Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal Brain
Summary: Human brain organoid systems offer unprecedented opportunities to investigate both neurodevelopmental and neurological disease. Single-cell-based transcriptomics or epigenomics have dissected the cellular and molecular heterogeneity in the brain organoids, revealing a complex organization....
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2020-02-01
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| Series: | Cell Reports |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S221112472030053X |
| _version_ | 1818272588303958016 |
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| author | Yoshiaki Tanaka Bilal Cakir Yangfei Xiang Gareth J. Sullivan In-Hyun Park |
| author_facet | Yoshiaki Tanaka Bilal Cakir Yangfei Xiang Gareth J. Sullivan In-Hyun Park |
| author_sort | Yoshiaki Tanaka |
| collection | DOAJ |
| description | Summary: Human brain organoid systems offer unprecedented opportunities to investigate both neurodevelopmental and neurological disease. Single-cell-based transcriptomics or epigenomics have dissected the cellular and molecular heterogeneity in the brain organoids, revealing a complex organization. Similar but distinct protocols from different labs have been applied to generate brain organoids, providing a large resource to perform a comparative analysis of brain developmental processes. Here, we take a systematic approach to compare the single-cell transcriptomes of various human cortical brain organoids together with fetal brain to define the identity of specific cell types and differentiation routes in each method. Importantly, we identify unique developmental programs in each protocol compared to fetal brain, which will be a critical benchmark for the utility of human brain organoids in the future. : Tanaka et al. report integrative analyses of single-cell RNA-seq for human brain organoids derived from different protocols. They find a unique preference of cell differentiation routes across protocols and provide a benchmark for the use and the improvement of human brain organoids. Keywords: hESC, stem cells, scRNA-seq, brain organoid, hCOs, cortical spheroids, brain development, developmental trajectory, protocol comparison |
| first_indexed | 2024-12-12T21:44:27Z |
| format | Article |
| id | doaj.art-5503410fcf7c4ee49349961dce7adcaf |
| institution | Directory Open Access Journal |
| issn | 2211-1247 |
| language | English |
| last_indexed | 2024-12-12T21:44:27Z |
| publishDate | 2020-02-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Cell Reports |
| spelling | doaj.art-5503410fcf7c4ee49349961dce7adcaf2022-12-22T00:10:57ZengElsevierCell Reports2211-12472020-02-0130616821689.e3Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal BrainYoshiaki Tanaka0Bilal Cakir1Yangfei Xiang2Gareth J. Sullivan3In-Hyun Park4Department of Genetics, Yale Stem Cell Center, Yale School of Medicine, New Haven, CT 06520, USADepartment of Genetics, Yale Stem Cell Center, Yale School of Medicine, New Haven, CT 06520, USADepartment of Genetics, Yale Stem Cell Center, Yale School of Medicine, New Haven, CT 06520, USAHybrid Technology Hub—Centre of Excellence, Institute of Basic Medical Sciences, University of Oslo, Oslo, Norway; Department of Pediatric Research, Oslo University Hospital and University of Oslo, PO Box 1112 Blindern, 0317 Oslo, NorwayDepartment of Genetics, Yale Stem Cell Center, Yale School of Medicine, New Haven, CT 06520, USA; Corresponding authorSummary: Human brain organoid systems offer unprecedented opportunities to investigate both neurodevelopmental and neurological disease. Single-cell-based transcriptomics or epigenomics have dissected the cellular and molecular heterogeneity in the brain organoids, revealing a complex organization. Similar but distinct protocols from different labs have been applied to generate brain organoids, providing a large resource to perform a comparative analysis of brain developmental processes. Here, we take a systematic approach to compare the single-cell transcriptomes of various human cortical brain organoids together with fetal brain to define the identity of specific cell types and differentiation routes in each method. Importantly, we identify unique developmental programs in each protocol compared to fetal brain, which will be a critical benchmark for the utility of human brain organoids in the future. : Tanaka et al. report integrative analyses of single-cell RNA-seq for human brain organoids derived from different protocols. They find a unique preference of cell differentiation routes across protocols and provide a benchmark for the use and the improvement of human brain organoids. Keywords: hESC, stem cells, scRNA-seq, brain organoid, hCOs, cortical spheroids, brain development, developmental trajectory, protocol comparisonhttp://www.sciencedirect.com/science/article/pii/S221112472030053X |
| spellingShingle | Yoshiaki Tanaka Bilal Cakir Yangfei Xiang Gareth J. Sullivan In-Hyun Park Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal Brain Cell Reports |
| title | Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal Brain |
| title_full | Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal Brain |
| title_fullStr | Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal Brain |
| title_full_unstemmed | Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal Brain |
| title_short | Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal Brain |
| title_sort | synthetic analyses of single cell transcriptomes from multiple brain organoids and fetal brain |
| url | http://www.sciencedirect.com/science/article/pii/S221112472030053X |
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