Results 31 to 40 of about 17,437 (131)

Improved protocol for single-nucleus RNA-sequencing of frozen human bladder tumor biopsies

Nucleus, 2023
This paper provides a laboratory workflow for single-nucleus RNA-sequencing (snRNA-seq) including a protocol for gentle nuclei isolation from fresh frozen tumor biopsies, making it possible to analyze biobanked material. To develop this protocol, we used
Sofie S. Schmøkel, Iver Nordentoft, Sia V. Lindskrog, Philippe Lamy, Michael Knudsen, Jørgen Bjerggaard Jensen, Lars Dyrskjøt   +6 more
doaj   +1 more source

snRNA-seq identifies Fmo2⁺ fibroblasts as drivers of hyperglycemic memory-induced cardiac injury. [PDF]

NPJ Metab Health Dis
Xu S, Ju C, Zhu M, Cai Y, Xu F, Liu Y, Liu Y.   +6 more
europepmc   +2 more sources

QClus: a droplet filtering algorithm for enhanced snRNA-seq data quality in challenging samples. [PDF]

Nucleic Acids Res, 2022
Abstract Single-nuclei RNA sequencing remains a challenge for many human tissues, as incomplete removal of background signal masks cell-type-specific signals and interferes with downstream analyses. Here, we present Quality Clustering (QClus), a droplet filtering algorithm targeted toward challenging samples.
Schmauch E, Ojanen J, Galani K, Jalkanen J, Harju K, Hollmén M, Kokki H, Gunn J, Halonen J, Hartikainen J, Kiviniemi T, Tavi P, Kaikkonen MU, Kellis M, Linna-Kuosmanen S.   +14 more
europepmc   +3 more sources

SnRNA-seq reveals the heterogeneity of spinal ventral horn and mechanism of motor neuron axon regeneration. [PDF]

iScience, 2023
Spinal motor neurons, the distinctive neurons of the central nervous system, extend into the peripheral nervous system and have outstanding ability of axon regeneration after injury. Here, we explored the heterogeneity of spinal ventral horn cells after rat sciatic nerve crush via single-nuclei RNA sequencing.
Zhu Y, Luan C, Gong L, Gu Y, Wang X, Sun H, Chen Z, Zhou Q, Liu C, Shan Q, Gu X, Zhou S.   +11 more
europepmc   +4 more sources

Avoiding false discoveries: Revisiting an Alzheimer’s disease snRNA-Seq dataset

, 2023
Abstract Arising From Mathys, H. et al. Nature (2019). https://doi.org/10.1038/s41586-019-1195-2 Mathys et al., conducted the first single-nucleus RNA-Seq study (snRNA-Seq) of Alzheimer’s disease (AD)1. The authors profiled the transcriptomes of approximately 80,000 cells from the prefrontal cortex, collected from 48 ...
Murphy AE, Fancy NN, Skene NG.
europepmc   +2 more sources

Integration of single-nuclei RNA-sequencing, spatial transcriptomics and histochemistry defines the complex microenvironment of NF1-associated plexiform neurofibromas

Acta Neuropathologica Communications, 2023
Plexiform neurofibroma (PN) is a leading cause of morbidity in children with the genetic condition Neurofibromatosis Type 1 (NF1), often disfiguring or threatening vital structures. During formation of PN, a complex tumor microenvironment (TME) develops,
Vladimir Amani, Kent A. Riemondy, Rui Fu, Andrea M. Griesinger, Enrique Grimaldo, Graziella Ribeiro De Sousa, Ahmed Gilani, Molly Hemenway, Nicholas K. Foreman, Andrew M. Donson, Nicholas Willard   +10 more
doaj   +1 more source

Single-Cell RNA Sequencing in Parkinson’s Disease

Biomedicines, 2021
Single-cell and single-nucleus RNA sequencing (sc/snRNA-seq) technologies have enhanced the understanding of the molecular pathogenesis of neurodegenerative disorders, including Parkinson’s disease (PD).
Shi-Xun Ma, Su Bin Lim
doaj   +1 more source

snRNA-seq reveals key transcription factors in the inflammatory response of microglia after intracerebral hemorrhage. [PDF]

Sci Rep
Intracerebral hemorrhage (ICH) is a severe neurological disease with limited treatment options. Microglia, the primary immune cells of the brain, contribute significantly to secondary injury following ICH, exhibiting heterogeneity in response across different stages of ICH.
Wu Z, Chen D, Chen S, Zhang G, Wu X, Shu K, Pan C, Tang Z.   +7 more
europepmc   +3 more sources

Nuclei isolation from surgically resected human hippocampus

STAR Protocols, 2021
Summary: Single-nucleus RNA sequencing (snRNA-seq), where nuclear transcriptomes are a proxy to cellular transcriptomes, has been used to profile human brain.
Fatma Ayhan, Connor Douglas, Bradley C. Lega, Genevieve Konopka   +3 more
doaj   +1 more source

SCING: Inference of robust, interpretable gene regulatory networks from single cell and spatial transcriptomics

iScience, 2023
Summary: Gene regulatory network (GRN) inference is an integral part of understanding physiology and disease. Single cell/nuclei RNA-seq (scRNA-seq/snRNA-seq) data has been used to elucidate cell-type GRNs; however, the accuracy and speed of current ...
Russell Littman, Michael Cheng, Ning Wang, Chao Peng, Xia Yang   +4 more
doaj   +1 more source