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 …

The diversification of methods for studying cell–cell interactions and communication

E Armingol, HM Baghdassarian, NE Lewis - Nature Reviews Genetics, 2024 - nature.com
No cell lives in a vacuum, and the molecular interactions between cells define most
phenotypes. Transcriptomics provides rich information to infer cell–cell interactions and …

Cell2location maps fine-grained cell types in spatial transcriptomics

V Kleshchevnikov, A Shmatko, E Dann… - Nature …, 2022 - nature.com
Spatial transcriptomic technologies promise to resolve cellular wiring diagrams of tissues in
health and disease, but comprehensive mapping of cell types in situ remains a challenge …

[HTML][HTML] Spatial multiomics map of trophoblast development in early pregnancy

A Arutyunyan, K Roberts, K Troulé, FCK Wong… - Nature, 2023 - nature.com
The relationship between the human placenta—the extraembryonic organ made by the
fetus, and the decidua—the mucosal layer of the uterus, is essential to nurture and protect …

Hypoxic niches attract and sequester tumor-associated macrophages and cytotoxic T cells and reprogram them for immunosuppression

A Sattiraju, S Kang, B Giotti, Z Chen, VJ Marallano… - Immunity, 2023 - cell.com
Glioblastoma (GBM), a highly lethal brain cancer, is notorious for immunosuppression, but
the mechanisms remain unclear. Here, we documented a temporospatial patterning of tumor …

Yolk sac cell atlas reveals multiorgan functions during human early development

I Goh, RA Botting, A Rose, S Webb, J Engelbert… - Science, 2023 - science.org
The extraembryonic yolk sac (YS) ensures delivery of nutritional support and oxygen to the
developing embryo but remains ill-defined in humans. We therefore assembled a …

DMRT1 regulates human germline commitment

N Irie, SM Lee, V Lorenzi, H Xu, J Chen, M Inoue… - Nature Cell …, 2023 - nature.com
Germline commitment following primordial germ cell (PGC) specification during early human
development establishes an epigenetic programme and competence for gametogenesis …

[HTML][HTML] Spatially resolved transcriptomics: a comprehensive review of their technological advances, applications, and challenges

M Cheng, Y Jiang, J Xu, AFA Mentis, S Wang… - Journal of Genetics and …, 2023 - Elsevier
The ability to explore life kingdoms is largely driven by innovations and breakthroughs in
technology, from the invention of the microscope 350 years ago to the recent emergence of …

SCS: cell segmentation for high-resolution spatial transcriptomics

H Chen, D Li, Z Bar-Joseph - Nature methods, 2023 - nature.com
Spatial transcriptomics promises to greatly improve our understanding of tissue organization
and cell–cell interactions. While most current platforms for spatial transcriptomics only offer …

Data analysis guidelines for single-cell RNA-seq in biomedical studies and clinical applications

M Su, T Pan, QZ Chen, WW Zhou, Y Gong, G Xu… - Military Medical …, 2022 - Springer
The application of single-cell RNA sequencing (scRNA-seq) in biomedical research has
advanced our understanding of the pathogenesis of disease and provided valuable insights …