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Epigenetic regulation during cancer transitions across 11 tumour types

Chromatin accessibility is essential in regulating gene expression and cellular identity, and alterations in accessibility have been implicated in driving cancer initiation, progression and metastasis1–4. Although the genetic contributions to oncogenic transitions have been investigated, epigenetic drivers remain less understood. Here we constructed a pan-cancer epigenetic and transcriptomic atlas using single-nucleus chromatin accessibility data (using single-nucleus assay for transposase-accessible chromatin) from 225 samples and matched single-cell or single-nucleus RNA-sequencing expression data from 206 samples. With over 1 million cells from each platform analysed through the enrichment of accessible chromatin regions, transcription factor motifs and regulons, we identified epigenetic drivers associated with cancer transitions. Some epigenetic drivers appeared in multiple cancers (for example, regulatory regions of ABCC1 and VEGFA; GATA6 and FOX-family motifs), wherea ....

United States , Featurematrix Signac , Rxm Leica Biosystems , Mycoalert Lonza , Perkin Elmer , Ensdb Hsapiens , Txdb Hsapiens , K Metstat Panel , Cell Signalling Technology , Xgen Exome Research Panel , Library Gel Bead Kit , Jackson Laboratory , International Cell Line Authentication Committee , Washington University School Of Medicine , Library Prep Kit , Cell Signaling Technology , Institutional Review Board , Washington University , Chromium Next , Cell Multiome , Gene Expression , Thermo Fisher Scientific , Genomics Single Indexn Set , Genomics Dual Index , Miltenyi Dead Cell Removal Kit , Genomics Chromium ,

Top tips for RNA-sequencing that involves degraded inputs

In this article, Roche Diagnostics elucidates upon some of their top tips and recommendations for anyone performing RNA-sequencing with degraded RNA inputs and demonstrate how to improve efficiency and performance. ....

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