High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq

In this study, we extended co-indexing of transcriptomes and epitopes (CITE) to the spatial dimension and demonstrated high-plex protein and whole transcriptome co-mapping. We profiled 189 proteins and whole transcriptome in multiple mouse tissue types with spatial CITE sequencing and then further a...

Descripción completa

Detalles Bibliográficos
Autores principales: Liu, Yang, DiStasio, Marcello, Su, Graham, Asashima, Hiromitsu, Enninful, Archibald, Qin, Xiaoyu, Deng, Yanxiang, Nam, Jungmin, Gao, Fu, Bordignon, Pino, Cassano, Marco, Tomayko, Mary, Xu, Mina, Halene, Stephanie, Craft, Joseph E., Hafler, David, Fan, Rong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group US 2023
Materias:
Brief Communication
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10567548/
https://www.ncbi.nlm.nih.gov/pubmed/36823353
http://dx.doi.org/10.1038/s41587-023-01676-0
_version_ 1785119152894115840
author Liu, Yang
DiStasio, Marcello
Su, Graham
Asashima, Hiromitsu
Enninful, Archibald
Qin, Xiaoyu
Deng, Yanxiang
Nam, Jungmin
Gao, Fu
Bordignon, Pino
Cassano, Marco
Tomayko, Mary
Xu, Mina
Halene, Stephanie
Craft, Joseph E.
Hafler, David
Fan, Rong
author_facet Liu, Yang
DiStasio, Marcello
Su, Graham
Asashima, Hiromitsu
Enninful, Archibald
Qin, Xiaoyu
Deng, Yanxiang
Nam, Jungmin
Gao, Fu
Bordignon, Pino
Cassano, Marco
Tomayko, Mary
Xu, Mina
Halene, Stephanie
Craft, Joseph E.
Hafler, David
Fan, Rong
author_sort Liu, Yang
collection PubMed
description In this study, we extended co-indexing of transcriptomes and epitopes (CITE) to the spatial dimension and demonstrated high-plex protein and whole transcriptome co-mapping. We profiled 189 proteins and whole transcriptome in multiple mouse tissue types with spatial CITE sequencing and then further applied the method to measure 273 proteins and transcriptome in human tissues, revealing spatially distinct germinal center reactions in tonsil and early immune activation in skin at the Coronavirus Disease 2019 mRNA vaccine injection site.
format Online
Article
Text
id pubmed-10567548
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Nature Publishing Group US
record_format MEDLINE/PubMed
spelling pubmed-105675482023-10-13 High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq Liu, Yang DiStasio, Marcello Su, Graham Asashima, Hiromitsu Enninful, Archibald Qin, Xiaoyu Deng, Yanxiang Nam, Jungmin Gao, Fu Bordignon, Pino Cassano, Marco Tomayko, Mary Xu, Mina Halene, Stephanie Craft, Joseph E. Hafler, David Fan, Rong Nat Biotechnol Brief Communication In this study, we extended co-indexing of transcriptomes and epitopes (CITE) to the spatial dimension and demonstrated high-plex protein and whole transcriptome co-mapping. We profiled 189 proteins and whole transcriptome in multiple mouse tissue types with spatial CITE sequencing and then further applied the method to measure 273 proteins and transcriptome in human tissues, revealing spatially distinct germinal center reactions in tonsil and early immune activation in skin at the Coronavirus Disease 2019 mRNA vaccine injection site. Nature Publishing Group US 2023-02-23 2023 /pmc/articles/PMC10567548/ /pubmed/36823353 http://dx.doi.org/10.1038/s41587-023-01676-0 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/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/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Brief Communication
Liu, Yang
DiStasio, Marcello
Su, Graham
Asashima, Hiromitsu
Enninful, Archibald
Qin, Xiaoyu
Deng, Yanxiang
Nam, Jungmin
Gao, Fu
Bordignon, Pino
Cassano, Marco
Tomayko, Mary
Xu, Mina
Halene, Stephanie
Craft, Joseph E.
Hafler, David
Fan, Rong
High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq
title High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq
title_full High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq
title_fullStr High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq
title_full_unstemmed High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq
title_short High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq
title_sort high-plex protein and whole transcriptome co-mapping at cellular resolution with spatial cite-seq
topic Brief Communication
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10567548/
https://www.ncbi.nlm.nih.gov/pubmed/36823353
http://dx.doi.org/10.1038/s41587-023-01676-0
work_keys_str_mv AT liuyang highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT distasiomarcello highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT sugraham highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT asashimahiromitsu highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT enninfularchibald highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT qinxiaoyu highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT dengyanxiang highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT namjungmin highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT gaofu highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT bordignonpino highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT cassanomarco highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT tomaykomary highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT xumina highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT halenestephanie highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT craftjosephe highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT haflerdavid highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq
AT fanrong highplexproteinandwholetranscriptomecomappingatcellularresolutionwithspatialciteseq

Ejemplares similares