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Comprehensive characterization of single-cell full-length isoforms in human and mouse with long-read sequencing.
Tian, Luyi; Jabbari, Jafar S; Thijssen, Rachel; Gouil, Quentin; Amarasinghe, Shanika L; Voogd, Oliver; Kariyawasam, Hasaru; Du, Mei R M; Schuster, Jakob; Wang, Changqing; Su, Shian; Dong, Xueyi; Law, Charity W; Lucattini, Alexis; Prawer, Yair David Joseph; Collar-Fernández, Coralina; Chung, Jin D; Naim, Timur; Chan, Audrey; Ly, Chi Hai; Lynch, Gordon S; Ryall, James G; Anttila, Casey J A; Peng, Hongke; Anderson, Mary Ann; Flensburg, Christoffer; Majewski, Ian; Roberts, Andrew W; Huang, David C S; Clark, Michael B; Ritchie, Matthew E.
Afiliação
  • Tian L; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia. tian.l@wehi.edu.au.
  • Jabbari JS; Department of Medical Biology, The University of Melbourne, Parkville, VIC, Australia. tian.l@wehi.edu.au.
  • Thijssen R; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Gouil Q; Australian Genome Research Facility, Victorian Comprehensive Cancer Centre, Melbourne, VIC, Australia.
  • Amarasinghe SL; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Voogd O; Department of Medical Biology, The University of Melbourne, Parkville, VIC, Australia.
  • Kariyawasam H; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Du MRM; Department of Medical Biology, The University of Melbourne, Parkville, VIC, Australia.
  • Schuster J; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Wang C; Department of Medical Biology, The University of Melbourne, Parkville, VIC, Australia.
  • Su S; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Dong X; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Law CW; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Lucattini A; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Prawer YDJ; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Collar-Fernández C; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Chung JD; Department of Medical Biology, The University of Melbourne, Parkville, VIC, Australia.
  • Naim T; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Chan A; Department of Medical Biology, The University of Melbourne, Parkville, VIC, Australia.
  • Ly CH; The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  • Lynch GS; Department of Medical Biology, The University of Melbourne, Parkville, VIC, Australia.
  • Ryall JG; Australian Genome Research Facility, Victorian Comprehensive Cancer Centre, Melbourne, VIC, Australia.
  • Anttila CJA; Centre for Stem Cell Systems, Department of Anatomy and Neuroscience, The University of Melbourne, Parkville, VIC, Australia.
  • Peng H; The Florey Institute of Neuroscience and Mental Health, Parkville, VIC, Australia.
  • Anderson MA; Centre for Muscle Research, Department of Physiology, The University of Melbourne, Melbourne, VIC, Australia.
  • Flensburg C; Centre for Muscle Research, Department of Physiology, The University of Melbourne, Melbourne, VIC, Australia.
  • Majewski I; Centre for Muscle Research, Department of Physiology, The University of Melbourne, Melbourne, VIC, Australia.
  • Roberts AW; Centre for Muscle Research, Department of Physiology, The University of Melbourne, Melbourne, VIC, Australia.
  • Huang DCS; Present address: Department of Neurology, Stanford University, Stanford, CA, USA.
  • Clark MB; Centre for Muscle Research, Department of Physiology, The University of Melbourne, Melbourne, VIC, Australia.
  • Ritchie ME; Centre for Muscle Research, Department of Physiology, The University of Melbourne, Melbourne, VIC, Australia.
Genome Biol ; 22(1): 310, 2021 11 11.
Article em En | MEDLINE | ID: mdl-34763716
A modified Chromium 10x droplet-based protocol that subsamples cells for both short-read and long-read (nanopore) sequencing together with a new computational pipeline (FLAMES) is developed to enable isoform discovery, splicing analysis, and mutation detection in single cells. We identify thousands of unannotated isoforms and find conserved functional modules that are enriched for alternative transcript usage in different cell types and species, including ribosome biogenesis and mRNA splicing. Analysis at the transcript level allows data integration with scATAC-seq on individual promoters, improved correlation with protein expression data, and linked mutations known to confer drug resistance to transcriptome heterogeneity.
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Texto completo: 1 Base de dados: MEDLINE Assunto principal: Isoformas de Proteínas / Sequenciamento por Nanoporos Limite: Animals / Humans Idioma: En Ano de publicação: 2021 Tipo de documento: Article
Texto completo
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Isoformas de Proteínas / Sequenciamento por Nanoporos Limite: Animals / Humans Idioma: En Ano de publicação: 2021 Tipo de documento: Article