Literature DB >> 35704199

Proximity Ligation Assay for Detection of R-Loop Complexes upon DNA Damage.

Adele Alagia1, Ruth F Ketley1, Monika Gullerova2.   

Abstract

In situ Proximity Ligation Assay (PLA ) can be used to detect the close proximity (less than ~40 nm) of two biological molecules of interest in cells. Here we report the application of this method for the specific detection of R-loop interacting proteins and RNA modifications in close proximity to R-loops in non-damage and ionizing radiation (IR) induced DNA damage conditions.
© 2022. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Entities:  

Keywords:  DNA Damage; Double Strand breaks; Proximity Ligation Assay; R-loops; RNA modification; RNA:DNA hybrids

Mesh：

Substances：

Year:  2022        PMID： 35704199     DOI： 10.1007/978-1-0716-2477-7_19

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  19 in total

1.  METTL3 and N6-Methyladenosine Promote Homologous Recombination-Mediated Repair of DSBs by Modulating DNA-RNA Hybrid Accumulation.

Authors:  Canfeng Zhang; Liping Chen; Di Peng; Ao Jiang; Yunru He; Yanru Zeng; Chen Xie; Haoxian Zhou; Xiaotong Luo; Haiying Liu; Liang Chen; Jian Ren; Wengong Wang; Yong Zhao
Journal:  Mol Cell       Date:  2020-07-01       Impact factor: 17.970

Review 2.  The balancing act of R-loop biology: The good, the bad, and the ugly.

Authors:  Youssef A Hegazy; Chrishan M Fernando; Elizabeth J Tran
Journal:  J Biol Chem       Date:  2019-12-16       Impact factor: 5.157

3.  Direct observation of individual endogenous protein complexes in situ by proximity ligation.

Authors:  Ola Söderberg; Mats Gullberg; Malin Jarvius; Karin Ridderstråle; Karl-Johan Leuchowius; Jonas Jarvius; Kenneth Wester; Per Hydbring; Fuad Bahram; Lars-Gunnar Larsson; Ulf Landegren
Journal:  Nat Methods       Date:  2006-10-29       Impact factor: 28.547

4.  Proximity Ligation Assay for Detecting Protein-Protein Interactions and Protein Modifications in Cells and Tissues in Situ.

Authors:  Marihan Hegazy; Eran Cohen-Barak; Jennifer L Koetsier; Nicole A Najor; Constadina Arvanitis; Eli Sprecher; Kathleen J Green; Lisa M Godsel
Journal:  Curr Protoc Cell Biol       Date:  2020-12

Review 5.  A double-edged sword: R loops as threats to genome integrity and powerful regulators of gene expression.

Authors:  Konstantina Skourti-Stathaki; Nicholas J Proudfoot
Journal:  Genes Dev       Date:  2014-07-01       Impact factor: 11.361

6.  BRCA2 controls DNA:RNA hybrid level at DSBs by mediating RNase H2 recruitment.

Authors:  Giuseppina D'Alessandro; Donna Rose Whelan; Sean Michael Howard; Valerio Vitelli; Xavier Renaudin; Marek Adamowicz; Fabio Iannelli; Corey Winston Jones-Weinert; MiYoung Lee; Valentina Matti; Wei Ting C Lee; Michael John Morten; Ashok Raraakrishnan Venkitaraman; Petr Cejka; Eli Rothenberg; Fabrizio d'Adda di Fagagna
Journal:  Nat Commun       Date:  2018-12-18       Impact factor: 14.919

Review 7.  Jack of all trades? The versatility of RNA in DNA double-strand break repair.

Authors:  Ruth F Ketley; Monika Gullerova
Journal:  Essays Biochem       Date:  2020-10-26       Impact factor: 8.000

8.  CellProfiler: image analysis software for identifying and quantifying cell phenotypes.

Authors:  Anne E Carpenter; Thouis R Jones; Michael R Lamprecht; Colin Clarke; In Han Kang; Ola Friman; David A Guertin; Joo Han Chang; Robert A Lindquist; Jason Moffat; Polina Golland; David M Sabatini
Journal:  Genome Biol       Date:  2006-10-31       Impact factor: 13.583

9.  Drosha drives the formation of DNA:RNA hybrids around DNA break sites to facilitate DNA repair.

Authors:  Wei-Ting Lu; Ben R Hawley; George L Skalka; Robert A Baldock; Ewan M Smith; Aldo S Bader; Michal Malewicz; Felicity Z Watts; Ania Wilczynska; Martin Bushell
Journal:  Nat Commun       Date:  2018-02-07       Impact factor: 14.919

10.  m5C modification of mRNA serves a DNA damage code to promote homologous recombination.

Authors:  Hao Chen; Haibo Yang; Xiaolan Zhu; Tribhuwan Yadav; Jian Ouyang; Samuel S Truesdell; Jun Tan; Yumin Wang; Meihan Duan; Leizhen Wei; Lee Zou; Arthur S Levine; Shobha Vasudevan; Li Lan
Journal:  Nat Commun       Date:  2020-06-05       Impact factor: 17.694
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