Results 31 to 40 of about 165,721 (244)

Single-Nucleus and In Situ RNA–Sequencing Reveal Cell Topographies in the Human Pancreas [PDF]

Gastroenterology, 2019
Abstract Molecular evidence of cellular heterogeneity in the human exocrine pancreas has not been established, due to the local concentration of hydrolytic enzymes that can rapidly degrade cells and RNA upon resection. Here we innovated single-nucleus RNA sequencing protocols, and profiled more than 120,000 cells from
Luca Tosti, Yan Hang, Olivia Debnath, Sebastian Tiesmeyer, Timo Trefzer, Katja Steiger, Foo Wei Ten, Sören Lukassen, Simone Ballke, Anja A. Kühl, Simone Spieckermann, Rita Bottino, Naveed Ishaque, Wilko Weichert, Seung K. Kim, Roland Eils, Christian Conrad   +16 more
openaire   +3 more sources

A survey of the mouse hindbrain in the fed and fasted state using single-nucleus RNA sequencing [PDF]

Molecular Metabolism, 2021
Abstract Objective The area postrema (AP) and the nucleus tractus solitaris (NTS), located in the hindbrain, are key nuclei that sense and integrate peripheral nutritional signals and, consequently, regulate feeding behaviour.
Georgina K.C. Dowsett, Brian Y.H. Lam, John A. Tadross, Irene Cimino, Debra Rimmington, Anthony P. Coll, Joseph Polex-Wolf, Lotte Bjerre Knudsen, Charles Pyke, Giles S.H. Yeo   +9 more
openaire   +4 more sources

Systematic assessment of tissue dissociation and storage biases in single-cell and single-nucleus RNA-seq workflows

Genome Biology, 2020
Background Single-cell RNA sequencing has been widely adopted to estimate the cellular composition of heterogeneous tissues and obtain transcriptional profiles of individual cells. Multiple approaches for optimal sample dissociation and storage of single
Elena Denisenko, Belinda B. Guo, Matthew Jones, Rui Hou, Leanne de Kock, Timo Lassmann, Daniel Poppe, Olivier Clément, Rebecca K. Simmons, Ryan Lister, Alistair R. R. Forrest   +10 more
doaj   +1 more source

High-throughput single nucleus total RNA sequencing of formalin-fixed paraffin-embedded tissues by snRandom-seq

Nature Communications, 2023
Formalin-fixed paraffin-embedded (FFPE) tissues constitute a vast and valuable patient material bank for clinical history and follow-up data. It is still challenging to achieve single cell/nucleus RNA (sc/snRNA) profile in FFPE tissues.
Ziye Xu, Tianyu Zhang, Hongyu Chen, Yuyi Zhu, Yuexiao Lv, Shunji Zhang, Jiaye Chen, Haide Chen, Lili Yang, Weiqin Jiang, Shengyu Ni, Fangru Lu, Zhaolun Wang, Hao Yang, Ling Dong, Feng Chen, Hong Zhang, Yu Chen, Jiong Liu, Dandan Zhang, Longjiang Fan, Guoji Guo, Yongcheng Wang   +22 more
doaj   +1 more source

Benchmarking of computational demultiplexing methods for single-nucleus RNA sequencing data. [PDF]

Brief Bioinform
Abstract Single-nucleus RNA sequencing (snRNA-Seq) has transformed our understanding of complex tissues, providing insights into cellular composition and heterogeneity in gene expression between cells, and their alterations in development and disease. High costs however constrain the number of samples analysed.
Fu Y, Youness M, Virzì A, Song X, Tubeeckx MRL, De Keulenaer GW, Heidbuchel H, Segers VFM, Sipido KR, Thienpont B, Roderick HL.   +10 more
europepmc   +6 more sources

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

Isolation of nuclei from mouse white adipose tissues for single-nucleus genomics

STAR Protocols, 2021
Summary: Lipid-filled adipocytes are incompatible with droplet-based single-cell methods, such as 10x Genomics-based technology, thus restricting droplet-based single-cell analyses of adipose tissues to the stromal vascular fraction.
Elvira Laila Van Hauwaert, Ellen Gammelmark, Anitta Kinga Sárvári, Lena Larsen, Ronni Nielsen, Jesper Grud Skat Madsen, Susanne Mandrup   +6 more
doaj   +1 more source

Systematic Methods for Isolating High Purity Nuclei from Ten Important Plants for Omics Interrogation

Cells, 2022
Recent advances in developmental biology have been made possible by using multi-omic studies at single cell resolution. However, progress in plants has been slowed, owing to the tremendous difficulty in protoplast isolation from most plant tissues and/or
Ming-Chao Yang, Zi-Chen Wu, Liang-Liang Huang, Farhat Abbas, Hui-Cong Wang   +4 more
doaj   +1 more source

Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain [PDF]

Science, 2016
Single-nucleus gene expression Identifying the genes expressed at the level of a single cell nucleus can better help us understand the human brain. Blue et al. developed a single-nuclei sequencing technique, which they applied to cells in classically defined Brodmann areas from a postmortem brain ...
Lake, Blue B, Ai, Rizi, Kaeser, Gwendolyn E, Salathia, Neeraj S, Yung, Yun C, Liu, Rui, Wildberg, Andre, Gao, Derek, Fung, Ho-Lim, Chen, Song, Vijayaraghavan, Raakhee, Wong, Julian, Chen, Allison, Sheng, Xiaoyan, Kaper, Fiona, Shen, Richard, Ronaghi, Mostafa, Fan, Jian-Bing, Wang, Wei, Chun, Jerold, Zhang, Kun   +20 more
openaire   +4 more sources

Characterizing the composition of iPSC derived cells from bulk transcriptomics data with CellMap

Scientific Reports, 2022
Induced pluripotent stem cell (iPSC) derived cell types are increasingly employed as in vitro model systems for drug discovery. For these studies to be meaningful, it is important to understand the reproducibility of the iPSC-derived cultures and their ...
Zhengyu Ouyang, Nathanael Bourgeois-Tchir, Eugenia Lyashenko, Paige E. Cundiff, Patrick F. Cullen, Ravi Challa, Kejie Li, Xinmin Zhang, Fergal Casey, Sandra J. Engle, Baohong Zhang, Maria I. Zavodszky   +11 more
doaj   +1 more source