The expanding vistas of spatial transcriptomics
The formation and maintenance of tissue integrity requires complex, coordinated activities
by thousands of genes and their encoded products. Until recently, transcript levels could …
by thousands of genes and their encoded products. Until recently, transcript levels could …
Mechanisms of kidney fibrosis and routes towards therapy
N Yamashita, R Kramann - Trends in Endocrinology & Metabolism, 2024 - cell.com
Kidney fibrosis is the final common pathway of virtually all chronic kidney diseases (CKDs)
and is therefore considered to be a promising therapeutic target for these conditions …
and is therefore considered to be a promising therapeutic target for these conditions …
Benchmarking spatial and single-cell transcriptomics integration methods for transcript distribution prediction and cell type deconvolution
Spatial transcriptomics approaches have substantially advanced our capacity to detect the
spatial distribution of RNA transcripts in tissues, yet it remains challenging to characterize …
spatial distribution of RNA transcripts in tissues, yet it remains challenging to characterize …
High-resolution alignment of single-cell and spatial transcriptomes with CytoSPACE
Recent studies have emphasized the importance of single-cell spatial biology, yet available
assays for spatial transcriptomics have limited gene recovery or low spatial resolution. Here …
assays for spatial transcriptomics have limited gene recovery or low spatial resolution. Here …
An atlas of healthy and injured cell states and niches in the human kidney
Understanding kidney disease relies on defining the complexity of cell types and states, their
associated molecular profiles and interactions within tissue neighbourhoods. Here we …
associated molecular profiles and interactions within tissue neighbourhoods. Here we …
A spatially anchored transcriptomic atlas of the human kidney papilla identifies significant immune injury in patients with stone disease
VH Canela, WS Bowen, RM Ferreira, F Syed… - Nature …, 2023 - nature.com
Kidney stone disease causes significant morbidity and increases health care utilization. In
this work, we decipher the cellular and molecular niche of the human renal papilla in …
this work, we decipher the cellular and molecular niche of the human renal papilla in …
STalign: Alignment of spatial transcriptomics data using diffeomorphic metric mapping
Spatial transcriptomics (ST) technologies enable high throughput gene expression
characterization within thin tissue sections. However, comparing spatial observations across …
characterization within thin tissue sections. However, comparing spatial observations across …
Spatially resolved transcriptomic analysis of acute kidney injury in a female murine model
Background Single-cell sequencing technologies have advanced our understanding of
kidney biology and disease, but the loss of spatial information in these datasets hinders our …
kidney biology and disease, but the loss of spatial information in these datasets hinders our …
The role of cytokines in neutrophil development, tissue homing, function and plasticity in health and disease
M Tsioumpekou, D Krijgsman, JHW Leusen… - Cells, 2023 - mdpi.com
Neutrophils are crucial innate immune cells and comprise 50–70% of the white blood cell
population under homeostatic conditions. Upon infection and in cancer, blood neutrophil …
population under homeostatic conditions. Upon infection and in cancer, blood neutrophil …
SPASCER: spatial transcriptomics annotation at single-cell resolution
Z Fan, Y Luo, H Lu, T Wang, YZ Feng… - Nucleic Acids …, 2023 - academic.oup.com
In recent years, the explosive growth of spatial technologies has enabled the
characterization of spatial heterogeneity of tissue architectures. Compared to traditional …
characterization of spatial heterogeneity of tissue architectures. Compared to traditional …