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Publication for Transpogene
Adaptive Evolution Coupled with Retrotransposon Exaptation Allowed for the Generation of a Human Protein Specific Coding Gene That Promotes Cancer Cell Proliferation and Metastasis in Both Haematological Malignancies and Solid Tumours: The Extraordinary Case of MYEOV Gene
[…] presence of TEs by RepeatMasker . The program was run in both default and sensitive mode, using a matrix optimal for MYEOV GC level to avoid false masking. Respective searches using PLOTREP , the TranspoGene database , and BLASTN [, ] were also performed. MYEOV locus automated alignments downloaded from the UCSC Genome Browser Database [–] were used to extract syntenic DNA segments in numero […]
Inferring the expression variability of human transposable element derived exons by linear model analysis of deep RNA sequencing data
[…] We downloaded Table Human Exonized TEs from the TranspoGene website . Genome coordinates were converted from hg18 (Human Genome version 18) to hg19 by the LiftOver tool hosted on the UCSC genome browser server . The location in the host gene, l […]
Genome Wide Detection of Gene Coexpression Domains Showing Linkage to Regions Enriched with Polymorphic Retrotransposons in Recombinant Inbred Mouse Strains
[…] C57BL/6J and A/J and thus nonpolymorphic between the two strains. To obtain data on the abundance of “fixed” TEs in mice, lists of TEs located within all protein-coding genes were downloaded from the TranspoGene database (http://transpogene.tau.ac.il). Recombination rates across the mouse genomes corresponded to the values calculated in a recent report ().Data on genomic binding sites for several […]
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