21 papers · ranked by Valyu relevance
Dragomirka Jovic, Xue Liang, Hua Zeng, Lin Lin + 2 more
'Yonglun Luo'] Title: Abstract Single-cell RNA sequencing (scRNA-seq) technology has become the state-of-the-art approach for unravelling the heterogeneity and complexity of RNA transcripts within individual cells, as well as revealing the composition of different cell types and functions within highly organized…
Yukie Kashima, Yoshitaka Sakamoto, Keiya Kaneko, Masahide Seki + 2 more
'Yutaka Suzuki' 'Ayako Suzuki'] Here, we review single-cell sequencing techniques for individual and multiomics profiling in single cells. We mainly describe single-cell genomic, epigenomic, and transcriptomic methods, and examples of their applications. For the integration of multilayered data sets, such as the…
Wen-min Zhou, Yan-yan Yan, Qiao-ru Guo, Hong Ji + 7 more
'Tian-tian Xu' 'Bolat Makabel' 'Christian Pilarsky' 'Gen He' 'Xi-yong Yu' 'Jian-ye Zhang'] The inherent heterogeneity of individual cells in cell populations plays significant roles in disease development and progression, which is critical for disease diagnosis and treatment. Substantial evidences show that the…
Jian Wang, Yuanlin Song
Single cell sequencing (SCS) has become a new approach to study biological heterogeneity. The advancement in technologies for single cell isolation, amplification of genome/transcriptome and next-generation sequencing enables SCS to reveal the inherent properties of a single cell from the large scale of the genome…
Rodolphe Marie, Marie Pødenphant, Kamila Koprowska, Loic Bærlocher + 15 more
Sequencing the genomes of individual cells enables the direct determination of genetic heterogeneity amongst cells within a population. We have developed an injection-moulded valveless microfluidic device in which single cells from colorectal cell (LS174T, LS180 and RKO) lines and fresh colorectal cancers are…
Siyuan Chen, Weibo Jiang, Yanhui Du, Manshi Yang + 3 more
'Huan Li' 'Mengying Cui'] Single-cell sequencing (SCS) technology is changing our understanding of cellular components, functions, and interactions across organisms, because of its inherent advantage of avoiding noise resulting from genotypic and phenotypic heterogeneity across numerous samples. By directly and…
Koen Theunis, Sebastiaan Vanuytven, Florian Rambow, Daniel Brown + 9 more
Single-cell multi-omics methods are enabling the study of cell state diversity, which is largely determined by the interplay of the genome, epigenome, and transcriptome. Here, we describe Gtag&T-seq, a genome-and-transcriptome sequencing (G&T-seq) protocol of the same single cells that omits whole-genome amplification…
Susan M. Grimes, Heon Seok Kim, Sharmili Roy, Anuja Sathe + 7 more
In this proof-of-concept study, we developed a single cell method that identifies somatic alterations found in coding regions of mRNAs and integrates these mutation genotypes with their matching cell transcriptomes. We used nanopore adaptive sampling on single cell cDNA libraries, generated long read sequences from…
Shuang Ge, Shuqing Sun, Huan Xu, Qiang Cheng + 1 more
Advances and Challenges from a Data Science Perspective Authors: ['Shuang Ge' 'Shuqing Sun' 'Huan Xu' 'Qiang Cheng' 'Zhixiang Ren'] The development of single-cell and spatial transcriptomics has revolutionized our capacity to investigate cellular properties, functions, and interactions in both cellular and spatial…
Vuong Tran, Efthymia Papalexi, Sarah Schroeder, Grace Kim + 13 more
Single cell RNA sequencing (scRNA-seq) has become a core tool for researchers to understand biology. As scRNA-seq has become more ubiquitous, many applications demand higher scalability and sensitivity. Split-pool combinatorial barcoding makes it possible to scale projects to hundreds of samples and millions of cells…
Valentine Svensson, Roser Vento‐Tormo, Sarah A. Teichmann
The ability to measure the transcriptomes of single cells has only been feasible for a few years, and is becoming an extremely popular assay. While many types of analysis and questions can be answered using single cell RNA-sequencing, a central focus is the ability to survey the diversity of cell types within a sample.…
Junyue Cao, Jonathan S. Packer, Vijay Ramani, Darren A. Cusanovich + 10 more
Conventional methods for profiling the molecular content of biological samples fail to resolve heterogeneity that is present at the level of single cells. In the past few years, single cell RNA sequencing has emerged as a powerful strategy for overcoming this challenge. However, its adoption has been limited by a…
P. Marafini, DG. Smith, AR. Lamstaes, RE. Contreras + 22 more
Existing tools for single cell genomics require complex physical frameworks for the indexing of cellular nucleic acids, including proprietary instrumentation, droplet emulsions, and laborious combinatorial indexing schemes. The complexity and cost of these tools significantly constrains the use of single cell…
Monique G.P. van der Wijst, Dylan H. de Vries, Hilde E. Groot, Gosia Trynka + 10 more
'Gosia Trynka' 'Chung-Chau Hon' 'Martijn C. Nawijn' 'Youssef Idaghdour' 'Pim van der Harst' 'Chun Ye' 'Joseph E. Powell' 'Fabian J. Theis' 'Ahmed Mahfouz' 'Matthias Heinig' 'Lude Franke'] 6 Program in Biology, Public Health Research Center, New York University Abu Dhabi, UAE 7 Institute for Human Genetics, Bakar…
Jinzhou Yuan, Peter A. Sims
Recent developments have enabled rapid, inexpensive RNA sequencing of thousands of individual cells from a single specimen, raising the possibility of unbiased and comprehensive expression profiling from complex tissues. Microwell arrays are a particularly attractive microfluidic platform for single cell analysis due…
O.G. Akintunde, Trichina Tucker, Valerie J. Carabetta
The genetic information that dictates the structure and function of all life forms is encoded in the DNA. In 1953, Watson and Crick first presented the double helical structure of a DNA molecule. Their findings unearthed the desire to elucidate the exact composition and sequence of DNA molecules. Discoveries and the…
Jafar Isbarov, Elmir Mahammadov
analysis Authors: ['Jafar Isbarov' 'Elmir Mahammadov'] Single-cell analysis is an increasingly relevant approach in "omics" studies. In the last decade, it has been applied to various fields, including cancer biology, neuroscience, and, especially, developmental biology. This rise in popularity has been accompanied…
Katherine E. Prater, Kevin Lin
Acknowledgements: KEP would like to sincerely thank Drs. Ali Shojaie (UW Biostatistics) and Wei Sun (Fred Hutch Department of Biostatistics) for their helpful input and support on bioinformatics and single-cell analysis pipeline development. The authors would also like to thank Drs. Suman Jayadev, Jonathan R.…
Authors not listed
Large-scale de novo nucleic acid synthesis is a powerful tool enabling researchers to better understand and engineer biological systems. Fields ranging from genomics to nucleic acid therapeutics to synthetic biology make use of high-throughput experimental approaches requiring access to large pools or libraries of DNA…
Xiaoting Xue, Helena Persson, Lei Ye
Accurate and rapid detection of nucleic acid sequences is of utmost importance in various fields, including disease monitoring, clinical treatment, gene analysis and drug discovery. In this study, we developed a "turn-on" fluorescence biosensor that enables simple and highly efficient detection of nucleic acid…
Amal Homer, Andrea Knoll, Uschi Gruber, Oliver Seitz
Fluorogenic hybridization probes allow the detection and localization of specific mRNA molecules in living cells without the need for genetic engineering. However, with the fluorescence properties of currently available oligonucleotide probes, detection in live cells is difficult when the mRNA target is expressed at…