase 10 , Genetics , Caspase 8 , Genetics , China , Ethnology , DNA , Ethnicity , Genetics , Gene Frequency , Haplotypes , Polymorphism, Single Nucleotide
2.
Chinese Journal of Pathology ; (12): 513-517, 2004.
Article in Chinese | WPRIM | ID: wpr-283483

ABSTRACT

<p><b>OBJECTIVE</b>To develop a protocol for gene rearrangement study in non-Hodgkin's lymphoma (NHL) by PCR-directed gel-scan method and to set up quantitative criteria for IgH gene rearrangement which can be applied in the follow up of lymphoma patients.</p><p><b>METHODS</b>IgH gene rearrangement studies were carried out in 96 cases of B-cell NHL. The detection rate of clonality was evaluated. Sixty-five cases of IgH gene rearranged cases proven by FR3A-directed PCR and PAGE and 8 cases of benign lymphoid tissues (5 cases of reactive lymphoid hyperplasia, 3 cases of chronic tonsillitis), 5 cases of normal peripheral blood mononuclear cells were analyzed by gel-scan method and the proportion of h1/h2 (heights of peak1 and peak2 of gel-scan) was calculated.</p><p><b>RESULTS</b>The detection rate of IgH gene clonality was up to 68% using primer FR3A in the 96 B-cell NHL cases. The detection rate was up to 61% using primer FR2A. With a combination of primers FR3A and FR2A, the detection rate increased to 83%. Gel-scan curve showed that the value of h1/h2 was greater than 3 in all the 65 cases with IgH gene rearranged. In the 8 benign lymphoid tissue cases showed h1/h2 < 1.5, 5 cases with normal peripheral blood mononuclear cells showed a bell-shaped curve.</p><p><b>CONCLUSIONS</b>In the gel-scan curve of gene rearrangement studies in non-Hodgkin's lymphoma samples, the value of h1/h2 greater than 3 represents a true clonal proliferation. The peaks with relative heights less than 1.5 may not be significant and likely represent polyclonal cell population. A value between 1.5 and 3 however requires clinical follow-up. The success rate of rearrangement studies in B-cell NHL can be increased by using a combination of primers FR3A and FR2A.</p>


Subject(s)
Adolescent , Adult , Aged , Aged, 80 and over , Child , Female , Humans , Male , Middle Aged , DNA Primers , Electrophoresis, Gel, Two-Dimensional , Gene Rearrangement, B-Lymphocyte, Heavy Chain , Genes, Immunoglobulin , Immunoglobulin Heavy Chains , Genetics , Lymphoma, B-Cell , Genetics , Allergy and Immunology , Pathology , Lymphoma, B-Cell, Marginal Zone , Genetics , Allergy and Immunology , Pathology , Lymphoma, Large B-Cell, Diffuse , Genetics , Allergy and Immunology , Pathology , Polymerase Chain Reaction
3.
Chinese Journal of Medical Genetics ; (6): 633-635, 2004.
Article in Chinese | WPRIM | ID: wpr-321177

ABSTRACT

<p><b>OBJECTIVE</b>To investigate the single nucleotide polymorphisms (SNPs) and the distribution of their haplotypes in caspase-3 gene in Zhejiang Han nationality in China.</p><p><b>METHODS</b>Denaturing high-performance liquid chromatography (DHPLC) and DNA sequencing were used to detect the SNPs in the regulatory region and the exons 2-7 and their flanking sequences in caspase-3 gene. Expectation maximization (EM) algorithm was used for haplotype frequencies analysis and pairwise linkage disequilibrium test.</p><p><b>RESULTS</b>(1) Three SNPs were identified in caspase-3 gene; the three sites C829A, A17532C and C20541T were located in 5' regulatory region, intron 4 and 3' regulatory region, respectively. (2) Strong linkage disequilibrium was found among these SNPs; site A17532C and C20541T were in complete linkage disequilibrium. (3) C-829/A-17532/C-20541 (54.3%) was the main haplotype of Zhejiang Han nationality.</p><p><b>CONCLUSION</b>The above findings indicated there is strong linkage disequilibrium among the three SNPs in caspase-3 gene in Han nationality of Zhejiang province and the main haplotype of Han nationality is obviously different from that of North American.</p>


Subject(s)
Humans , Asian People , Genetics , Caspase 3 , Caspases , Genetics , China , Ethnology , DNA Mutational Analysis , Gene Frequency , Genotype , Haplotypes , Introns , Linkage Disequilibrium , Polymorphism, Single Nucleotide
4.
Chinese Journal of Hematology ; (12): 583-587, 2004.
Article in Chinese | WPRIM | ID: wpr-229924

ABSTRACT

<p><b>OBJECTIVE</b>To investigate the rate of dual rearrangements of lymphocytic antigen receptor genes in non-Hodgkin lymphomas (NHL) and its pathogenesis and pathologic significance.</p><p><b>METHODS</b>PCR analysis of monoclonal, polyclonal and dual rearrangements of IgH and TCR gamma, TCR beta genes was carried out in 125 cases of NHL to evaluate the rate of dual rearrangements, immunohistochemistry was performed for a Ki67 protein expression in 117 cases and the proliferation index was calculated. The relationship between antigen receptor gene rearrangements and proliferation index was analyzed.</p><p><b>RESULTS</b>Combination of the two pairs of IgH gene primers with the multiplex PCR for TCR gamma and TCR beta gene revealed dual rearrangements in 8% (8/96) of B-NHL, 17% (5/29) of T-NHL. In B cell NHL, IgH gene monoclonal, dural and polyclonal rearrangements were identified in 65, 8 and 15 cases respectively, while in T-cell NHL, they were in 15, 5 and 9 cases, respectively. There was no significant difference between proliferation index and monoclonal, dual, polyclonal rearrangements in both B-NHL and T-NHL by One-way test.</p><p><b>CONCLUSION</b>Dual rearrangements in NHL are not rare and have no relationship with proliferation index.</p>


Subject(s)
Adolescent , Adult , Aged , Aged, 80 and over , Child , Female , Humans , Male , Middle Aged , Young Adult , Carrier Proteins , Genetics , Cell Proliferation , Gene Rearrangement , Genes, T-Cell Receptor gamma , Genetics , Immunohistochemistry , Ki-67 Antigen , Metabolism , Lymphoma, B-Cell , Genetics , Metabolism , Pathology , Lymphoma, Non-Hodgkin , Genetics , Metabolism , Pathology , Lymphoma, T-Cell , Genetics , Metabolism , Pathology , Polymerase Chain Reaction , Receptors, Antigen , Genetics
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