Ruonan Li

Cold sensing by a glutamate receptor drives avoidance behavior in Drosophila larvae

Tumor cell specific total mRNA expression informed neural networks predicts cancer progression

TmSNet predicts tumor cell-specific total mRNA expression from multi-omic data, achieving high accuracy across cancer types and external cohorts.

Deconvolution of Sparse-count RNA Sequencing Data for Tumor Cells Using Embedded Negative Binomial Distributions

The paper develops DeMixNB, a deconvolution model for sparse-count RNA sequencing data, showing its utility in analyzing tumor cell plasticity in breast and lung cancer.

Subclonal mutation load predicts survival and response to immunotherapy in cancers with low to moderate tumor mutation burden

The paper develops CliPP to estimate subclonal mutation load (sML) and shows it predicts survival and immunotherapy response in cancers with low to moderate TMB.

Dscam gene triplication causes neocortical overinhibition in Down syndrome

This study shows that Dscam overexpression in Down syndrome mouse models causes excessive GABAergic inhibition of neocortical pyramidal neurons.

Scalable subclonal reconstruction of cancer cells in DNA sequencing data using a penalized likelihood model

CliPP reconstructs subclonal architecture in cancer DNA sequencing data efficiently and accurately, outperforming existing methods in speed while maintaining high concordance with consensus calls.

isoTarget: a genetic method for analyzing the functional diversity of splicing isoforms in vivo

The paper introduces isoTarget, a genetic method to block specific splicing isoforms and tag them for analysis, revealing their distinct roles in neuronal development.