YunZhou Liu

PICTographPlus infers clone-resolved transcriptional programs from bulk RNA-seq by integrating clonal phylogenies and proportions, achieving high accuracy in recovering clone-level expression and localizing pathway changes.

This study examines epigenetic, microbiome, and immune differences in early-onset colorectal cancer (EOCRC) compared to average-onset CRC, finding accelerated epigenetic aging and stronger immune-microbe correlations in EOCRC.

mt.surv is an R package that performs multi-threshold survival analysis to assess the association of continuous predictor variables with time-to-event outcomes, providing a scalar measure for ranking biological variables.

SVCFit estimates SV cellular fractions from bulk sequencing to reconstruct clonal evolution in mCRPC under therapy, showing treatment-driven clonal reconfiguration.