Data Science Teamlab

Quantitative Donor Histology and Transcriptomics Link Pancreatic Composition and Precancers Across the Adult Lifespan

The paper quantifies PanIN burden and pancreatic composition across age to identify high-risk demographics associated with increased precancer burden.

TiSAM: fusing spatial and histopathology foundation models for whole-slide image segmentation

TiSAM improves whole-slide image segmentation by fusing spatial and histopathology features, achieving high accuracy across diverse datasets and scanners.

CellConsensus: An agent-curated atlas for automatic cell typing

CellConsensus provides a consensus cell typing method by aggregating marker genes from curated atlases and literature, improving accuracy and reproducibility across tissues and platforms.

A generative reference grammar of healthy TCR repertoires reveals cancer-associated immune remodeling

CRAFT, a transformer model, learns a generative grammar of healthy TCR repertoires to detect cancer-associated immune remodeling through structured deviations in sequence space.

Decoding Multicellular Communication Motifs from Spatial Transcriptomics with ALARMIST

ALARMIST identifies multicellular communication motifs in spatial transcriptomics data, revealing microenvironmental drivers of tumor progression in lung and brain cancers.

Cycle-consistent deep generative modeling unifies cellular states across unpaired spatial and single-cell modalities

MultiTME integrates spatial and single-cell data using a cycle-consistent deep generative model, revealing a spatially coherent tumor axis in colorectal cancer.

scPlOver: inferring DNA content from amplification-free single-cell WGS using fragment overlaps

scPlOver infers DNA content from single-cell WGS data using fragment overlaps, improving accuracy in identifying high DNA content cells in ovarian cancer.

STAPLE: automating spatial transcriptomics analysis and AI interpretation

STAPLE automates spatial transcriptomics analysis by integrating multiple tools into a modular framework and provides AI-driven interpretation of results.