Single nucleus transcriptomics data integration recapitulates the major cell types in human liver
| العنوان: | Single nucleus transcriptomics data integration recapitulates the major cell types in human liver |
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| المؤلفون: | Diamanti, Klev, Inda Diaz, Juan Salvador, 1984, Raine, Amanda, Pan, Gang, Wadelius, Claes, Cavalli, Marco |
| المصدر: | Hepatology Research. 51(2):233-238 |
| مصطلحات موضوعية: | Drop-seq, data integration, snRNA-seq, liver, 10X |
| الوصف: | Hepatology Research published by John Wiley & Sons Australia, Ltd on behalf of Japan Society of Hepatology Aim: The aim of this study was to explore the benefits of data integration from different platforms for single nucleus transcriptomics profiling to characterize cell populations in human liver. Methods: We generated single-nucleus RNA sequencing data from Chromium 10X Genomics and Drop-seq for a human liver sample. We utilized state of the art bioinformatics tools to undertake a rigorous quality control and to integrate the data into a common space summarizing the gene expression variation from the respective platforms, while accounting for known and unknown confounding factors. Results: Analysis of single nuclei transcriptomes from both 10X and Drop-seq allowed identification of the major liver cell types, while the integrated set obtained enough statistical power to separate a small population of inactive hepatic stellate cells that was not characterized in either of the platforms. Conclusions: Integration of droplet-based single nucleus transcriptomics data enabled identification of a small cluster of inactive hepatic stellate cells that highlights the potential of our approach. We suggest single-nucleus RNA sequencing integrative approaches could be utilized to design larger and cost-effective studies. |
| وصف الملف: | electronic |
| URL الوصول: | https://research.chalmers.se/publication/520959 https://research.chalmers.se/publication/520959/file/520959_Fulltext.pdf |
| قاعدة البيانات: | SwePub |
| تدمد: | 13866346 1872034x |
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| DOI: | 10.1111/hepr.13585 |