The technological landscape and applications of single-cell multi-omics

A Baysoy, Z Bai, R Satija, R Fan - Nature Reviews Molecular Cell …, 2023 - nature.com
Single-cell multi-omics technologies and methods characterize cell states and activities by
simultaneously integrating various single-modality omics methods that profile the …

Best practices for single-cell analysis across modalities

L Heumos, AC Schaar, C Lance, A Litinetskaya… - Nature Reviews …, 2023 - nature.com
Recent advances in single-cell technologies have enabled high-throughput molecular
profiling of cells across modalities and locations. Single-cell transcriptomics data can now …

Cellular and molecular mechanisms of skin wound healing

OA Peña, P Martin - Nature Reviews Molecular Cell Biology, 2024 - nature.com
Wound healing is a complex process that involves the coordinated actions of many different
tissues and cell lineages. It requires tight orchestration of cell migration, proliferation, matrix …

The dawn of spatial omics

D Bressan, G Battistoni, GJ Hannon - Science, 2023 - science.org
Spatial omics has been widely heralded as the new frontier in life sciences. This term
encompasses a wide range of techniques that promise to transform many areas of biology …

Robust map** of spatiotemporal trajectories and cell–cell interactions in healthy and diseased tissues

D Pham, X Tan, B Balderson, J Xu, LF Grice… - Nature …, 2023 - nature.com
Spatial transcriptomics (ST) technologies generate multiple data types from biological
samples, namely gene expression, physical distance between data points, and/or tissue …

CellMarker 2.0: an updated database of manually curated cell markers in human/mouse and web tools based on scRNA-seq data

C Hu, T Li, Y Xu, X Zhang, F Li, J Bai… - Nucleic acids …, 2023 - academic.oup.com
Abstract CellMarker 2.0 (http://bio-bigdata. hrbmu. edu. cn/CellMarker or http://117.50.
127.228/CellMarker/) is an updated database that provides a manually curated collection of …

Applications of single-cell RNA sequencing in drug discovery and development

B Van de Sande, JS Lee, E Mutasa-Gottgens… - Nature Reviews Drug …, 2023 - nature.com
Single-cell technologies, particularly single-cell RNA sequencing (scRNA-seq) methods,
together with associated computational tools and the growing availability of public data …

CellChat for systematic analysis of cell–cell communication from single-cell transcriptomics

S **, MV Plikus, Q Nie - Nature Protocols, 2025 - nature.com
Recent advances in single-cell sequencing technologies offer an opportunity to explore cell–
cell communication in tissues systematically and with reduced bias. A key challenge is …

A pan-cancer single-cell panorama of human natural killer cells

F Tang, J Li, L Qi, D Liu, Y Bo, S Qin, Y Miao, K Yu… - Cell, 2023 - cell.com
Natural killer (NK) cells play indispensable roles in innate immune responses against tumor
progression. To depict their phenotypic and functional diversities in the tumor …

Pan-cancer single-cell analysis reveals the heterogeneity and plasticity of cancer-associated fibroblasts in the tumor microenvironment

H Luo, X **a, LB Huang, H An, M Cao, GD Kim… - Nature …, 2022 - nature.com
Cancer-associated fibroblasts (CAFs) are the predominant components of the tumor
microenvironment (TME) and influence cancer hallmarks, but without systematic …