Literature DB >> 31768481

Embracing Systems Toxicology at Single-Cell Resolution.

Qiang Zhang1, W Michael Caudle1, Jingbo Pi2, Sudin Bhattacharya3, Melvin E Andersen4, Norbert E Kaminski5, Rory B Conolly6.   

Abstract

As systems biology expands its multi-omic spectrum to increasing resolutions, distinguishing cells based on single-cell profiles becomes feasible. Unlike traditional bulk assays that average cellular responses and blur the distinct identities of responsive cells, single-cell technologies enable sensitive detection of small cellular changes and precise identification of those cells perturbed by toxicants. Among the suite of omic technologies that continue to expand and become affordable, single-cell RNA sequencing (scRNA-seq) is at the cutting edge and leading the way to transform systems toxicology. Single-cell systems toxicology can provide a wealth of information to elucidate cell-specific alterations and response trajectories, detect points-of-departure, map and develop dynamical models of toxicity pathways.

Entities:  

Keywords:  bulk assay; computational toxicology; machine learning; single-cell RNA sequencing; systems toxicology; transcriptomics

Year:  2019        PMID: 31768481      PMCID: PMC6876623          DOI: 10.1016/j.cotox.2019.04.003

Source DB:  PubMed          Journal:  Curr Opin Toxicol        ISSN: 2468-2020


  54 in total

1.  Revealing strengths and weaknesses of methods for gene network inference.

Authors:  Daniel Marbach; Robert J Prill; Thomas Schaffter; Claudio Mattiussi; Dario Floreano; Gustavo Stolovitzky
Journal:  Proc Natl Acad Sci U S A       Date:  2010-03-22       Impact factor: 11.205

2.  Induction of cytochrome P-450 in cultured rat hepatocytes. The heterogeneous localization of specific isoenzymes using immunocytochemistry.

Authors:  R G Bars; A M Mitchell; C R Wolf; C R Elcombe
Journal:  Biochem J       Date:  1989-08-15       Impact factor: 3.857

3.  Cell fates as high-dimensional attractor states of a complex gene regulatory network.

Authors:  Sui Huang; Gabriel Eichler; Yaneer Bar-Yam; Donald E Ingber
Journal:  Phys Rev Lett       Date:  2005-04-01       Impact factor: 9.161

Review 4.  Single-cell gene expression profiling using reverse transcription quantitative real-time PCR.

Authors:  Anders Ståhlberg; Martin Bengtsson
Journal:  Methods       Date:  2010-01-11       Impact factor: 3.608

5.  Ultrasensitivity dynamics of diverse aryl hydrocarbon receptor modulators in a hepatoma cell line.

Authors:  Timothy E Hoffman; Evan R Acerbo; Kasimir F Carranza; Vincenzo S Gilberto; Lyle E Wallis; William H Hanneman
Journal:  Arch Toxicol       Date:  2018-12-19       Impact factor: 5.153

6.  2,3,7,8-Tetrachlorodibenzo-p-dioxin-mediated disruption of the CD40 ligand-induced activation of primary human B cells.

Authors:  Haitian Lu; Robert B Crawford; Barbara L F Kaplan; Norbert E Kaminski
Journal:  Toxicol Appl Pharmacol       Date:  2011-07-21       Impact factor: 4.219

7.  Addressing false discoveries in network inference.

Authors:  Tobias Petri; Stefan Altmann; Ludwig Geistlinger; Ralf Zimmer; Robert Küffner
Journal:  Bioinformatics       Date:  2015-04-24       Impact factor: 6.937

Review 8.  Liver zonation: Novel aspects of its regulation and its impact on homeostasis.

Authors:  Rolf Gebhardt; Madlen Matz-Soja
Journal:  World J Gastroenterol       Date:  2014-07-14       Impact factor: 5.742

9.  Temporal concordance between apical and transcriptional points of departure for chemical risk assessment.

Authors:  Russell S Thomas; Scott C Wesselkamper; Nina Ching Y Wang; Q Jay Zhao; Dan D Petersen; Jason C Lambert; Ila Cote; Longlong Yang; Eric Healy; Michael B Black; Harvey J Clewell; Bruce C Allen; Melvin E Andersen
Journal:  Toxicol Sci       Date:  2013-04-17       Impact factor: 4.849

10.  SC3: consensus clustering of single-cell RNA-seq data.

Authors:  Vladimir Yu Kiselev; Kristina Kirschner; Michael T Schaub; Tallulah Andrews; Andrew Yiu; Tamir Chandra; Kedar N Natarajan; Wolf Reik; Mauricio Barahona; Anthony R Green; Martin Hemberg
Journal:  Nat Methods       Date:  2017-03-27       Impact factor: 28.547

View more
  4 in total

1.  Single-cell RNA-seq Analysis Reveals That Prenatal Arsenic Exposure Results in Long-term, Adverse Effects on Immune Gene Expression in Response to Influenza A Infection.

Authors:  Kevin S Hsu; Britton C Goodale; Kenneth H Ely; Thomas H Hampton; Bruce A Stanton; Richard I Enelow
Journal:  Toxicol Sci       Date:  2020-08-01       Impact factor: 4.849

Review 2.  Single-cell profiling for advancing birth defects research and prevention.

Authors:  Thomas B Knudsen; Malte Spielmann; Sean G Megason; Elaine M Faustman
Journal:  Birth Defects Res       Date:  2021-01-25       Impact factor: 2.661

Review 3.  The Exposome and Toxicology: A Win-Win Collaboration.

Authors:  Robert Barouki; Karine Audouze; Christel Becker; Ludek Blaha; Xavier Coumoul; Spyros Karakitsios; Jana Klanova; Gary W Miller; Elliott J Price; Denis Sarigiannis
Journal:  Toxicol Sci       Date:  2022-02-28       Impact factor: 4.109

4.  Correlations between Low Doses of Zearalenone, Its Carryover Factor and Estrogen Receptor Expression in Different Segments of the Intestines in Pre-Pubertal Gilts-A Study Protocol.

Authors:  Magdalena Gajęcka; Magdalena Mróz; Paweł Brzuzan; Ewa Onyszek; Łukasz Zielonka; Karolina Lipczyńska-Ilczuk; Katarzyna E Przybyłowicz; Andrzej Babuchowski; Maciej T Gajęcki
Journal:  Toxins (Basel)       Date:  2021-05-26       Impact factor: 4.546

  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.