Results 41 to 50 of about 15,972 (195)

Protocol for nuclear dissociation of the adult C. elegans for single-nucleus RNA sequencing and its application for mapping environmental responses

STAR Protocols, 2023
Summary: Caenorhabditis elegans is a valuable model to study organ, tissue, and cell-type responses to external cues. However, the nematode comprises multiple syncytial tissues with spatial coordinates corresponding to distinct nuclear transcriptomes ...
Max T. Levenson, Rio Barrere-Cain, Lisa Truong, Yen-Wei Chen, Karissa Shuck, Blake Panter, Ella Reich, Xia Yang, Patrick Allard   +8 more
doaj   +1 more source

Brain-wide and cell-specific transcriptomic insights into MRI-derived cortical morphology in macaque monkeys

Nature Communications, 2023
A comprehensive anatomically-defined atlas of brain transcriptomics in macaques is still lacking. Here, the authors generate complementary bulk RNA-seq and snRNA-seq datasets from cynomolgus macaques to examine the link between brain-wide gene expression
Tingting Bo, Jie Li, Ganlu Hu, Ge Zhang, Wei Wang, Qian Lv, Shaoling Zhao, Junjie Ma, Meng Qin, Xiaohui Yao, Meiyun Wang, Guang-Zhong Wang, Zheng Wang   +12 more
doaj   +1 more source

Myonuclear transcriptional dynamics in response to exercise following satellite cell depletion

iScience, 2021
Summary: Skeletal muscle is composed of post-mitotic myofibers that form a syncytium containing hundreds of myonuclei. Using a progressive exercise training model in the mouse and single nucleus RNA-sequencing (snRNA-seq) for high-resolution ...
Yuan Wen, Davis A. Englund, Bailey D. Peck, Kevin A. Murach, John J. McCarthy, Charlotte A. Peterson   +5 more
doaj   +1 more source

Quality control analysis for 10X snRNA-seq v2

, 2022
Here we describe a computational protocol for performing quality control analysis on shallow sequencing data obtained from 10X snRNA-seq experiments. The workflow starts with raw MiSeq run folders and uses cellranger to generate count matrices. The raw count matrices are analyzed and sequencing saturation plots are generated.
openaire   +1 more source

scREAD: A Single-Cell RNA-Seq Database for Alzheimer's Disease

iScience, 2020
Summary: Alzheimer's disease (AD) is a progressive neurodegenerative disorder of the brain and the most common form of dementia among the elderly. The single-cell RNA-sequencing (scRNA-Seq) and single-nucleus RNA-sequencing (snRNA-Seq) techniques are ...
Jing Jiang, Cankun Wang, Ren Qi, Hongjun Fu, Qin Ma   +4 more
doaj   +1 more source

Machine learning for cell type classification from single nucleus RNA sequencing data.

PLoS ONE, 2022
With the advent of single cell/nucleus RNA sequencing (sc/snRNA-seq), the field of cell phenotyping is now a data-driven exercise providing statistical evidence to support cell type/state categorization.
Huy Le, Beverly Peng, Janelle Uy, Daniel Carrillo, Yun Zhang, Brian D Aevermann, Richard H Scheuermann   +6 more
doaj   +1 more source

Quality control analysis for 10X snRNA-seq v1

, 2022
Here we describe a computational protocol for performing quality control analysis on shallow sequencing data obtained from 10X snRNA-seq experiments. The workflow starts with raw MiSeq run folders and uses cellranger to generate count matrices. The raw count matrices are analyzed and sequencing saturation plots are generated.
openaire   +1 more source

Evaluating cell-specific gene expression using single-cell and single-nuclei RNA-sequencing data from human pancreatic islets of the same donors

Scientific Reports
Single-cell and single-nuclei RNA-sequencing (scRNA-seq and snRNA-seq) analyze cell-specific transcriptomes. However, only snRNA-seq applies to frozen biobanked samples.
Karin Engström, Åsa Nilsson, Jones K. Ofori, Nils Wierup, Karl Bacos, Charlotte Ling   +5 more
doaj   +1 more source

Recent advances in deciphering oligodendrocyte heterogeneity with single-cell transcriptomics

Frontiers in Cellular Neuroscience, 2022
Oligodendrocytes (OL) have been for decades considered a passive, homogenous population of cells that provide support to neurons, and show a limited response to pathological stimuli. This view has been dramatically changed by the introduction of powerful
Lukas Valihrach, Lukas Valihrach, Zuzana Matusova, Zuzana Matusova, Daniel Zucha, Daniel Zucha, Ruslan Klassen, Ruslan Klassen, Sarka Benesova, Sarka Benesova, Pavel Abaffy, Mikael Kubista, Mikael Kubista, Miroslava Anderova   +13 more
doaj   +1 more source

Engineered extracellular vesicles enriched with the miR‐214/199a cluster enhance the efficacy of chemotherapy in ovarian cancer

Molecular Oncology, EarlyView.
Loss of the miR‐214/199a cluster is associated with recurrence in ovarian cancer. Engineered small extracellular vesicles (m214‐sEVs) elevate miR‐214‐3p/miR‐199a‐5p in tumor cells, suppress β‐catenin, TLR4, and YKT6 signaling, reprogram tumor‐derived sEV cargo, reduce chemoresistance and migration, and enhance carboplatin efficacy and survival in ...
Weida Wang, Ayesha Alvero, Yi Qin, Mingjin Wang, Alexandra Fox, Yanfeng Li, Michael Millman, Amy Kemper, Gil Mor, Xian Shuang Liu, Michael Chopp, Zheng Gang Zhang, Yi Zhang   +12 more
wiley   +1 more source