Area of research
Molecular Biology · Biophysics
Research interest
Pengyi Yang, Ph.D., is an Associate Professor at the School of Mathematics and Statistics. He heads the Computational Trans-Regulatory Biology group at Charles Perkins Centre (CPC), the University of Sydney, and holds a conjoint appointment as the Head of Computational Systems Biology unit at Children's Medical Research Institute (CMRI), at the Westmead Research precinct.
SpaNorm: spatially-aware normalization for spatial transcriptomics data
Multitask benchmarking of single-cell multimodal omics integration methods
Histone methyltransferase PRDM9 promotes survival of drug-tolerant persister cells in glioblastoma
Evaluating spatially variable gene detection methods for spatial transcriptomics data
Interpretable deep learning in single-cell omics
Gene regulatory network reconstruction: harnessing the power of single-cell multi-omic data
Vascular senescence and leak are features of the early breakdown of the blood–brain barrier in Alzheimer’s disease models
Phosphoproteomics reveals rewiring of the insulin signaling network and multi-nodal defects in insulin resistance
Multi-task learning from multimodal single-cell omics with Matilda
Spatial analysis for highly multiplexed imaging data to identify tissue microenvironments
Evaluation of deep learning-based feature selection for single-cell RNA sequencing data analysis
Benchmarking clustering algorithms on estimating the number of cell types from single-cell RNA-sequencing data
Phosphoproteomics of three exercise modalities identifies canonical signaling and C18ORF25 as an AMPK substrate regulating skeletal muscle function
Differentiation of brain and retinal organoids from confluent cultures of pluripotent stem cells connected by nerve-like axonal projections of optic origin
Single‐Cell Transcriptome Profiling Reveals Multicellular Ecosystem of Nucleus Pulposus during Degeneration Progression
PhosR enables processing and functional analysis of phosphoproteomic data
Feature selection revisited in the single-cell era
A benchmark study of simulation methods for single-cell RNA sequencing data
Akt phosphorylates insulin receptor substrate to limit PI3K-mediated PIP3 synthesis
Clonal evolution in liver cancer at single-cell and single-variant resolution
A hierarchical approach to removal of unwanted variation for large-scale metabolomics data
Global phosphoproteomics reveals DYRK1A regulates CDK1 activity in glioblastoma cells
Uncovering cell identity through differential stability with Cepo
Single-cell transcriptome profiling reveals multicellular ecosystem of nucleus pulposus during degeneration progression
Ensemble deep learning in bioinformatics
scClassify: sample size estimation and multiscale classification of cells using single and multiple reference
CiteFuse enables multi-modal analysis of CITE-seq data
Integrated Glycoproteomics Identifies a Role of N-Glycosylation and Galectin-1 on Myogenesis and Muscle Development
scMerge leverages factor analysis, stable expression, and pseudoreplication to merge multiple single-cell RNA-seq datasets
Multi-omic Profiling Reveals Dynamics of the Phased Progression of Pluripotency