Influence of the transposable element neighborhood on human gene expression in normal and tumor tissues

@article{citeulike:2623176, abstract = {Transposable elements (TEs) are genomic sequences able to replicate themselves, and to move from one chromosomal position to another within the genome. Many TEs contain their own regulatory regions, which means that they may influence the expression of neighboring genes. TEs may also be activated and transcribed in various cancers. We therefore tested whether gene expression in normal and tumor tissues is influenced by the neighboring TEs. To do this, we associated all human genes to the nearest TEs. We analyzed the expression of these genes in normal and tumor tissues using SAGE and EST data, and related this to the presence and type of TEs in their vicinity. We confirmed that TEs tend to be located in antisense orientation relative to their hosting genes. We found that the average number of tissues where a gene is expressed varies depending on the type of TEs located near the gene, and that the difference in expression level between normal and tumor tissues is greatest for genes that host SINE elements. This deregulation increases with the number of SINE copies in the gene vicinity. This suggests that SINE elements might contribute to the cascade of gene deregulation in cancer cells.}, author = {Lerat, Emmanuelle and Semon, Marie }, citeulike-article-id = {2623176}, doi = {10.1016/j.gene.2007.04.002}, journal = {Gene}, keywords = {expression, gene, te, tissue}, month = {July}, number = {2}, pages = {303--311}, posted-at = {2008-04-02 14:15:03}, priority = {3}, title = {Influence of the transposable element neighborhood on human gene expression in normal and tumor tissues}, url = {http://dx.doi.org/10.1016/j.gene.2007.04.002}, volume = {396}, year = {2007} }

TY - JOUR ID - citeulike:2623176 L3 - citeulike-article-id:2623176 TI - Influence of the transposable element neighborhood on human gene expression in normal and tumor tissues JF - Gene VL - 396 IS - 2 SP - 303 EP - 311 N2 - Transposable elements (TEs) are genomic sequences able to replicate themselves, and to move from one chromosomal position to another within the genome. Many TEs contain their own regulatory regions, which means that they may influence the expression of neighboring genes. TEs may also be activated and transcribed in various cancers. We therefore tested whether gene expression in normal and tumor tissues is influenced by the neighboring TEs. To do this, we associated all human genes to the nearest TEs. We analyzed the expression of these genes in normal and tumor tissues using SAGE and EST data, and related this to the presence and type of TEs in their vicinity. We confirmed that TEs tend to be located in antisense orientation relative to their hosting genes. We found that the average number of tissues where a gene is expressed varies depending on the type of TEs located near the gene, and that the difference in expression level between normal and tumor tissues is greatest for genes that host SINE elements. This deregulation increases with the number of SINE copies in the gene vicinity. This suggests that SINE elements might contribute to the cascade of gene deregulation in cancer cells. KW - expression KW - gene KW - te KW - tissue AU - Lerat, Emmanuelle AU - Semon, Marie PY - 2007/07/15/ UR - http://dx.doi.org/10.1016/j.gene.2007.04.002 ER -