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Experimental design for single-cell RNA sequencing [PDF]

Briefings in Functional Genomics, 2017
Single-cell RNA sequencing (scRNA-seq) has opened new avenues for the characterization of heterogeneity in a large variety of cellular systems. As this is a relatively new technique, the field is fast evolving. Here, we discuss general considerations in experimental design and the two most popular approaches, plate-based Smart-Seq2 and microdroplet ...
Baran-Gale, Jeanette, Chandra, Tamir, Kirschner, Kristina   +2 more
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Rapid and sensitive single-cell RNA sequencing with SHERRY2 [PDF]

BMC Biology, 2021
Abstract Background Prevalent single-cell transcriptomic profiling (scRNA-seq) methods are mainly based on the synthesis and enrichment of full-length double-stranded complementary DNA. These approaches are challenging to generate accurate quantification of transcripts when their abundance is ...
Lin Di, Bo Liu, Yuzhu Lyu, Shihui Zhao, Yuhong Pang, Chen Zhang, Jianbin Wang, Hai Qi, Jie Shen, Yanyi Huang   +9 more
openaire   +3 more sources

Next generation sequencing for studying viruses and RNA silencing-based antiviral defense in crop plants [PDF]

, 2014
The main objectives of this work have been to use next generation sequencing (NGS) and develop bioinformatics tools for plant virus diagnostics and genome reconstruction as well as for investigation of RNA silencing-based antiviral defense.
Seguin, Jonathan
core   +1 more source

Glyoxal as alternative fixative for single cell RNA sequencing [PDF]

G3: Genes, Genomes, Genetics, 2021
Abstract Single cell RNA sequencing (scRNA-seq) has become an important method to identify cell types, delineate the trajectories of cell differentiation in whole organisms and understand the heterogeneity in cellular responses.
Josephine Bageritz, Niklas Krausse, Schayan Yousefian, Svenja Leible, Erica Valentini, Michael Boutros   +5 more
openaire   +2 more sources

Single Cell RNA Sequencing of Rare Immune Cell Populations

Frontiers in Immunology, 2018
Single-cell RNA sequencing (scRNA-Seq) is transforming our ability to characterize cells, particularly rare cells that are often overlooked in bulk population analytical approaches.
Akira Nguyen, Akira Nguyen, Weng Hua Khoo, Weng Hua Khoo, Imogen Moran, Imogen Moran, Peter I. Croucher, Peter I. Croucher, Tri Giang Phan, Tri Giang Phan   +9 more
doaj   +1 more source

Improved annotation of 3' untranslated regions and complex loci by combination of strand-specific direct RNA sequencing, RNA-seq and ESTs [PDF]

, 2014
The reference annotations made for a genome sequence provide the framework for all subsequent analyses of the genome. Correct and complete annotation in addition to the underlying genomic sequence is particularly important when interpreting the results ...
Junfang Song, Geoffrey J Barton, Schurch Nicholas J., Brown, Sara J., Gordon G Simpson, Nicholas J Schurch, McLean, W. H. Irwin, Song Junfang, Simpson Gordon G., Sherstnev, Alexander, Brown Sara J., Alexander Sherstnev, Song, Junfang, McLean W. H. Irwin, Duc, Celine, Kate G Storey, Storey, Kate G., Schurch, Nicholas J., Cole Christian, Sherstnev Alexander, Simpson, Gordon G., Céline Duc, W H Irwin McLean, Cole, Christian; id_orcid, Christian Cole, Barton Geoffrey J., Sara J Brown, Duc Céline, Barton, Geoffrey J.; id_orcid, Storey Kate G.   +29 more
core   +1 more source

Single-Cell RNA-Sequencing in Glioma

Current Oncology Reports, 2018
In this review, we seek to summarize the literature concerning the use of single-cell RNA-sequencing for CNS gliomas.Single-cell analysis has revealed complex tumor heterogeneity, subpopulations of proliferating stem-like cells and expanded our view of tumor microenvironment influence in the disease process.
Eli, Johnson, Katherine L, Dickerson, Ian D, Connolly, Melanie, Hayden Gephart   +3 more
openaire   +3 more sources

Microglia Heterogeneity in Alzheimer’s Disease: Insights From Single-Cell Technologies

Frontiers in Synaptic Neuroscience, 2021
Microglia are resident immune cells in the central nervous system and play critical roles in brain immunity, development, and homeostasis. The pathology of Alzheimer’s disease (AD) triggers activation of microglia.
Hansen Wang
doaj   +1 more source

An Innovative Approach to Tissue Processing and Cell Sorting of Fixed Cells for Subsequent Single-Cell RNA Sequencing [PDF]

, 2022
Although single-cell RNA sequencing (scRNA-seq) is currently the gold standard for the analysis of cell-specific expression profiles, the options for processing, staining, and preserving fresh cells remain very limited.
Lukas Bäriswyl, Mutisheva, Ivanina, Schenk, Mirjam, Ivanina Mutisheva, Bäriswyl, Lukas, Mirjam Schenk, Steve Robatel, Robatel, Steve   +7 more
core   +1 more source

Review of Single-Cell RNA Sequencing in the Heart [PDF]

International Journal of Molecular Sciences, 2020
Single-cell RNA sequencing (scRNA-seq) technology is a powerful, rapidly developing tool for characterizing individual cells and elucidating biological mechanisms at the cellular level. Cardiovascular disease is one of the major causes of death worldwide and its precise pathology remains unclear.
Shintaro Yamada, Seitaro Nomura
openaire   +2 more sources