Integrating single-cell and spatial transcriptomics to elucidate intercellular tissue dynamics
Single-cell RNA sequencing (scRNA-seq) identifies cell subpopulations within tissue but
does not capture their spatial distribution nor reveal local networks of intercellular …
does not capture their spatial distribution nor reveal local networks of intercellular …
Tutorial: guidelines for annotating single-cell transcriptomic maps using automated and manual methods
Single-cell transcriptomics can profile thousands of cells in a single experiment and identify
novel cell types, states and dynamics in a wide variety of tissues and organisms. Standard …
novel cell types, states and dynamics in a wide variety of tissues and organisms. Standard …
[HTML][HTML] clusterProfiler 4.0: A universal enrichment tool for interpreting omics data
Functional enrichment analysis is pivotal for interpreting high-throughput omics data in life
science. It is crucial for this type of tool to use the latest annotation databases for as many …
science. It is crucial for this type of tool to use the latest annotation databases for as many …
Human microglial state dynamics in Alzheimer's disease progression
Altered microglial states affect neuroinflammation, neurodegeneration, and disease but
remain poorly understood. Here, we report 194,000 single-nucleus microglial transcriptomes …
remain poorly understood. Here, we report 194,000 single-nucleus microglial transcriptomes …
Spatially resolved multi-omics highlights cell-specific metabolic remodeling and interactions in gastric cancer
C Sun, A Wang, Y Zhou, P Chen, X Wang… - Nature …, 2023 - nature.com
Mapping tumor metabolic remodeling and their spatial crosstalk with surrounding non-tumor
cells can fundamentally improve our understanding of tumor biology, facilitates the …
cells can fundamentally improve our understanding of tumor biology, facilitates the …
scBERT as a large-scale pretrained deep language model for cell type annotation of single-cell RNA-seq data
Annotating cell types on the basis of single-cell RNA-seq data is a prerequisite for research
on disease progress and tumour microenvironments. Here we show that existing annotation …
on disease progress and tumour microenvironments. Here we show that existing annotation …
[HTML][HTML] Single-cell RNA sequencing reveals a pro-invasive cancer-associated fibroblast subgroup associated with poor clinical outcomes in patients with gastric …
X Li, Z Sun, G Peng, Y Xiao, J Guo, B Wu, X Li… - Theranostics, 2022 - ncbi.nlm.nih.gov
Background: The protumor activities of cancer-associated fibroblasts (CAFs) suggest that
they are potential therapeutic targets for the treatment of cancer. The mechanism of CAF …
they are potential therapeutic targets for the treatment of cancer. The mechanism of CAF …
[HTML][HTML] ACE2 expression in pancreas may cause pancreatic damage after SARS-CoV-2 infection
F Liu, X Long, B Zhang, W Zhang, X Chen… - Clinical …, 2020 - ncbi.nlm.nih.gov
Methods A public database was used to explore the expression and distribution of ACE2 in
normal pancreases. We also retrospectively analyzed patients diagnosed with COVID-19 …
normal pancreases. We also retrospectively analyzed patients diagnosed with COVID-19 …
Single-cell analysis reveals transcriptomic remodellings in distinct cell types that contribute to human prostate cancer progression
Prostate cancer shows remarkable clinical heterogeneity, which manifests in spatial and
clonal genomic diversity. By contrast, the transcriptomic heterogeneity of prostate tumours is …
clonal genomic diversity. By contrast, the transcriptomic heterogeneity of prostate tumours is …
The allergy mediator histamine confers resistance to immunotherapy in cancer patients via activation of the macrophage histamine receptor H1
H Li, Y Xiao, Q Li, J Yao, X Yuan, Y Zhang, X Yin… - Cancer cell, 2022 - cell.com
Reinvigoration of antitumor immunity remains an unmet challenge. Our retrospective
analyses revealed that cancer patients who took antihistamines during immunotherapy …
analyses revealed that cancer patients who took antihistamines during immunotherapy …