SERpredict：检测通过转座因子外显子化产生的组织或肿瘤特异性亚型
SERpredict: Detection of tissue- or tumor-specific isoforms generated through exonization of transposable elements
摘要：
背景资料：已知转座元件（TE）会影响转录组，因为新的外显子是从内含子转座元件产生的（这称为外显子化），或者元件插入外显子，导致新的转录本。文献中的几个例子表明，由外切作用产生的同种型对某种组织（例如心肌）是特异性的，或者会引起疾病。因此，外切作用可能对生物体的转录组具有负面影响。结果如下：由于我们的目的是检测人类和小鼠基因组中通过转座元件的外切产生的其他组织或肿瘤特异性亚型，我们设计了自动分析管道SERpredict（SER = Specific Exonized Retroelement），利用贝叶斯统计。通过这个管道，我们发现了几个基因，其中一个转座元件形成了组织或肿瘤特异性同种型。结论：我们的研究结果表明，SERpredict产生了相关的结果，证明了转座元件在塑造人类和小鼠转录组中的重要性。转座元件对人类转录组的影响比对小鼠转录组的影响高几倍，这是由于灵长类动物特异性Alu元件的贡献
英文摘要：
Background: Transposed elements (TEs) are known to affect transcriptomes, because either new exons are generated from intronic transposed elements (this is called exonization), or the element inserts into the exon, leading to a new transcript. Several examples in the literature show that isoforms generated by an exonization are specific to a certain tissue (for example the heart muscle) or inflict a disease. Thus, exonizations can have negative effects for the transcriptome of an organism. Results: As we aimed at detecting other tissue- or tumor-specific isoforms in human and mouse genomes which were generated through exonization of a transposed element, we designed the automated analysis pipeline SERpredict (SER = Specific Exonized Retroelement) making use of Bayesian Statistics. With this pipeline, we found several genes in which a transposed element formed a tissue- or tumor-specific isoform. Conclusion: Our results show that SERpredict produces relevant results, demonstrating the importance of transposed elements in shaping both the human and the mouse transcriptomes. The effect of transposed elements on the human transcriptome is several times higher than the effect on the mouse transcriptome, due to the contribution of the primate-specific Alu elements
机构、总结、中文摘要均由AI分析而来，可能存在错误，请以论文正文为准。
