Tissue-specific macrophages: how they develop and choreograph tissue biology

E Mass, F Nimmerjahn, K Kierdorf… - Nature Reviews …, 2023‏ - nature.com
Macrophages are innate immune cells that form a 3D network in all our tissues, where they
phagocytose dying cells and cell debris, immune complexes, bacteria and other waste …

Vascular endothelial cell development and diversity

E Trimm, K Red-Horse - Nature Reviews Cardiology, 2023‏ - nature.com
Vascular endothelial cells form the inner layer of blood vessels where they have a key role
in the development and maintenance of the functional circulatory system and provide …

Cross-tissue immune cell analysis reveals tissue-specific features in humans

C Domínguez Conde, C Xu, LB Jarvis, DB Rainbow… - Science, 2022‏ - science.org
Despite their crucial role in health and disease, our knowledge of immune cells within
human tissues remains limited. We surveyed the immune compartment of 16 tissues from 12 …

Multi-omics single-cell data integration and regulatory inference with graph-linked embedding

ZJ Cao, G Gao - Nature Biotechnology, 2022‏ - nature.com
Despite the emergence of experimental methods for simultaneous measurement of multiple
omics modalities in single cells, most single-cell datasets include only one modality. A major …

The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans

The Tabula Sapiens Consortium*, RC Jones… - Science, 2022‏ - science.org
Molecular characterization of cell types using single-cell transcriptome sequencing is
revolutionizing cell biology and enabling new insights into the physiology of human organs …

Transformers in single-cell omics: a review and new perspectives

A Szałata, K Hrovatin, S Becker, A Tejada-Lapuerta… - Nature …, 2024‏ - nature.com
Recent efforts to construct reference maps of cellular phenotypes have expanded the
volume and diversity of single-cell omics data, providing an unprecedented resource for …

Spatially organized cellular communities form the develo** human heart

EN Farah, RK Hu, C Kern, Q Zhang, TY Lu, Q Ma… - Nature, 2024‏ - nature.com
The heart, which is the first organ to develop, is highly dependent on its form to function,.
However, how diverse cardiac cell types spatially coordinate to create the complex …

[HTML][HTML] A transcription factor atlas of directed differentiation

J Joung, S Ma, T Tay, KR Geiger-Schuller… - Cell, 2023‏ - cell.com
Transcription factors (TFs) regulate gene programs, thereby controlling diverse cellular
processes and cell states. To comprehensively understand TFs and the programs they …

Enrichr-KG: bridging enrichment analysis across multiple libraries

JE Evangelista, Z **e, GB Marino… - Nucleic acids …, 2023‏ - academic.oup.com
Gene and protein set enrichment analysis is a critical step in the analysis of data collected
from omics experiments. Enrichr is a popular gene set enrichment analysis web-server …