The technological landscape and applications of single-cell multi-omics
Single-cell multi-omics technologies and methods characterize cell states and activities by
simultaneously integrating various single-modality omics methods that profile the …
simultaneously integrating various single-modality omics methods that profile the …
Decoding the tumor microenvironment with spatial technologies
LA Walsh, DF Quail - Nature Immunology, 2023 - nature.com
Visualization of the cellular heterogeneity and spatial architecture of the tumor
microenvironment (TME) is becoming increasingly important to understand mechanisms of …
microenvironment (TME) is becoming increasingly important to understand mechanisms of …
[HTML][HTML] Spatial epigenome–transcriptome co-profiling of mammalian tissues
Emerging spatial technologies, including spatial transcriptomics and spatial epigenomics,
are becoming powerful tools for profiling of cellular states in the tissue context,,,–. However …
are becoming powerful tools for profiling of cellular states in the tissue context,,,–. However …
High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq
In this study, we extended co-indexing of transcriptomes and epitopes (CITE) to the spatial
dimension and demonstrated high-plex protein and whole transcriptome co-mapping. We …
dimension and demonstrated high-plex protein and whole transcriptome co-mapping. We …
Spatial metatranscriptomics resolves host–bacteria–fungi interactomes
The interactions of microorganisms among themselves and with their multicellular host take
place at the microscale, forming complex networks and spatial patterns. Existing technology …
place at the microscale, forming complex networks and spatial patterns. Existing technology …
CellCharter reveals spatial cell niches associated with tissue remodeling and cell plasticity
M Varrone, D Tavernari, A Santamaria-Martínez… - Nature Genetics, 2024 - nature.com
Tissues are organized in cellular niches, the composition and interactions of which can be
investigated using spatial omics technologies. However, systematic analyses of tissue …
investigated using spatial omics technologies. However, systematic analyses of tissue …
Custom microfluidic chip design enables cost-effective three-dimensional spatiotemporal transcriptomics with a wide field of view
Spatial transcriptomic techniques offer unprecedented insights into the molecular
organization of complex tissues. However, integrating cost-effectiveness, high throughput, a …
organization of complex tissues. However, integrating cost-effectiveness, high throughput, a …
Spatial transcriptomics: technical aspects of recent developments and their applications in neuroscience and cancer research
Spatial transcriptomics is a newly emerging field that enables high‐throughput investigation
of the spatial localization of transcripts and related analyses in various applications for …
of the spatial localization of transcripts and related analyses in various applications for …
Stgnnks: identifying cell types in spatial transcriptomics data based on graph neural network, denoising auto-encoder, and k-sums clustering
Background: Spatial transcriptomics technologies fully utilize spatial location information,
tissue morphological features, and transcriptional profiles. Integrating these data can greatly …
tissue morphological features, and transcriptional profiles. Integrating these data can greatly …
Spatial multiplexing and omics
Much like solving a game of Clue, understanding physiological mysteries involves
answering who, what, when and where. Multiomics approaches delve into cellular and …
answering who, what, when and where. Multiomics approaches delve into cellular and …