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Biomedical subjects

Peter D Hoff

Publications and source records attributed to Peter D Hoff.

2 recordsLinked to original sources

Subset clustering of binary sequences, with an application to genomic abnormality data.

This article develops a model-based approach to clustering multivariate binary data, in which the attributes that distinguish a cluster from the rest of the population may depend on the cluster being considered. The clustering approach is based on a multivariate Dirichlet process mixture model, which allows for the estimation of the number of clusters, the cluster memberships, and the cluster-specific parameters in a unified way. Such a clustering approach has applications in the analysis of genomic abnormality data, in which the development of different types of tumors may depend on the presence of certain abnormalities at subsets of locations along the genome. Additionally, such a mixture model provides a nonparametric estimation scheme for dependent sequences of binary data.

Carcinoma, Renal Cell↗

Tumor regionality in the mouse intestine reflects the mechanism of loss of Apc function.

Inherited colorectal cancer syndromes in humans exhibit regional specificity for tumor formation. By using mice with germline mutations in the adenomatous polyposis coli gene (Apc) and/or DNA mismatch repair genes, we have analyzed the genetic control of tumor regionality in the mouse small intestine. In C57BL/6 mice heterozygous for the Apc multiple intestinal neoplasia mutation (Apc(Min)), in which tumors are initiated by loss of heterozygosity by means of somatic recombination, tumors form preferentially in the distal region of the small intestine. By contrast, the formation of tumors initiated by allelic silencing on the AKR Apc(Min) genetic background is strongly skewed toward the ileocecal junction. A third tumor regionality is displayed by tumors that develop in MMR-deficient Apc(Min/+) mice, in which mutation of the Apc gene is responsible for tumor initiation. Thus, tumor regionality in the small intestine of Apc(Min/+) reflects the mechanism by which the wild-type allele of Apc is inactivated. We have reexamined the mechanism of Apc loss in tumors from Apc(1638N/+) mice, in which tumors of the small intestine develop in a regional pattern overlapping that of mismatch repair-deficient mice. In contrast to previous reports, we find that tumors from Apc(1638N/+) mice on a congenic C57BL/6 background maintain the wild-type allele of Apc. Our studies demonstrate a pathway-specific regionality for tumor development in mouse models for inherited intestinal cancer, an observation that is reminiscent of the regional preference for tumor development in the human colon. Perhaps, the power of mouse genetics and biology can be harnessed to identify genetic and other factors that contribute to tumor regionality.

Adaptor Proteins, Signal Transducing↗