Single-cell tagged reverse transcription (STRT-Seq)

Kedar Nath Natarajan*

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

Abstract

Single-cell RNA sequencing (scRNA-seq) has become an established approach to profile entire transcriptomes of individual cells from different cell types, tissues, species, and organisms. Single-cell tagged reverse transcription sequencing (STRT-seq) is one of the early single-cell methods which utilize 5′ tag counting of transcripts. STRT-seq performed on microfluidics Fluidigm C1 platform (STRT-C1) is a flexible scRNA-seq approach that allows for accurate, sensitive and importantly molecular counting of transcripts at single-cell level. Herein, I describe the STRT-C1 method and the steps involved in capturing 96 cells across C1 microfluidics chip, cDNA synthesis, and preparing single-cell libraries for Illumina short-read sequencing.

Original languageEnglish
Title of host publicationSingle Cell Methods : Sequencing and Proteomics
EditorsValentino Proserpio
PublisherHumana Press
Publication date27. Apr 2019
Pages133-153
Chapter9
ISBN (Print)978-1-4939-9239-3
ISBN (Electronic)978-1-4939-9240-9
DOIs
Publication statusPublished - 27. Apr 2019
SeriesMethods in Molecular Biology
Volume1979
ISSN1064-3745

Fingerprint

RNA Sequence Analysis
Transcriptome
Complementary DNA

Keywords

  • 5′ Tag counting
  • Fluidigm C1
  • Microfluidics
  • scRNA-seq
  • Single-cell tagged reverse transcription
  • STRT-C1
  • UMIs

Cite this

Natarajan, K. N. (2019). Single-cell tagged reverse transcription (STRT-Seq). In V. Proserpio (Ed.), Single Cell Methods: Sequencing and Proteomics (pp. 133-153). Humana Press. Methods in Molecular Biology, Vol.. 1979 https://doi.org/10.1007/978-1-4939-9240-9_9
Natarajan, Kedar Nath. / Single-cell tagged reverse transcription (STRT-Seq). Single Cell Methods: Sequencing and Proteomics. editor / Valentino Proserpio. Humana Press, 2019. pp. 133-153 (Methods in Molecular Biology, Vol. 1979).
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Natarajan, KN 2019, Single-cell tagged reverse transcription (STRT-Seq). in V Proserpio (ed.), Single Cell Methods: Sequencing and Proteomics. Humana Press, Methods in Molecular Biology, vol. 1979, pp. 133-153. https://doi.org/10.1007/978-1-4939-9240-9_9

Single-cell tagged reverse transcription (STRT-Seq). / Natarajan, Kedar Nath.

Single Cell Methods: Sequencing and Proteomics. ed. / Valentino Proserpio. Humana Press, 2019. p. 133-153 (Methods in Molecular Biology, Vol. 1979).

Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

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Natarajan KN. Single-cell tagged reverse transcription (STRT-Seq). In Proserpio V, editor, Single Cell Methods: Sequencing and Proteomics. Humana Press. 2019. p. 133-153. (Methods in Molecular Biology, Vol. 1979). https://doi.org/10.1007/978-1-4939-9240-9_9