Publications by Maria Brbic | EPFL Graph Search

Abstract IA02: Cancer-specific foundation models: Friend or foe in healthcare AI?

Foundation models have become a powerful tool in single-cell transcriptomics, enabling broad generalization across tasks such as cell type annotation, data integration, and drug response prediction. Yet, most current models are trained predominantly on hea ...

American Association for Cancer Research (AACR)2025

Towards multimodal foundation models in molecular cell biology

Maria Brbic

The rapid advent of high-throughput omics technologies has created an exponential growth in biological data, often outpacing our ability to derive molecular insights. Large-language models have shown a way out of this data deluge in natural language proces ...

2025

Mammary Intraepithelial Lymphocytes and Intestinal Inputs Shape T Cell Dynamics in Lactogenesis

Maria Brbic

Pregnancy brings about profound changes in the mammary gland to prepare for lactation, yet immunocyte changes that accompany this rapid remodeling are incompletely understood. We comprehensively analyzed mammary T cells, revealing a marked increase in CD4+ ...

NATURE PORTFOLIO2025

Toward universal cell embeddings: integrating single-cell RNA-seq datasets across species with SATURN

Maria Brbic, Ziang Li

Analysis of single-cell datasets generated from diverse organisms offers unprecedented opportunities to unravel fundamental evolutionary processes of conservation and diversification of cell types. However, interspecies genomic differences limit the joint ...

Nature Portfolio2024

Graph Representations and Algorithms in Biomedicine

Maria Brbic

World Scientific Publ Co Pte Ltd2023

Organization of the human intestine at single-cell resolution

Maria Brbic

The intestine is a complex organ that promotes digestion, extracts nutrients, participates in immune surveillance, maintains critical symbiotic relationships with microbiota and affects overall health(1). The intesting has a length of over nine metres, alo ...

NATURE PORTFOLIO2023

Aging Fly Cell Atlas identifies exhaustive aging features at cellular resolution

Maria Brbic, Sandy Lee

Aging is characterized by a decline in tissue function, but the underlying changes at cellular resolution across the organism remain unclear. Here, we present the Aging Fly Cell Atlas, a single-nucleus transcriptomic map of the whole aging Drosophila. We c ...

American Association for the Advancement of Science2023