Chenghang Chuck Zong

Intra-Complex Differential Transcription Strategies for Scaffold versus Effector Proteins

This study compares transcription bursting patterns between scaffold and effector proteins in multi-protein complexes, finding that scaffold proteins use more frequent, smaller bursts to maintain homeostatic expression.

SigFormer: an Attention-Based Framework for Robust Single-Sample Mutational Signature Decomposition

SigFormer improves single-sample mutational signature decomposition by using a transformer framework, outperforming existing methods in high-noise and overcomplete settings.

Benchmarking of duplex sequencing approaches to reveal somatic mutation landscapes

This study benchmarks six duplex sequencing technologies to evaluate their performance in detecting somatic mutations across different genomic contexts and tissue types.

To jump or not to jump: Comparing effects of phenotypic plasticity on the visual responses and escape behavior of locusts and grasshoppers

This study compares phenotypic plasticity effects on jump escape behavior and LGMD neuron properties in locusts and grasshoppers, finding behavioral differences but not physiological or transcriptomic ones.

Expanding the Genome in a Bottle Truth Set: Detection and Validation of Novel Low-frequency Variants Using High-accuracy NanoSeq

The paper introduces NanoSeq-MBN, a method improving variant detection in whole-genome sequencing, expanding the GIAB truth set with novel low-frequency variants and enabling somatic variant benchmarking.

Timing the onset of homologous recombination deficiency before breast cancer diagnosis

The paper estimates the timing of homologous recombination deficiency (HRD) onset in breast cancers using HRDTimer, finding HRD occurs years before diagnosis in different subtypes.

Shaker it OFF: Biophysical Characterization of an Inactivating Potassium Conductance Mediating Object Segmentation in a Collision-Detecting Neuron

The paper characterizes a Shaker potassium channel in a grasshopper neuron involved in visual object segmentation through electrophysiology and computational modeling.

Single-nucleotide Resolution Epitranscriptomic Profiling Uncovers Dynamic m6A Regulation in Bovine Preimplantation Development

This study uses SAC-seq to map m6A modifications at single-nucleotide resolution in bovine preimplantation embryos, identifying a critical m6A site in RPL12 that regulates translation and development.

Single-cell Total-RNA Profiling Unveils Regulatory Hubs of Transcription Factors

The paper introduces snapTotal-seq, a single-cell RNA-seq method that measures both nascent and mature RNA, and identifies regulatory hubs in cell cycle and senescence using LASSO regression.

Characterization of Cancer Evolution Landscape Based on Accurate Detection of Somatic Mutations in Single Tumor Cells

This study develops scNanoSeq to detect somatic mutations in single tumor cells, revealing subtype-specific evolutionary patterns and a reprogramming and critical mutation co-timing model in breast cancer.

Topologically Dependent Abundance of Spontaneous DNA Damage in Single Human Cells

This paper introduces a new single-cell WGA method to detect DNA damage-associated variants and finds that dSNV abundance is linked to genome topological compartments.