Generation of RNA sequencing libraries for transcriptome analysis of globin-rich tissues of the domestic dog

We have developed a protocol for barcoded cDNA libraries of 48 samples to study gene expression across tissues in the domestic dog, Canis familiaris, by modifying the Single-Cell Tagged Reverse Transcription (STRT) protocol (Islam et al., 2012, 2014). The cDNA reads represent mRNA 5′ ends, enabling...

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Detalles Bibliográficos
Autores principales: Ezer, Sini, Yoshihara, Masahito, Katayama, Shintaro, Daub, Carsten, Lohi, Hannes, Krjutskov, Kaarel, Kere, Juha
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2021
Materias:
Protocol
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8672047/
https://www.ncbi.nlm.nih.gov/pubmed/34950881
http://dx.doi.org/10.1016/j.xpro.2021.100995
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author Ezer, Sini
Yoshihara, Masahito
Katayama, Shintaro
Daub, Carsten
Lohi, Hannes
Krjutskov, Kaarel
Kere, Juha
author_facet Ezer, Sini
Yoshihara, Masahito
Katayama, Shintaro
Daub, Carsten
Lohi, Hannes
Krjutskov, Kaarel
Kere, Juha
author_sort Ezer, Sini
collection PubMed
description We have developed a protocol for barcoded cDNA libraries of 48 samples to study gene expression across tissues in the domestic dog, Canis familiaris, by modifying the Single-Cell Tagged Reverse Transcription (STRT) protocol (Islam et al., 2012, 2014). The cDNA reads represent mRNA 5′ ends, enabling the study of transcription start sites (TSS). Our modifications include longer UMIs for molecular counting and Globin-Lock® to deplete globin mRNAs that are abundant in blood and blood-rich tissues dominating all reads.
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spelling pubmed-86720472021-12-22 Generation of RNA sequencing libraries for transcriptome analysis of globin-rich tissues of the domestic dog Ezer, Sini Yoshihara, Masahito Katayama, Shintaro Daub, Carsten Lohi, Hannes Krjutskov, Kaarel Kere, Juha STAR Protoc Protocol We have developed a protocol for barcoded cDNA libraries of 48 samples to study gene expression across tissues in the domestic dog, Canis familiaris, by modifying the Single-Cell Tagged Reverse Transcription (STRT) protocol (Islam et al., 2012, 2014). The cDNA reads represent mRNA 5′ ends, enabling the study of transcription start sites (TSS). Our modifications include longer UMIs for molecular counting and Globin-Lock® to deplete globin mRNAs that are abundant in blood and blood-rich tissues dominating all reads. Elsevier 2021-12-12 /pmc/articles/PMC8672047/ /pubmed/34950881 http://dx.doi.org/10.1016/j.xpro.2021.100995 Text en © 2021 The Authors https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Protocol
Ezer, Sini
Yoshihara, Masahito
Katayama, Shintaro
Daub, Carsten
Lohi, Hannes
Krjutskov, Kaarel
Kere, Juha
Generation of RNA sequencing libraries for transcriptome analysis of globin-rich tissues of the domestic dog
title Generation of RNA sequencing libraries for transcriptome analysis of globin-rich tissues of the domestic dog
title_full Generation of RNA sequencing libraries for transcriptome analysis of globin-rich tissues of the domestic dog
title_fullStr Generation of RNA sequencing libraries for transcriptome analysis of globin-rich tissues of the domestic dog
title_full_unstemmed Generation of RNA sequencing libraries for transcriptome analysis of globin-rich tissues of the domestic dog
title_short Generation of RNA sequencing libraries for transcriptome analysis of globin-rich tissues of the domestic dog
title_sort generation of rna sequencing libraries for transcriptome analysis of globin-rich tissues of the domestic dog
topic Protocol
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8672047/
https://www.ncbi.nlm.nih.gov/pubmed/34950881
http://dx.doi.org/10.1016/j.xpro.2021.100995
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