23 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…
Rashid Ahmed, Tariq Zaman, Farhan Chowdhury, Fatima Mraiche + 5 more
'Muhammad Tariq' 'Irfan S. Ahmad' 'Anwarul Hasan' 'Alessandro Desideri' 'Damjan Glavač'] Single-cell RNA sequencing (RNA-seq) techniques can perform analysis of transcriptome at the single-cell level and possess an unprecedented potential for exploring signatures involved in tumor development and progression. These…
Sathiya N. Manivannan, Vidu Garg
Single-cell transcriptomic analyses permit a high-resolution investigation of biological processes at the individual cell level. Single-cell transcriptomics technologies such as Drop-seq, Smart-seq, MARS-seq, sci-RNA-seq, and CELL-seq produce large volumes of data in the form of sequence reads. In general, 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…
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…
Victoria Probst, Felix Pacheco, Finn Cilius Nielsen, Frederik Otzen Bagger
Single cell mRNA sequencing technologies have transformed our understanding of cellular heterogeneity and identity. For sensitive discovery or clinical marker estimation where high transcript capture per cell is needed only plate-based techniques currently offer sufficient resolution. Here, we present a performance…
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…
Luwen Ning, Geng Liu, Guibo Li, Yong Hou + 2 more
Single cell genomics is a rapidly growing field with many new techniques emerging in the past few years. However, few bioinformatics tools specific for single cell genomics analysis are available. Single cell DNA/RNA sequencing data usually have low genome coverage and high amplification bias, which makes…
Nafiseh Erfanian, A. Ali Heydari, Pablo Iañez, Afshin Derakhshani + 5 more
Traditional bulk sequencing methods are limited to measuring the average signal in a group of cells, potentially masking heterogeneity, and rare populations. The single-cell resolution, however, enhances our understanding of complex biological systems and diseases, such as cancer, the immune system, and chronic…
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…
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…
Rustem Khafizov, Erin Piazza, Yi Cui, Michael Patrick + 12 more
Single-cell RNA-seq revolutionized single-cell biology, by providing a complete whole transcriptome view of individual cells. Regrettably, this was accomplished only for individual, tissue-dissociated cells. High-plex spatial biology has begun to recover the x, y, and z-coordinates of single-cells, but typically at the…
Dylan Molho, Jiayuan Ding, Zhaoheng Li, Hongzhi Wen + 11 more
'Yixin Wang' 'Julian Venegas' 'Wei Jin' 'Renming Liu' 'Runze Su' 'Patrick Danaher' 'Robert Yang' 'Yu L. Lei' 'Yuying Xie' 'Jiliang Tang'] Single-cell technologies are revolutionizing the entire field of biology. The large volumes of data generated by single-cell technologies are high-dimensional, sparse, heterogeneous…
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.…
Itamar Kanter, Tomer Kalisky
Traditionally, gene expression measurements were performed on “bulk” samples containing populations of thousands of cells. Recent advances in genomic technology have made it possible to measure gene expression in hundreds of individual cells at a time. As a result, cellular properties that were previously masked in…
Juerg Straubhaar, Alexandria D’Souza, Zachary Niziolek, Bogdan Budnik
Single-cell analysis has clearly established itself in biology and biomedical fields as an invaluable tool that allows one to comprehensively understand the relationship between cells, including their types, states, transitions, trajectories, and spatial position. Scientific methods such as fluorescence labeling…
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…
Authors not listed
The Single-probe is a multifunctional device that can be coupled to mass spectrometry (MS) for molecular analysis of microscale samples, such as single cells, tissue slices, and multicellular spheroids, under ambient conditions. In Single-probe single cell MS (SCMS) studies, this technique leverages direct sampling and…
Authors not listed
Single-cell mass spectrometry (SCMS) has emerged as a powerful tool for analyzing metabolites in individual cells, including live cells. However, cell metabolites have rapid turnover rate, whereas maintaining metabolites’ profiles of live cells during sample transport, storage, or extended measurements can be…
Hirotake Udono, Minzhi Fan, Yoko Saito, Hirohisa Ohno + 4 more
Programmable droplets, artificial liquid-like condensates of nucleic acids, are intelligent out-of-equilibrium systems that allow the critical aspects of their biological counterparts to be harnessed programmably, such as molecular sensing and phase-state change. While DNA has been central to the previous efforts, less…