Results 1 to 10 of about 261,642 (181)

A single-nucleus RNA-sequencing pipeline to decipher the molecular anatomy and pathophysiology of human kidneys [PDF]

Nature Communications, 2019
Single-cell studies in solid tissues remain challenging and have benefited from the development of single-nuclei RNA sequencing strategies. Here Lake et al.
Blue B. Lake, Song Chen, Masato Hoshi, Nongluk Plongthongkum, Diane Salamon, Amanda Knoten, Anitha Vijayan, Ramakrishna Venkatesh, Eric H. Kim, Derek Gao, Joseph Gaut, Kun Zhang, Sanjay Jain   +12 more
doaj   +6 more sources

Nanogrid single-nucleus RNA sequencing reveals phenotypic diversity in breast cancer [PDF]

Nature Communications, 2017
Single cell RNA sequencing is a powerful tool for understanding cellular diversity but is limited by cost, throughput and sample preparation. Here the authors use nanogrid technology with integrated imaging to sequence thousands of cancer nuclei in ...
Ruli Gao, Charissa Kim, Emi Sei, Theodoros Foukakis, Nicola Crosetto, Leong-Keat Chan, Maithreyan Srinivasan, Hong Zhang, Funda Meric-Bernstam, Nicholas Navin   +9 more
doaj   +5 more sources

snPATHO-seq: A Detailed Protocol for Single Nucleus RNA Sequencing From FFPE [PDF]

Bio-Protocol
Formalin-fixed paraffin-embedded (FFPE) samples remain an underutilized resource in single-cell omics due to RNA degradation from formalin fixation. Here, we present snPATHO-seq, a robust and adaptable approach that enables the generation of high-quality
Wani Arjumand, Kellie Wise, Hannah DuBose, Jasmine Plummer, Luciano Martelotto   +4 more
doaj   +4 more sources

Toti-N-glycan Recognition Enables Universal Multiplexed Single-Nucleus RNA Sequencing [PDF]

Research
Sample barcoding-based multiplex single-cell and single-nucleus sequencing (sc/sn-seq) offers substantial advantages by reducing costs, minimizing batch effects, and identifying artifacts, thereby advancing biological and biomedical research.
Yiran Guo, Liang Zhang, Xing Zhao, Chang Xu, Yiyang Li, Zhaolong Gao, Gaozhi Ou, Peng Chen, Wenshan Zheng, Hao Pei, Xin Liu, Bi-Feng Liu, Yiwei Li   +12 more
doaj   +4 more sources

Single-nucleus RNA-sequencing in pre-cellularization Drosophila melanogaster embryos. [PDF]

PLoS ONE, 2022
Our current understanding of the regulation of gene expression in the early Drosophila melanogaster embryo comes from observations of a few genes at a time, as with in situ hybridizations, or observation of gene expression levels without regards to ...
Ashley R Albright, Michael R Stadler, Michael B Eisen   +2 more
doaj   +3 more sources

Pan‐Cancer Single‐Nucleus Total RNA Sequencing Using snHH‐Seq

Advanced Science, 2023
Tumor heterogeneity and its drivers impair tumor progression and cancer therapy. Single‐cell RNA sequencing is used to investigate the heterogeneity of tumor ecosystems. However, most methods of scRNA‐seq amplify the termini of polyadenylated transcripts,
Haide Chen, Xiunan Fang, Jikai Shao, Qi Zhang, Liwei Xu, Jiaye Chen, Yuqing Mei, Mengmeng Jiang, Yuting Wang, Zhouyang Li, Zihang Chen, Yang Chen, Chengxuan Yu, Lifeng Ma, Peijing Zhang, Tianyu Zhang, Yuan Liao, Yuexiao Lv, Xueyi Wang, Lei Yang, Yuting Fu, Daobao Chen, Liming Jiang, Feng Yan, Wei Lu, Gao Chen, Huahao Shen, Jingjing Wang, Changchun Wang, Tingbo Liang, Xiaoping Han, Yongcheng Wang, Guoji Guo   +32 more
doaj   +3 more sources

Deciphering deep-sea chemosynthetic symbiosis by single-nucleus RNA-sequencing

eLife, 2023
Bathymodioline mussels dominate deep-sea methane seep and hydrothermal vent habitats and obtain nutrients and energy primarily through chemosynthetic endosymbiotic bacteria in the bacteriocytes of their gill.
Hao Wang, Kai He, Huan Zhang, Quanyong Zhang, Lei Cao, Jing Li, Zhaoshan Zhong, Hao Chen, Li Zhou, Chao Lian, Minxiao Wang, Kai Chen, Pei-Yuan Qian, Chaolun Li   +13 more
doaj   +4 more sources

Simultaneous single-nucleus RNA sequencing and single-nucleus ATAC sequencing of neuroblastoma cell lines

Scientific Data
Neuroblastoma is the most common extracranial solid tumor in children, and a leading cause of childhood cancer deaths. All neuroblastomas arise from neural crest-derived sympathetic neuronal progenitors, but numerous mutations, the most common of which ...
Richard A. Guyer, Jessica L. Mueller, Nicole Picard, Allan M. Goldstein   +3 more
doaj   +5 more sources

SINC-seq: correlation of transient gene expressions between nucleus and cytoplasm reflects single-cell physiology [PDF]

Genome Biology, 2018
We report a microfluidic system that physically separates nuclear RNA (nucRNA) and cytoplasmic RNA (cytRNA) from a single cell and enables single-cell integrated nucRNA and cytRNA-sequencing (SINC-seq).
Mahmoud N. Abdelmoez, Kei Iida, Yusuke Oguchi, Hidekazu Nishikii, Ryuji Yokokawa, Hidetoshi Kotera, Sotaro Uemura, Juan G. Santiago, Hirofumi Shintaku   +8 more
doaj   +3 more sources

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

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   +4 more sources