Genome Assemblies, Analyses, and Comparisons

DNA测序技术的进步使基因组研究的新领域成为可能，使基因组变异和表型之间的精细联系成为可能。我们正在研究各种真核和原核非模式生物的转录组和基因组，并为获得生物学见解做出了贡献。我们使用广义Ruzzo-Tompa算法来查找基因组序列中的重复序列，并实现了该算法，称为RepWords。在另一项与基因组重复序列调查相关的研究中，我们测试了哺乳动物全域穿插重复序列（MIRs）为人类基因组提供功能增强子的可能性。我们发现mir高度集中在K562和HeLa人类细胞类型的增强子中，并且发现mir衍生的增强子是转录因子结合位点的丰富来源。因此，MIRs可以在人类基因组中发挥调节功能，这项研究有助于解释为什么它们是最古老的转座因子家族。

Technological advances in DNA sequencing are enabling new areas of genomic research allowing fine connections between genomic variants and phenotype. We are studying transcriptomes and genomes from a variety of eukaryotic and prokaryotic non model organisms and have contributed to gain biological insights. We have used the generalized Ruzzo-Tompa algorithm to find repeats in genomic sequences and made an implementation of the algorithm called RepWords. In another study related to the investigation of repeated sequences in genomes we tested the possibility that mammalian-wide interspersed repeats (MIRs) contribute functional enhancers to the human genome. We found that MIRs are highly concentrated in enhancers of the K562 and HeLa human cell-types and MIR-derived enhancers were found to be a rich source of transcription factor binding sites. Therefore, MIRs can exercise a regulatory function in the human genome and this study contributes to explain why their role as the most ancient family of transposable elements.