Literature DB >> 34167721

The Three Rs of Single-Cell RNA Sequencing: Reuse, Refine, and Resource.

Quan M Phan1, Iwona M Driskell1, Ryan R Driskell2.   

Abstract

Single-cell RNA sequencing (scRNA-seq) provides an unprecedented ability to investigate cellular heterogeneity in entire organs and tissues, including human skin. Ascensión et al. (2020) combined and reanalyzed human skin scRNA-seq datasets to uncover new insights into fibroblast heterogeneity. This work demonstrates that new discoveries can be made from published data on the basis of principles of these three Rs: Reuse, Refine, and Resource.
Copyright © 2021 The Authors. Published by Elsevier Inc. All rights reserved.

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Year:  2021        PMID： 34167721      PMCID： PMC8622571          DOI： 10.1016/j.jid.2021.01.002

Source DB:  PubMed          Journal:  J Invest Dermatol        ISSN： 0022-202X            Impact factor:   8.551


  11 in total

1.  SFRP2/DPP4 and FMO1/LSP1 Define Major Fibroblast Populations in Human Skin.

Authors:  Tracy Tabib; Christina Morse; Ting Wang; Wei Chen; Robert Lafyatis
Journal:  J Invest Dermatol       Date:  2017-12-06       Impact factor: 8.551

2.  Comprehensive Integration of Single-Cell Data.

Authors:  Tim Stuart; Andrew Butler; Paul Hoffman; Christoph Hafemeister; Efthymia Papalexi; William M Mauck; Yuhan Hao; Marlon Stoeckius; Peter Smibert; Rahul Satija
Journal:  Cell       Date:  2019-06-06       Impact factor: 41.582

3.  Human Dermal Fibroblast Subpopulations Are Conserved across Single-Cell RNA Sequencing Studies.

Authors:  Alex M Ascensión; Sandra Fuertes-Álvarez; Olga Ibañez-Solé; Ander Izeta; Marcos J Araúzo-Bravo
Journal:  J Invest Dermatol       Date:  2020-12-30       Impact factor: 8.551

4.  Single-cell transcriptome analysis of human skin identifies novel fibroblast subpopulation and enrichment of immune subsets in atopic dermatitis.

Authors:  Helen He; Hemant Suryawanshi; Pavel Morozov; Jesús Gay-Mimbrera; Ester Del Duca; Hyun Je Kim; Naoya Kameyama; Yeriel Estrada; Evan Der; James G Krueger; Juan Ruano; Thomas Tuschl; Emma Guttman-Yassky
Journal:  J Allergy Clin Immunol       Date:  2020-02-07       Impact factor: 10.793

5.  Skin fibrosis. Identification and isolation of a dermal lineage with intrinsic fibrogenic potential.

Authors:  Yuval Rinkevich; Graham G Walmsley; Michael S Hu; Zeshaan N Maan; Aaron M Newman; Micha Drukker; Michael Januszyk; Geoffrey W Krampitz; Geoffrey C Gurtner; H Peter Lorenz; Irving L Weissman; Michael T Longaker
Journal:  Science       Date:  2015-04-17       Impact factor: 47.728

6.  An Integrated Transcriptome Atlas of Embryonic Hair Follicle Progenitors, Their Niche, and the Developing Skin.

Authors:  Rachel Sennett; Zichen Wang; Amélie Rezza; Laura Grisanti; Nataly Roitershtein; Cristina Sicchio; Ka Wai Mok; Nicholas J Heitman; Carlos Clavel; Avi Ma'ayan; Michael Rendl
Journal:  Dev Cell       Date:  2015-08-06       Impact factor: 12.270

7.  Distinct fibroblast lineages determine dermal architecture in skin development and repair.

Authors:  Beate M Lichtenberger; Esther Hoste; Kai Kretzschmar; Ryan R Driskell; Ben D Simons; Marika Charalambous; Sacri R Ferron; Yann Herault; Guillaume Pavlovic; Anne C Ferguson-Smith; Fiona M Watt
Journal:  Nature       Date:  2013-12-12       Impact factor: 49.962

8.  SCANPY: large-scale single-cell gene expression data analysis.

Authors:  F Alexander Wolf; Philipp Angerer; Fabian J Theis
Journal:  Genome Biol       Date:  2018-02-06       Impact factor: 13.583

9.  Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming.

Authors:  Manuel Rodríguez-Paredes; Frank Lyko; Llorenç Solé-Boldo; Günter Raddatz; Sabrina Schütz; Jan-Philipp Mallm; Karsten Rippe; Anke S Lonsdorf
Journal:  Commun Biol       Date:  2020-04-23

10.  Single-cell transcriptomic analysis of small and large wounds reveals the distinct spatial organization of regenerative fibroblasts.

Authors:  Quan M Phan; Sarthak Sinha; Jeff Biernaskie; Ryan R Driskell
Journal:  Exp Dermatol       Date:  2020-12-07       Impact factor: 3.960
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  2 in total

1.  The need to reassess single-cell RNA sequencing datasets: the importance of biological sample processing.

Authors:  Alex M Ascensión; Marcos J Araúzo-Bravo; Ander Izeta
Journal:  F1000Res       Date:  2021-08-06

2.  Parallel Single-Cell Multiomics Analysis of Neonatal Skin Reveals the Transitional Fibroblast States that Restrict Differentiation into Distinct Fates.

Authors:  Sean M Thompson; Quan M Phan; Sarayut Winuthayanon; Iwona M Driskell; Ryan R Driskell
Journal:  J Invest Dermatol       Date:  2021-12-17       Impact factor: 7.590
  2 in total

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