monocle3

focusing on gene regulatory networks and scRNA-seq trajectory analysis over time series to decode cellular differentiation.

Single-cell RNA-seq analysis of lung cancer (NSCLC) using Seurat, SingleR, and Monocle3. Includes QC, clustering, marker identification, pathway enrichment, and pseudotime analysis.

Transcriptional and epigenetic signature of muscle tissue cells linked to atrophy

Single-cell analysis of EMT and tumor-microenvironment signaling in gastric cancer with lncRNA prioritization and TCGA-STAD validation.

English Windows desktop application for downstream single-cell RNA-seq analysis with CellChat, cell-cycle, and Monocle 3 pseudotime workflows.

snRNA+snATAC multiome of AD DLPFC microglia — chromVAR motif analysis, WNN integration, peak-to-gene linkage, Monocle3 trajectory | Signac · Seurat · R

CITE-seq WNN integration (RNA+ADT, Seurat) + Monocle3 pseudotime, with a documented dependency-resolution trail

Single-cell RNA-seq analysis of mesenchymal progenitors and fibroblasts during axolotl limb regeneration using Seurat and Monocle3.

Introduction to Trajectory Analysis with Monocle3

Accelerate linear attention with CUDA kernels for GLA, KDA, GDN, and Lightning Attention on NVIDIA Hopper and Blackwell GPUs