Benchmarking spatial clustering methods for spatial resolved transcriptomics

a computational framework to identify and characterize cell niches from spatial omics data at single-cell resolution

Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data

Repo for TCMChat: A Generative Large Language Model for Traditional Chinese Medicine

A computational method to rank and infer drug-responsive cell population towards in-silico drug perturbation using a target-perturbed gene regulatory network (tpGRN) for single-cell transcriptomic …

A manually curated database of literature-supported ligand-receptor interactions in human and mouse

an SRT simulator for simulating multiple spatial variability in spatial resolved transcriptomics and generating unbiased simulated SRT data

SCOTCH is a Single-Cell multi-modal integration method leveraging the Optimal Transport algorithm and a cell matCHing strategy

Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network

an integrative algorithm to distinguish spatially variable cell subclusters by reconstructing cells onto a pseudo space with spatial transcriptome references

Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

a spatial deconvolution method based on deep learning frameworks, which converts bulk transcriptomes into spatially resolved single-cell expression profiles

The source code and results of performance comparison on the detail of the process among scCATCH, CellAssign, Garnett, SingleR, scMap and CHETAH, and CellMatch database

Identifying key genes and cell subclusters for time-series single cell sequencing data

The source code and results for different methods on annotating external testing datsets of human and mouse.

Infer cell-cell communications based on feed-forward neural network

A clinical genomics-guided prioritizing strategy enables accurately selecting proper cancer cell lines for biomedical research