Integrating Single‐Cell and Spatial Transcriptomics Reveals Heterogeneity of Early Pig Skin Development and a Subpopulation with Hair Placode Formation
Sign Up to like & getrecommendations! Published in 2024 at "Advanced Science"
DOI: 10.1002/advs.202306703
Abstract: The dermis and epidermis, crucial structural layers of the skin, encompass appendages, hair follicles (HFs), and intricate cellular heterogeneity. However, an integrated spatiotemporal transcriptomic atlas of embryonic skin has not yet been described and would… read more here.
Keywords: single cell; hair placode; skin; cell spatial ... See more keywords
Insights into Neurodegeneration in Parkinson's Disease from Single‐Cell and Spatial Genomics
Sign Up to like & getrecommendations! Published in 2023 at "Movement Disorders"
DOI: 10.1002/mds.29374
Abstract: Parkinson's disease (PD) is pathologically defined by the death of dopaminergic (DA) neurons within the pars compacta of the substantia nigra. To date, the cause of this multifaceted disease remains largely unclear, which may contribute… read more here.
Keywords: cell spatial; disease; parkinson disease; single cell ... See more keywords
Unraveling Tissue Complexity Through Single‐Cell and Spatial Transcriptomics
Sign Up to like & getrecommendations! Published in 2025 at "Small Methods"
DOI: 10.1002/smtd.202500710
Abstract: We are pleased to present this special section of Small Methods , which highlights the rapidly advancing fields of single-cell and spatial transcriptomics. Single-cell transcriptomics and spatial transcriptomics have emerged as transformative tools for high-resolution… read more here.
Keywords: spatial transcriptomics; single cell; biology; cell ... See more keywords
Detecting significant expression patterns in single-cell and spatial transcriptomics with a flexible computational approach
Sign Up to like & getrecommendations! Published in 2024 at "Scientific Reports"
DOI: 10.1038/s41598-024-75314-3
Abstract: Gene expression data holds the potential to shed light on multiple biological processes at once. However, data analysis methods for single cell sequencing mostly focus on finding cell clusters or the principal progression line of… read more here.
Keywords: spatial transcriptomics; single cell; cell; cell spatial ... See more keywords
Common mitochondrial deletions in RNA-Seq: evaluation of bulk, single-cell, and spatial transcriptomic datasets
Sign Up to like & getrecommendations! Published in 2024 at "Communications Biology"
DOI: 10.1038/s42003-024-05877-4
Abstract: Common mitochondrial DNA (mtDNA) deletions are large structural variants in the mitochondrial genome that accumulate in metabolically active tissues with age and have been investigated in various diseases. We applied the Splice-Break2 pipeline (designed for… read more here.
Keywords: single cell; common mitochondrial; rna seq; bulk single ... See more keywords
BACT: nonparametric Bayesian cell typing for single-cell spatial transcriptomics data
Sign Up to like & getrecommendations! Published in 2024 at "Briefings in Bioinformatics"
DOI: 10.1093/bib/bbae689
Abstract: Abstract The spatial transcriptomics is a rapidly evolving biological technology that simultaneously measures the gene expression profiles and the spatial locations of spots. With progressive advances, current spatial transcriptomic techniques can achieve the cellular or… read more here.
Keywords: spatial transcriptomics; bact; cell; nonparametric bayesian ... See more keywords
Supervised analysis of alternative polyadenylation from single-cell and spatial transcriptomics data with spvAPA
Sign Up to like & getrecommendations! Published in 2024 at "Briefings in Bioinformatics"
DOI: 10.1093/bib/bbae720
Abstract: Abstract Alternative polyadenylation (APA) is an important driver of transcriptome diversity that generates messenger RNA isoforms with distinct 3′ ends. The rapid development of single-cell and spatial transcriptomic technologies opened up new opportunities for exploring… read more here.
Keywords: spatial transcriptomics; single cell; apa; analysis ... See more keywords
Decoding crops one cell at a time: from cell atlases to single-cell genetics.
Sign Up to like & getrecommendations! Published in 2025 at "Journal of experimental botany"
DOI: 10.1093/jxb/eraf516
Abstract: Understanding the mechanisms underlying key agricultural traits remains a central challenge in crop research, but recent advances in technologies are providing powerful tools to address this issue. Among these, single-cell and spatial transcriptomics have revealed… read more here.
Keywords: spatial transcriptomics; genetics; single cell; decoding crops ... See more keywords
Single-cell and Spatial Transcriptomics Illuminate Bat Immunity and Barrier Tissue Evolution
Sign Up to like & getrecommendations! Published in 2025 at "Molecular Biology and Evolution"
DOI: 10.1093/molbev/msaf017
Abstract: Abstract Bats have adapted to pathogens through diverse mechanisms, including increased resistance—rapid pathogen elimination, and tolerance—limiting tissue damage following infection. In the Egyptian fruit bat (an important model in comparative immunology), several mechanisms conferring disease… read more here.
Keywords: spatial transcriptomics; single cell; bat; cell spatial ... See more keywords
Recent contributions of single-cell and spatial profiling to the understanding of bladder cancer
Sign Up to like & getrecommendations! Published in 2024 at "Current Opinion in Urology"
DOI: 10.1097/mou.0000000000001183
Abstract: Purpose of review Current risk stratification and treatment decision-making for bladder cancer informed by histopathology as well as molecular diagnostics face limitations. This review summarizes recent advancements in single-cell and spatial omics methodologies for understanding… read more here.
Keywords: cancer; single cell; cell; bladder cancer ... See more keywords
Palo: spatially aware color palette optimization for single-cell and spatial data
Sign Up to like & getrecommendations! Published in 2022 at "Bioinformatics"
DOI: 10.1101/2022.03.13.484080
Abstract: Summary In the exploratory data analysis of single-cell or spatial genomic data, single cells or spatial spots are often visualized using a two-dimensional plot where cell clusters or spot clusters are marked with different colors.… read more here.
Keywords: cell; spatially aware; cell spatial; color palette ... See more keywords