Duanduan Ma

Streamline CNV - A Handy Nextflow Pipeline for Chromosomal Copy Number Variation Analysis

Streamline CNV is a Nextflow pipeline for CNV analysis that simplifies processing, visualization, and interpretation of copy number data across various sequencing types and species.

Persistent interferon signaling and clonal expansion mark early events in DNA methylation damage-induced liver cancer

This study identifies persistent interferon signaling and clonal expansion as early events in NDMA-induced liver cancer by analyzing molecular changes in mice.

Single-cell analyses reveal tissue-specific contextualization 1 of HIF-1 activity

The paper uses single-cell analysis to show that HIF-1 activity leads to shared and context-specific transcriptional responses across different tissues and cell types in C. elegans.

Sequencing-based quantitative mapping of the cellular small RNA landscape

The paper introduces AQRNA-seq, a method for accurate small RNA quantification, and demonstrates its application to bacterial tRNA pools revealing copy number variation and modification patterns.