Smart-seq2 for sensitive full-length transcriptome profiling in single cells

By S. Picelli, Åsa K. Björklund, O. Faridani, Sven Sagasser, Gösta Winberg, Rickard Sandberg. Nature Methods, 2013

2,236 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/288cb1fcb8a82eb936191e901632c2c26464b73e

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Citations in the corpus

Computational and analytical challenges in single-cell transcriptomics (2015, methodology): “The cDNA is then amplified, using PCR 26,28,29,32 or in vitro transcription 31 , to obtain enough material for hybridization to a gene expression microarray 15 or, more recently, to be profiled using NGS 26 ; in the latter case, the technique is referred to as single-cell RNA-seq (scRNA-seq).…”
Multiplexed droplet single-cell RNA-sequencing using natural genetic variation (2017, methodology): “RNA was extracted using the RNeasy Mini kit (#74104), and reverse transcription and tagmentation were conducted according to Picelli et al. using the SmartSeq2 protocol 51, 52 .”
Tn5 transposase and tagmentation procedures for massively scaled sequencing projects (2014, positive): “Computational analyses were carried out as previously described (Picelli et al. 2013).”
Reconstructing lineage hierarchies of the distal lung epithelium using single cell RNA-seq (2014, neutral): “Gene ontology and KEGG pathway enrichment analyses were performed using DAVID informatics Resources 6.7 of the National Institute of Allergy and Infectious Diseases, NIH 15 , 16 (Supplementary Data 5 and 6).”
Design and Analysis of Single-Cell Sequencing Experiments. (2015, methodology): “Over the last ﬁve years, a number of single-cell mRNA-sequencing methods with improved sensitivity and reduced technical noise have been introduced (Hashimshony et al., 2012; Islam et al., 2011, 2014; Picelli et al., 2013; Ramsko¨ld et al., 2012; Sasagawa et al., 2013).”
The technology and biology of single-cell RNA sequencing. (2015, methodology): “For instance, mitotic markers of radial glia were identified from neuronal scRNA-seq data, allowing staging of radial glia according to their cell-cycle progression (Pollen et al., 2014).”
Single-cell RNA sequencing technologies and bioinformatics pipelines (2018, methodology): “Smart-seq2 (improved version of Smart-seq) 41 generates full-length transcripts and is thus suitable for the discovery of alternative-splicing events and allele-speci ﬁ c expression using single-nucleotide polymorphisms 42 .”
Classification of low quality cells from single-cell RNA-seq data (2016, background): “Seq2 [24], or modified Smart-Seq with UMIs [22].”
Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes and progenitors (2017, methodology): “Smart-Seq2 protocolwas performed on single sorted cells as described (7,8),with somemodifications (6).”
Genome-wide RNA Tomography in the zebrafish embryo. (2014, methodology): “The recent development of several RNA amplification strategies for single-cell RNA sequencing (Hashimshony et al., 2012; Islam et al., 2011, 2014; Picelli et al., 2013; Ramsköld et al., 2012; Tang et al., 2009) is now beginning to alleviate the restrictions caused by high input material requirements”
Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets (2015, methodology): “However, methods of preparing cells for profiling have been applicable in practice to just hundreds (Hashimshony et al., 2012; Picelli et al., 2013) or (with automation) a few thousand cells (Jaitin et al., 2014), typically after first separating the cells by flow sorting (Shalek et al., 2013) or…”