TE-TSS:ãn int egrãt ed data resour ce of humanãnd mouse transposable element (TE)-derived transcription start site (TSS)

Abstract

Transposable elements (TEs)ãreãbundant in the genomeãnd serveãs crucial regulatory elements. Some TEs functionãs epigenetically regulated promoters,ãnd these TE-derived transcription start sites (TSSs) playã crucial role in regulating genesãssociated with specific functions, suchãs cancerãnd embry ogenesis. Ho w e v er, the lack ofãnãccessible database that sy stematically gathers TE-deriv ed TSS data isã current research gap. Toãddress this, we established TE-TSS,ãn integrated data resource of humanãnd mouse TE-derived TSSs ( http:// xozhanglab.com/ TETSS ). TE-TSS has compiled 2681 RNA sequencing datasets, spanning various tissues, cell linesãnd de v elopmentãl stãges. From these, we identified 5768 human TE-derived TSSsãnd 2797 mouse TE-derived TSSs, with 47%ãnd 38% being experimentally validated, respectively. TE-TSS enables comprehensiv e e xploration of TSS usage in div erse samples, pro viding insights into tissue-specific gene expression patternsãnd transcriptional regulatory elements. Furthermore, TE-TSS compares TE-derived TSS regionsãcross 15 mammalian species, enhancing our understanding of their e v olutionaryãnd functionalãspects. T he establishment of TE-TSS fãcilitates further in v estigations into the roles of TEs in shaping the transcriptomic landscapeãnd offers valuable resources for comprehending their involvement in diverse biological processes.