Results 41 to 50 of about 17,437 (131)

Single-nucleus and single-cell transcriptomes compared in matched cortical cell types.

PLoS ONE, 2018
Transcriptomic profiling of complex tissues by single-nucleus RNA-sequencing (snRNA-seq) affords some advantages over single-cell RNA-sequencing (scRNA-seq). snRNA-seq provides less biased cellular coverage, does not appear to suffer cell isolation-based
Trygve E Bakken, Rebecca D Hodge, Jeremy A Miller, Zizhen Yao, Thuc Nghi Nguyen, Brian Aevermann, Eliza Barkan, Darren Bertagnolli, Tamara Casper, Nick Dee, Emma Garren, Jeff Goldy, Lucas T Graybuck, Matthew Kroll, Roger S Lasken, Kanan Lathia, Sheana Parry, Christine Rimorin, Richard H Scheuermann, Nicholas J Schork, Soraya I Shehata, Michael Tieu, John W Phillips, Amy Bernard, Kimberly A Smith, Hongkui Zeng, Ed S Lein, Bosiljka Tasic   +27 more
doaj   +1 more source

Single‐Cell, Single‐Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal Heterogeneity

Hepatology Communications, 2022
The critical functions of the human liver are coordinated through the interactions of hepatic parenchymal and non‐parenchymal cells. Recent advances in single‐cell transcriptional approaches have enabled an examination of the human liver with ...
Tallulah S. Andrews, Jawairia Atif, Jeff C. Liu, Catia T. Perciani, Xue‐Zhong Ma, Cornelia Thoeni, Michal Slyper, Gökcen Eraslan, Asa Segerstolpe, Justin Manuel, Sai Chung, Erin Winter, Iulia Cirlan, Nicholas Khuu, Sandra Fischer, Orit Rozenblatt‐Rosen, Aviv Regev, Ian D. McGilvray, Gary D. Bader, Sonya A. MacParland   +19 more
doaj   +1 more source

Accurate sample deconvolution of pooled snRNA-seq using sex-dependent gene expression patterns. [PDF]

NAR Genom Bioinform
Summary Single-nucleus RNA sequencing (snRNA-seq) technology offers unprecedented resolution for studying cell type-specific gene expression patterns. However, snRNA-seq poses high costs and technical limitations, often requiring the pooling of independent biological samples and the loss of individual sample-level data. Deconvolution of
Twa GM, Phillips RA, Robinson NJ, Day JJ.   +3 more
europepmc   +4 more sources

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

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

Cell Type-Aware Multiple Instance Learning Improves Alzheimer’s Disease Prediction from snRNA-seq [PDF]

Alzheimer's and Dementia
Kristen Mş O'Connell, Amy R Dunn
exaly   +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

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

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

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