Ruijia Wang

The paper constructs a single-cell DNA sequencing atlas and introduces GUMM, a computational workflow, to accurately infer gene editing allelism despite technical artifacts.

SANTON is a toolkit for analyzing off-target sequencing data from gene-editing technologies, identifying more potential off-target sites than previous studies.

scGenAI improves single-cell state classification by integrating multimodal biological features and LLMs, outperforming traditional methods in cell type prediction and AML malignant cell state identification.

The paper introduces CRISPR-Taiji to engineer chromosome-specific aneuploidy and characterizes its transcriptomic effects, linking aneuploidy to ccRCC phenotypes.

MAAPER analyzes alternative polyadenylation using nearSite reads, accurately predicting PASs and examining APA events with robust statistics across bulk and single-cell RNA samples.

This study shows FMRP stabilizes mRNAs with optimal codons in neurons, linking codon usage to mRNA stability and contributing to FXS pathogenesis.

This study shows that FMRP loss reduces ribosome stalling on specific mRNAs, leading to altered H3K36me3 marks and alternative splicing of autism-related genes.