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      Single cell RNA sequencing of stem cell-derived retinal ganglion cells

      data-paper

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          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          We used single cell sequencing technology to characterize the transcriptomes of 1,174 human embryonic stem cell-derived retinal ganglion cells (RGCs) at the single cell level. The human embryonic stem cell line BRN3B-mCherry (A81-H7), was differentiated to RGCs using a guided differentiation approach. Cells were harvested at day 36 and prepared for single cell RNA sequencing. Our data indicates the presence of three distinct subpopulations of cells, with various degrees of maturity. One cluster of 288 cells showed increased expression of genes involved in axon guidance together with semaphorin interactions, cell-extracellular matrix interactions and ECM proteoglycans, suggestive of a more mature RGC phenotype.

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          Detecting outliers: Do not use standard deviation around the mean, use absolute deviation around the median

          Christophe Leys, Christophe Ley, Olivier Klein … (2013)
          Article 0 comments Cited 776 times – based on 0 reviews     Review now
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            Isolation of a pluripotent cell line from early mouse embryos cultured in medium conditioned by teratocarcinoma stem cells.

            G Martin (1981)
            This report describes the establishment directly from normal preimplantation mouse embryos of a cell line that forms teratocarcinomas when injected into mice. The pluripotency of these embryonic stem cells was demonstrated conclusively by the observation that subclonal cultures, derived from isolated single cells, can differentiate into a wide variety of cell types. Such embryonic stem cells were isolated from inner cell masses of late blastocysts cultured in medium conditioned by an established teratocarcinoma stem cell line. This suggests that such conditioned medium might contain a growth factor that stimulates the proliferation or inhibits the differentiation of normal pluripotent embryonic cells, or both. This method of obtaining embryonic stem cells makes feasible the isolation of pluripotent cells lines from various types of noninbred embryo, including those carrying mutant genes. The availability of such cell lines should made possible new approaches to the study of early mammalian development.
            Article 0 comments Cited 712 times – based on 0 reviews     Review now
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              Establishment in culture of pluripotential cells from mouse embryos.

              Sydney M. Evans, H Kaufman (1981)
              Article 0 comments Cited 674 times – based on 0 reviews     Review now
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                Author and article information

                Journal
                Journal ID (nlm-ta): Sci Data
                Journal ID (iso-abbrev): Sci Data
                Title: Scientific Data
                Publisher: Nature Publishing Group
                ISSN (Electronic): 2052-4463
                Publication date (Electronic): 13 February 2018
                Publication date Collection: 2018
                Volume: 5
                Electronic Location Identifier: 180013
                Affiliations
                [1 ]Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital , East Melbourne 3002, Australia
                [2 ]Ophthalmology, Department of Surgery, the University of Melbourne , Melbourne 3002, Australia
                [3 ]Institute for Molecular Bioscience, University of Queensland, St Lucia , Brisbane 4067, Australia
                [4 ]Wilmer Eye Institute, Johns Hopkins University School of Medicine , Baltimore, MD 21287, USA
                [5 ]Australian Genome Research Facility , Melbourne 3051, Australia
                [6 ]Departments of Neuroscience, Molecular Biology and Genetics, and Institute of Genetic Medicine, Johns Hopkins University School of Medicine , Baltimore, MD 21287, USA
                [7 ]Queensland Brain Institute, University of Queensland, St Lucia , Brisbane 4072, Australia
                [8 ]School of Medicine, Menzies Institute for Medical Research, University of Tasmania , Hobart 7000, Australia
                Author notes
                [a ] A.P. (email: apebay@ 123456unimelb.edu.au )
                [b ] J.E.P. (email: j.powell@ 123456imb.uq.edu.au )
                [c ] A.W.H. (email: hewitt.alex@ 123456gmail.com ).
                [*]

                These authors contributed equally to this work.

                [†]

                These authors jointly supervised this work.

                []

                M.D.: concept and design, experimental work, interpretation of data, writing of manuscript, final approval of manuscript. A.S.: concept and design, experimental work, interpretation of data, writing of manuscript, final approval of manuscript. Q.N.: experimental work, interpretation of data, writing of manuscript, final approval of manuscript. D.E.C.: interpretation of data, final approval of manuscript. S.W.L: experimental work, final approval of manuscript. T.J.: interpretation of data, final approval of manuscript. V.M.S.: provision of reagents, final approval of manuscript. J.S.J.: experimental work, final approval of manuscript. X.C.: provision of reagents, final approval of manuscript. D.J.Z.: provision of reagents, final approval of manuscript. A.P.: concept and design, financial support, interpretation of data, writing of manuscript, final approval of manuscript. J.E.P.: concept and design, financial support, interpretation of data, writing of manuscript, final approval of manuscript. A.W.H.: concept and design, financial support, interpretation of data, writing of manuscript, final approval of manuscript.

                Author information
                http://orcid.org/0000-0003-3468-4941
                http://orcid.org/0000-0002-8598-7902
                http://orcid.org/0000-0002-7408-9453
                http://orcid.org/0000-0002-5123-5999
                Article
                Publisher Item ID: sdata201813
                DOI: 10.1038/sdata.2018.13
                PMC ID: 5810423
                PubMed ID: 29437159
                SO-VID: e20616f4-1fc7-437f-a7d1-77eb6d7f6094
                Copyright © Copyright © 2018, The Author(s)
                License:

                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/ The Creative Commons Public Domain Dedication waiver http://creativecommons.org/publicdomain/zero/1.0/ applies to the metadata files made available in this article.

                History
                Date received : 09 October 2017
                Date accepted : 22 December 2017
                Related
                Categories
                Subject: Data Descriptor

                Keywords: transcriptomics,optic nerve diseases,neural stem cells
                Data availability:
                Keywords: transcriptomics, optic nerve diseases, neural stem cells

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