Inference code for "Towards Spatial Transcriptomics-driven Pathology Foundation Models". This repository contains the basic model code as well as instructions to run inference on H&E and spatial ...

Creative Commons (CC): This is a Creative Commons license. Attribution (BY): Credit must be given to the creator. EncoderMap is a dimensionality reduction method that is tailored for the analysis of ...

Network estimation is essential for understanding the structure and function of biological systems, but current statistical approaches fail to capture intersubject heterogeneity or cross-modality ...

In the past Microsoft created many great tools, and one of these tools is Microsoft Expression Studio. Many users are concerned whether these old tools can work on modern operating systems, therefore ...

Characterizing cell identities and the effects of perturbations through the analysis of expression differences between groups of cells is a crucial challenge for single-cell omics. Conducting such a ...

Through the developments of Omics technologies and dissemination of large-scale datasets, such as those from The Cancer Genome Atlas, Alzheimer’s Disease Neuroimaging Initiative, and Genotype-Tissue ...

Single-cell transcriptional and epigenomics profiles have been applied in a variety of tissues and diseases for discovering new cell types, differentiation trajectories, and gene regulatory networks.

Figure: Overview of SPIDER framework. SPIDER integrates spatial transcriptomics (ST) data with reference scRNA-seq information by jointly leveraging spatial structure, transcriptional similarity, and ...