[HTML][HTML] Doublet identification in single-cell sequencing data using scDblFinder
Doublet identification in single-cell sequencing data using scDblFinder - PMC Back to Top
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Skip to main content NIH NLM Logo Access keys NCBI Homepage MyNCBI Homepage Main …
[HTML][HTML] Temporal progress of gene expression analysis with RNA-Seq data: A review on the relationship between computational methods
Abstract Analysis of differential gene expression from RNA-seq data has become a standard
for several research areas. The steps for the computational analysis include many data …
for several research areas. The steps for the computational analysis include many data …
scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
We present a statistical simulator, scDesign3, to generate realistic single-cell and spatial
omics data, including various cell states, experimental designs and feature modalities, by …
omics data, including various cell states, experimental designs and feature modalities, by …
Differentiation and activation of fibroblastic reticular cells
Secondary lymphoid organs (SLO) are underpinned by fibroblastic reticular cells (FRC) that
form dedicated microenvironmental niches to secure induction and regulation of innate and …
form dedicated microenvironmental niches to secure induction and regulation of innate and …
Single-cell transcriptomics and surface epitope detection in human brain epileptic lesions identifies pro-inflammatory signaling
P Kumar, A Lim, SN Hazirah, CJH Chua, A Ngoh… - Nature …, 2022 - nature.com
Epileptogenic triggers are multifactorial and not well understood. Here we aimed to address
the hypothesis that inappropriate pro-inflammatory mechanisms contribute to the …
the hypothesis that inappropriate pro-inflammatory mechanisms contribute to the …
Transcriptomes and metabolism define mouse and human MAIT cell populations
S Chandra, G Ascui, T Riffelmacher, A Chawla… - Science …, 2023 - science.org
Mucosal-associated invariant T (MAIT) cells are a subset of T lymphocytes that respond to
microbial metabolites. We defined MAIT cell populations in different organs and …
microbial metabolites. We defined MAIT cell populations in different organs and …
Single-cell eQTL analysis of activated T cell subsets reveals activation and cell type–dependent effects of disease-risk variants
The impact of genetic variants on cells challenged in biologically relevant contexts has not
been fully explored. Here, we activated CD4+ T cells from 89 healthy donors and performed …
been fully explored. Here, we activated CD4+ T cells from 89 healthy donors and performed …
The shaky foundations of simulating single-cell RNA sequencing data
HL Crowell, SX Morillo Leonardo, C Soneson… - Genome Biology, 2023 - Springer
Background With the emergence of hundreds of single-cell RNA-sequencing (scRNA-seq)
datasets, the number of computational tools to analyze aspects of the generated data has …
datasets, the number of computational tools to analyze aspects of the generated data has …
Semi-supervised integration of single-cell transcriptomics data
Batch effects in single-cell RNA-seq data pose a significant challenge for comparative
analyses across samples, individuals, and conditions. Although batch effect correction …
analyses across samples, individuals, and conditions. Although batch effect correction …
[HTML][HTML] Single-cell transcriptional regulation and genetic evolution of neuroendocrine prostate cancer
Z Wang, T Wang, D Hong, B Dong, Y Wang, H Huang… - Iscience, 2022 - cell.com
Neuroendocrine prostate cancer (NEPC) is a lethal subtype of prostate cancer, with a 10%
five-year survival rate. However, little is known about its origin and the mechanisms …
five-year survival rate. However, little is known about its origin and the mechanisms …