{"entity": "researcher", "timestamp": "2026-06-13T06:08:24.477Z", "family": "Pan", "given": "Gang", "initials": "G", "orcid": "0000-0003-4243-1821", "affiliations": ["Science for Life Laboratory, Department of Immunology, Genetics and Pathology, Uppsala University, Uppsala, Sweden."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/e956246a20aa4ed3a67c084a4c1e5289.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/e956246a20aa4ed3a67c084a4c1e5289"}}, "publications": [{"entity": "publication", "iuid": "62ecd11c1f8b43f984f8802df9da6dbb", "links": {"self": {"href": "https://publications.scilifelab.se/publication/62ecd11c1f8b43f984f8802df9da6dbb.json"}, "display": {"href": "https://publications.scilifelab.se/publication/62ecd11c1f8b43f984f8802df9da6dbb"}}, "title": "Single nucleus transcriptomics data integration recapitulates the major cell types in human liver.", "authors": [{"family": "Diamanti", "given": "Klev", "initials": "K", "orcid": "0000-0002-4922-8415", "researcher": {"href": "https://publications.scilifelab.se/researcher/b71560391b294bb5a344b9c6cabfc956.json"}}, {"family": "Inda D\u00edaz", "given": "Juan Salvador", "initials": "JS", "orcid": "0000-0002-3735-8300", "researcher": {"href": "https://publications.scilifelab.se/researcher/40b6bd806d874198a7509500bddfd939.json"}}, {"family": "Raine", "given": "Amanda", "initials": "A", "orcid": "0000-0002-2775-6516", "researcher": {"href": "https://publications.scilifelab.se/researcher/a97b7df8379f42f0a412fb7c234a6c70.json"}}, {"family": "Pan", "given": "Gang", "initials": "G", "orcid": "0000-0003-4243-1821", "researcher": {"href": "https://publications.scilifelab.se/researcher/e956246a20aa4ed3a67c084a4c1e5289.json"}}, {"family": "Wadelius", "given": "Claes", "initials": "C", "orcid": "0000-0002-2033-7829", "researcher": {"href": "https://publications.scilifelab.se/researcher/2ec5ca1122024da4893b61e329a5ece5.json"}}, {"family": "Cavalli", "given": "Marco", "initials": "M", "orcid": "0000-0003-1143-1431", "researcher": {"href": "https://publications.scilifelab.se/researcher/e35211c06385459baee12101121d2a15.json"}}], "type": "journal article", "published": "2021-02-00", "journal": {"title": "Hepatol Res", "issn": "1386-6346", "issn-l": null, "volume": "51", "issue": "2", "pages": "233-238"}, "abstract": "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.\n\nWe 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.\n\nAnalysis 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.\n\nIntegration 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.", "doi": "10.1111/hepr.13585", "pmid": "33119937", "labels": {"National Genomics Infrastructure": "Collaborative", "NGI Uppsala (SNP&SEQ Technology Platform)": "Collaborative", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2020-12-08T23:37:37.148Z", "modified": "2024-01-16T13:48:40.820Z"}]}