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STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array
Single-cell RNA-seq has become routine for discovering cell types and revealing cellular diversity, but archived human brain samples still pose a challenge to current high-throughput platforms. We present STRT-seq-2i, an addressable 9600-microwell array platform, combining sampling by limiting dilut...
Autores principales: | , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5703850/ https://www.ncbi.nlm.nih.gov/pubmed/29180631 http://dx.doi.org/10.1038/s41598-017-16546-4 |
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author | Hochgerner, Hannah Lönnerberg, Peter Hodge, Rebecca Mikes, Jaromir Heskol, Abeer Hubschle, Hermann Lin, Philip Picelli, Simone La Manno, Gioele Ratz, Michael Dunne, Jude Husain, Syed Lein, Ed Srinivasan, Maithreyan Zeisel, Amit Linnarsson, Sten |
author_facet | Hochgerner, Hannah Lönnerberg, Peter Hodge, Rebecca Mikes, Jaromir Heskol, Abeer Hubschle, Hermann Lin, Philip Picelli, Simone La Manno, Gioele Ratz, Michael Dunne, Jude Husain, Syed Lein, Ed Srinivasan, Maithreyan Zeisel, Amit Linnarsson, Sten |
author_sort | Hochgerner, Hannah |
collection | PubMed |
description | Single-cell RNA-seq has become routine for discovering cell types and revealing cellular diversity, but archived human brain samples still pose a challenge to current high-throughput platforms. We present STRT-seq-2i, an addressable 9600-microwell array platform, combining sampling by limiting dilution or FACS, with imaging and high throughput at competitive cost. We applied the platform to fresh single mouse cortical cells and to frozen post-mortem human cortical nuclei, matching the performance of a previous lower-throughput platform while retaining a high degree of flexibility, potentially also for other high-throughput applications. |
format | Online Article Text |
id | pubmed-5703850 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-57038502017-11-30 STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array Hochgerner, Hannah Lönnerberg, Peter Hodge, Rebecca Mikes, Jaromir Heskol, Abeer Hubschle, Hermann Lin, Philip Picelli, Simone La Manno, Gioele Ratz, Michael Dunne, Jude Husain, Syed Lein, Ed Srinivasan, Maithreyan Zeisel, Amit Linnarsson, Sten Sci Rep Article Single-cell RNA-seq has become routine for discovering cell types and revealing cellular diversity, but archived human brain samples still pose a challenge to current high-throughput platforms. We present STRT-seq-2i, an addressable 9600-microwell array platform, combining sampling by limiting dilution or FACS, with imaging and high throughput at competitive cost. We applied the platform to fresh single mouse cortical cells and to frozen post-mortem human cortical nuclei, matching the performance of a previous lower-throughput platform while retaining a high degree of flexibility, potentially also for other high-throughput applications. Nature Publishing Group UK 2017-11-27 /pmc/articles/PMC5703850/ /pubmed/29180631 http://dx.doi.org/10.1038/s41598-017-16546-4 Text en © The Author(s) 2017 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Hochgerner, Hannah Lönnerberg, Peter Hodge, Rebecca Mikes, Jaromir Heskol, Abeer Hubschle, Hermann Lin, Philip Picelli, Simone La Manno, Gioele Ratz, Michael Dunne, Jude Husain, Syed Lein, Ed Srinivasan, Maithreyan Zeisel, Amit Linnarsson, Sten STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array |
title | STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array |
title_full | STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array |
title_fullStr | STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array |
title_full_unstemmed | STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array |
title_short | STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array |
title_sort | strt-seq-2i: dual-index 5ʹ single cell and nucleus rna-seq on an addressable microwell array |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5703850/ https://www.ncbi.nlm.nih.gov/pubmed/29180631 http://dx.doi.org/10.1038/s41598-017-16546-4 |
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