Literature DB >> 28924672

In Situ Super-Resolution Imaging of Genomic DNA with OligoSTORM and OligoDNA-PAINT.

Brian J Beliveau1,2,3, Alistair N Boettiger4,5,6, Guy Nir1, Bogdan Bintu4,7, Peng Yin8,9, Xiaowei Zhuang10,11,12, C-Ting Wu13.   

Abstract

OligoSTORM and OligoDNA-PAINT meld the Oligopaint technology for fluorescent in situ hybridization (FISH) with, respectively, Stochastic Optical Reconstruction Microscopy (STORM) and DNA-based Point Accumulation for Imaging in Nanoscale Topography (DNA-PAINT) to enable in situ single-molecule super-resolution imaging of nucleic acids. Both strategies enable ≤20 nm resolution and are appropriate for imaging nanoscale features of the genomes of a wide range of species, including human, mouse, and fruit fly (Drosophila).

Entities:  

Keywords:  Chromatin; Chromosomes; DNA-PAINT; FISH; Genome; OligoDNA-PAINT; OligoSTORM; Oligopaint; STORM; Single-molecule; Super-resolution

Mesh:

Substances:

Year:  2017        PMID: 28924672      PMCID: PMC5919218          DOI: 10.1007/978-1-4939-7265-4_19

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


  26 in total

1.  Stochastic optical reconstruction microscopy (STORM): a method for superresolution fluorescence imaging.

Authors:  Mark Bates; Sara A Jones; Xiaowei Zhuang
Journal:  Cold Spring Harb Protoc       Date:  2013-06-01

2.  Breaking the diffraction barrier: super-resolution imaging of cells.

Authors:  Bo Huang; Hazen Babcock; Xiaowei Zhuang
Journal:  Cell       Date:  2010-12-23       Impact factor: 41.582

3.  An oxygen scavenging system for improvement of dye stability in single-molecule fluorescence experiments.

Authors:  Colin Echeverría Aitken; R Andrew Marshall; Joseph D Puglisi
Journal:  Biophys J       Date:  2007-10-05       Impact factor: 4.033

4.  Combined in vitro transcription and reverse transcription to amplify and label complex synthetic oligonucleotide probe libraries.

Authors:  Yusuf Murgha; Brian Beliveau; Kassandra Semrau; Donald Schwartz; Chao-Ting Wu; Erdogan Gulari; Jean-Marie Rouillard
Journal:  Biotechniques       Date:  2015-06-01       Impact factor: 1.993

5.  Multiplexed 3D cellular super-resolution imaging with DNA-PAINT and Exchange-PAINT.

Authors:  Ralf Jungmann; Maier S Avendaño; Johannes B Woehrstein; Mingjie Dai; William M Shih; Peng Yin
Journal:  Nat Methods       Date:  2014-02-02       Impact factor: 28.547

6.  Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes.

Authors:  Brian J Beliveau; Alistair N Boettiger; Maier S Avendaño; Ralf Jungmann; Ruth B McCole; Eric F Joyce; Caroline Kim-Kiselak; Frédéric Bantignies; Chamith Y Fonseka; Jelena Erceg; Mohammed A Hannan; Hien G Hoang; David Colognori; Jeannie T Lee; William M Shih; Peng Yin; Xiaowei Zhuang; Chao-ting Wu
Journal:  Nat Commun       Date:  2015-05-12       Impact factor: 14.919

7.  RNA Imaging with Multiplexed Error-Robust Fluorescence In Situ Hybridization (MERFISH).

Authors:  J R Moffitt; X Zhuang
Journal:  Methods Enzymol       Date:  2016-04-27       Impact factor: 1.600

8.  Resolution doubling in 3D-STORM imaging through improved buffers.

Authors:  Nicolas Olivier; Debora Keller; Pierre Gönczy; Suliana Manley
Journal:  PLoS One       Date:  2013-07-17       Impact factor: 3.240

9.  Scalable amplification of strand subsets from chip-synthesized oligonucleotide libraries.

Authors:  Thorsten L Schmidt; Brian J Beliveau; Yavuz O Uca; Mark Theilmann; Felipe Da Cruz; Chao-Ting Wu; William M Shih
Journal:  Nat Commun       Date:  2015-11-16       Impact factor: 14.919

10.  Optical imaging of individual biomolecules in densely packed clusters.

Authors:  Mingjie Dai; Ralf Jungmann; Peng Yin
Journal:  Nat Nanotechnol       Date:  2016-07-04       Impact factor: 39.213

View more
  29 in total

1.  3D mapping and accelerated super-resolution imaging of the human genome using in situ sequencing.

Authors:  Huy Q Nguyen; Shyamtanu Chattoraj; David Castillo; Son C Nguyen; Guy Nir; Antonios Lioutas; Elliot A Hershberg; Nuno M C Martins; Paul L Reginato; Mohammed Hannan; Brian J Beliveau; George M Church; Evan R Daugharthy; Marc A Marti-Renom; C-Ting Wu
Journal:  Nat Methods       Date:  2020-07-27       Impact factor: 28.547

2.  Tracing DNA paths and RNA profiles in cultured cells and tissues with ORCA.

Authors:  Leslie J Mateo; Nasa Sinnott-Armstrong; Alistair N Boettiger
Journal:  Nat Protoc       Date:  2021-02-22       Impact factor: 13.491

Review 3.  Advances in Chromatin Imaging at Kilobase-Scale Resolution.

Authors:  Alistair Boettiger; Sedona Murphy
Journal:  Trends Genet       Date:  2020-01-29       Impact factor: 11.639

Review 4.  Visualizing the genome in high resolution challenges our textbook understanding.

Authors:  Melike Lakadamyali; Maria Pia Cosma
Journal:  Nat Methods       Date:  2020-03-02       Impact factor: 28.547

Review 5.  Cellular and genomic approaches for exploring structural chromosomal rearrangements.

Authors:  Qing Hu; Elizabeth G Maurais; Peter Ly
Journal:  Chromosome Res       Date:  2020-01-13       Impact factor: 5.239

Review 6.  Advances in profiling chromatin architecture shed light on the regulatory dynamics underlying brain disorders.

Authors:  Brandon M Pratt; Hyejung Won
Journal:  Semin Cell Dev Biol       Date:  2021-09-03       Impact factor: 7.727

7.  A high-throughput DNA FISH protocol to visualize genome regions in human cells.

Authors:  Elizabeth H Finn; Tom Misteli
Journal:  STAR Protoc       Date:  2021-08-16

8.  Chromatin Hyperacetylation Impacts Chromosome Folding by Forming a Nuclear Subcompartment.

Authors:  Celeste D Rosencrance; Haneen N Ammouri; Qi Yu; Tiffany Ge; Emily J Rendleman; Stacy A Marshall; Kyle P Eagen
Journal:  Mol Cell       Date:  2020-04-02       Impact factor: 17.970

9.  Multiscale modeling of genome organization with maximum entropy optimization.

Authors:  Xingcheng Lin; Yifeng Qi; Andrew P Latham; Bin Zhang
Journal:  J Chem Phys       Date:  2021-07-07       Impact factor: 3.488

10.  Transcription-coupled structural dynamics of topologically associating domains regulate replication origin efficiency.

Authors:  Yongzheng Li; Boxin Xue; Mengling Zhang; Liwei Zhang; Yingping Hou; Yizhi Qin; Haizhen Long; Qian Peter Su; Yao Wang; Xiaodong Guan; Yanyan Jin; Yuan Cao; Guohong Li; Yujie Sun
Journal:  Genome Biol       Date:  2021-07-12       Impact factor: 13.583

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.