The emerging landscape of spatial profiling technologies
Improved scale, multiplexing and resolution are establishing spatial nucleic acid and protein
profiling methods as a major pillar for cellular atlas building of complex samples, from …
profiling methods as a major pillar for cellular atlas building of complex samples, from …
Spatial biology of cancer evolution
Z Seferbekova, A Lomakin, LR Yates… - Nature Reviews …, 2023 - nature.com
The natural history of cancers can be understood through the lens of evolution given that the
driving forces of cancer development are mutation and selection of fitter clones. Cancer …
driving forces of cancer development are mutation and selection of fitter clones. Cancer …
Spatially informed cell-type deconvolution for spatial transcriptomics
Many spatially resolved transcriptomic technologies do not have single-cell resolution but
measure the average gene expression for each spot from a mixture of cells of potentially …
measure the average gene expression for each spot from a mixture of cells of potentially …
A cellular hierarchy in melanoma uncouples growth and metastasis
Although melanoma is notorious for its high degree of heterogeneity and plasticity,, the
origin and magnitude of cell-state diversity remains poorly understood. Equally, it is unclear …
origin and magnitude of cell-state diversity remains poorly understood. Equally, it is unclear …
Dissecting the immune suppressive human prostate tumor microenvironment via integrated single-cell and spatial transcriptomic analyses
The treatment of low-risk primary prostate cancer entails active surveillance only, while high-
risk disease requires multimodal treatment including surgery, radiation therapy, and …
risk disease requires multimodal treatment including surgery, radiation therapy, and …
Cell segmentation in imaging-based spatial transcriptomics
Single-molecule spatial transcriptomics protocols based on in situ sequencing or
multiplexed RNA fluorescent hybridization can reveal detailed tissue organization. However …
multiplexed RNA fluorescent hybridization can reveal detailed tissue organization. However …
The triumphs and limitations of computational methods for scRNA-seq
PV Kharchenko - Nature methods, 2021 - nature.com
The rapid progress of protocols for sequencing single-cell transcriptomes over the past
decade has been accompanied by equally impressive advances in the computational …
decade has been accompanied by equally impressive advances in the computational …
RNA velocity—current challenges and future perspectives
RNA velocity has enabled the recovery of directed dynamic information from single‐cell
transcriptomics by connecting measurements to the underlying kinetics of gene expression …
transcriptomics by connecting measurements to the underlying kinetics of gene expression …
Lineage tracing meets single-cell omics: opportunities and challenges
A fundamental goal of developmental and stem cell biology is to map the developmental
history (ontogeny) of differentiated cell types. Recent advances in high-throughput single …
history (ontogeny) of differentiated cell types. Recent advances in high-throughput single …