Literature DB >> 30320740

Single-cell Transcriptomic Analyses of Mouse Pancreatic Endocrine Cells.

Lin-Chen Li1, Xin-Xin Yu1, Yu-Wei Zhang2, Ye Feng3, Wei-Lin Qiu3, Cheng-Ran Xu4.   

Abstract

Pancreatic endocrine cells, which are clustered in islets, regulate blood glucose stability and energy metabolism. The distinct cell types in islets, including insulin-secreting β cells, are differentiated from common endocrine progenitors during the embryonic stage. Immature endocrine cells expand via cell proliferation and mature during a long postnatal developmental period. However, the mechanisms underlying these processes are not clearly defined. Single-cell RNA-sequencing is a promising approach for the characterization of distinct cell populations and tracing cell lineage differentiation pathways. Here, we describe a method for the single-cell RNA-sequencing of isolated pancreatic β cells from embryonic, neonatal and postnatal pancreases.

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Year:  2018        PMID: 30320740      PMCID: PMC6235374          DOI: 10.3791/58000

Source DB:  PubMed          Journal:  J Vis Exp        ISSN: 1940-087X            Impact factor:   1.355


  24 in total

1.  Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples.

Authors:  Günter P Wagner; Koryu Kin; Vincent J Lynch
Journal:  Theory Biosci       Date:  2012-08-08       Impact factor: 1.919

2.  Fast gapped-read alignment with Bowtie 2.

Authors:  Ben Langmead; Steven L Salzberg
Journal:  Nat Methods       Date:  2012-03-04       Impact factor: 28.547

3.  Human pancreatic islet isolation: Part I: digestion and collection of pancreatic tissue.

Authors:  Meirigeng Qi; Barbara Barbaro; Shusen Wang; Yong Wang; Mike Hansen; Jose Oberholzer
Journal:  J Vis Exp       Date:  2009-05-26       Impact factor: 1.355

4.  The adult mouse and human pancreas contain rare multipotent stem cells that express insulin.

Authors:  Simon R Smukler; Margot E Arntfield; Rozita Razavi; George Bikopoulos; Phillip Karpowicz; Raewyn Seaberg; Feihan Dai; Simon Lee; Rosemary Ahrens; Paul E Fraser; Michael B Wheeler; Derek van der Kooy
Journal:  Cell Stem Cell       Date:  2011-03-04       Impact factor: 24.633

5.  Direct evidence for the pancreatic lineage: NGN3+ cells are islet progenitors and are distinct from duct progenitors.

Authors:  Guoqiang Gu; Jolanta Dubauskaite; Douglas A Melton
Journal:  Development       Date:  2002-05       Impact factor: 6.868

6.  HTSeq--a Python framework to work with high-throughput sequencing data.

Authors:  Simon Anders; Paul Theodor Pyl; Wolfgang Huber
Journal:  Bioinformatics       Date:  2014-09-25       Impact factor: 6.937

7.  Human islets contain four distinct subtypes of β cells.

Authors:  Craig Dorrell; Jonathan Schug; Pamela S Canaday; Holger A Russ; Branden D Tarlow; Maria T Grompe; Tamara Horton; Matthias Hebrok; Philip R Streeter; Klaus H Kaestner; Markus Grompe
Journal:  Nat Commun       Date:  2016-07-11       Impact factor: 14.919

Review 8.  A practical guide to single-cell RNA-sequencing for biomedical research and clinical applications.

Authors:  Ashraful Haque; Jessica Engel; Sarah A Teichmann; Tapio Lönnberg
Journal:  Genome Med       Date:  2017-08-18       Impact factor: 11.117

9.  TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions.

Authors:  Daehwan Kim; Geo Pertea; Cole Trapnell; Harold Pimentel; Ryan Kelley; Steven L Salzberg
Journal:  Genome Biol       Date:  2013-04-25       Impact factor: 13.583

Review 10.  Single-cell RNA-seq: advances and future challenges.

Authors:  Antoine-Emmanuel Saliba; Alexander J Westermann; Stanislaw A Gorski; Jörg Vogel
Journal:  Nucleic Acids Res       Date:  2014-07-22       Impact factor: 16.971

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  1 in total

1.  Characterizing pancreatic β-cell heterogeneity in the streptozotocin model by single-cell transcriptomic analysis.

Authors:  Ye Feng; Wei-Lin Qiu; Xin-Xin Yu; Yu Zhang; Mao-Yang He; Lin-Chen Li; Li Yang; Weiyi Zhang; Michael Franti; Junqing Ye; Joerg D Hoeck; Cheng-Ran Xu
Journal:  Mol Metab       Date:  2020-04-02       Impact factor: 7.422

  1 in total

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