iSubGen generates integrative disease subtypes by pairwise similarity assessment
Abstract There are myriad types of biomedical data—molecular, clinical images, and others. When a group of patients with the same…
autoencoder
Novel multi-omics deconfounding variational autoencoders can obtain meaningful disease subtyping
Abstract Unsupervised learning, particularly clustering, plays a pivotal role in disease subtyping and patient stratification, especially with the abundance of…
Multi-Run Concrete Autoencoder to Identify Prognostic lncRNAs for 12 Cancers
Abstract Background: Long non-coding RNA plays a vital role in changing the expression profiles of various target genes that lead…
A pan-cancer somatic mutation embedding using autoencoders
Abstract Background: Next generation sequencing instruments are providing new opportunities for comprehensive analyses of cancer genomes. The increasing availability of…
Pan-cancer stratification of solid human epithelial tumors and cancer cell lines reveals commonalities and tissue-specific features of the CpG island methylator phenotype
Abstract Background: The term CpG island methylator phenotype (CIMP) has been used to describe widespread DNA hypermethylation at CpG-rich genomic…