Project description:Human endogenous retroviruses (HERVs), remnants of ancient infections, comprise ~8% of the human genome and influence development, immunity, and cancer. Studying them is limited by short-read sequencing, which cannot uniquely assign reads to repetitive elements. We present ERVmancer, a phylogeny-informed method that resolves mapping ambiguity and quantifies HERV expression from individual loci to entire clades. Benchmarking with matched long- and short-read data shows ERVmancer surpasses existing methods in sensitivity and specificity. Application recapitulates long-read observed HERV patterns in multiple sclerosis and reveals novel biology in breast cancer, including p53-mediated suppression of HERVH-LTR7, enabling scalable study of retroviral mechanisms.
Project description:Phylogeny of the Eurasian genus Jurinea (Asteraceae: Cardueae): Support for a monophyletic genus concept and a first hypothesis on overall species relationships
Project description:High-coverage whole genome sequences using Hiseq X for 4 individuals to investigate their Y chrosmosmes' relationship to the known phylogeny.
This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/
