Next Generation Nanofluidic Devices for Single Molecule Analysis of DNA Repair Dynamics

Project Information

nanoDNArepair

Grant agreement ID: 866238

DOI

10.3030/866238

Project closed

EC signature date 19 December 2019

Start date 1 April 2020

End date 31 March 2025

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 2 000 000,00

EU contribution

€ 2 000 000,00

Coordinated by

CHALMERS TEKNISKA HOGSKOLA AB
Sweden

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Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Peer reviewed articles (14)

Label-free nanofluidic scattering microscopy of size and mass of single diffusing molecules and nanoparticles

Author(s): Barbora Špačková, Henrik Klein Moberg, Joachim Fritzsche, Johan Tenghamn, Gustaf Sjösten, Hana Šípová-Jungová, David Albinsson, Quentin Lubart, Daniel van Leeuwen, Fredrik Westerlund, Daniel Midtvedt, Elin K. Esbjörner, Mikael Käll, Giovanni Volpe, Christoph Langhammer
Published in: Nature Methods, Issue 19, 2022, Page(s) 751-758, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/s41592-022-01491-6

Dynamics of Ku and bacterial non-homologous end-joining characterized using single DNA molecule analysis

Author(s): Robin Öz, Jing L Wang, Raphael Guerois, Gaurav Goyal, Sriram KK, Virginie Ropars, Rajhans Sharma, Firat Koca, Jean-Baptiste Charbonnier, Mauro Modesti, Terence R Strick, Fredrik Westerlund
Published in: Nucleic Acids Research, Issue 49/5, 2021, Page(s) 2629-2641, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gkab083

Polymer Brushes on Silica Nanostructures Prepared by Aminopropylsilatrane Click Chemistry: Superior Antifouling and Biofunctionality

Author(s): John Andersson; Julia Järlebark; Sriram KK; Andreas Schaefer; Rebekah Hailes; Chonnipa Palasingh; Bagus Santoso; Van-Truc Vu; Chun-Jun Huang; Fredrik Westerlund; Andreas Dahlin
Published in: ACS Applied Materials and Interfaces, Issue 15, 2023, Page(s) 10228–10239, ISSN 1944-8244
Publisher: American Chemical Society
DOI: 10.1021/acsami.2c21168

Phosphorylated CtIP bridges DNA to promote annealing of broken ends

Author(s): Robin Öz, Sean M. Howard, Rajhans Sharma, Hanna Törnkvist, Ilaria Ceppi, Sriram KK, Erik Kristiansson, Petr Cejka, Fredrik Westerlund
Published in: Proceedings of the National Academy of Sciences, Issue 117/35, 2020, Page(s) 21403-21412, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.2008645117

Exploring the conformational dynamics of the SARS-CoV-2 SL4 hairpin by combining optical tweezers and base analogues

Author(s): Vinoth Sundar Rajan, Anna Wypijewska del Nogal, Sune Levin, L. Marcus Wilhelmsson, Fredrik Westerlund
Published in: Nanoscale, Issue 16, 2024, Page(s) 752-764, ISSN 2040-3364
Publisher: Royal Society of Chemistry
DOI: 10.1039/d3nr04110g

Real-time compaction of nanoconfined DNA by an intrinsically disordered macromolecular counterion

Author(s): Rajhans Sharma, Sriram KK, Erik D. Holmstrom, Fredrik Westerlund
Published in: Biochemical and Biophysical Research Communications, Issue 533/1, 2020, Page(s) 175-180, ISSN 0006-291X
Publisher: Academic Press
DOI: 10.1016/j.bbrc.2020.06.051

Complex Conformational Dynamics of the Heart Failure-Associated Pre-miRNA-377 Hairpin Revealed by Single-Molecule Optical Tweezers.

Author(s): Anna Wiktoria Wypijewska Del Nogal; Vinoth Sundar Rajan; Fredrik Westerlund; Marcus Wilhelmsson
Published in: International Journal of Molecular Sciences, Issue 22, 2021, Page(s) 9008, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms22169008

Single-Molecule Trapping and Measurement in a Nanostructured Lipid Bilayer System

Author(s): Maria Bespalova; Robin Öz; Fredrik Westerlund; Madhavi Krishnan
Published in: Langmuir, Issue 38, 2022, Page(s) 13923–13934, ISSN 1520-5827
Publisher: ACS
DOI: 10.1021/acs.langmuir.2c02203

DNA in nanochannels: theory and applications

Author(s): Karolin Frykholm, Vilhelm Müller, Sriram KK, Kevin D. Dorfman, Fredrik Westerlund
Published in: Quarterly Reviews of Biophysics, Issue 55, 2022, ISSN 0033-5835
Publisher: Cambridge University Press
DOI: 10.1017/s0033583522000117

Mechanical characterization of base analogue modified nucleic acids by force spectroscopy

Author(s): Vinoth Sundar Rajan, Xavier Viader-Godoy, Yii-Lih Lin, Uttama Dutta, Felix Ritort, Fredrik Westerlund, L. Marcus Wilhelmsson
Published in: Physical Chemistry Chemical Physics, Issue 23/26, 2021, Page(s) 14151-14155, ISSN 1463-9076
Publisher: Royal Society of Chemistry
DOI: 10.1039/d1cp01985f

Probing physical properties of single amyloid fibrils using nanofluidic channels

Author(s): Nima Sasanian, Rajhans Sharma, Quentin Lubart, Sriram KK, Marziyeh Ghaeidamini, Kevin D. Dorfman, Elin K. Esbjörner, Fredrik Westerlund
Published in: Nanoscale, Issue 15, 2024, Page(s) 18737-18744, ISSN 2040-3364
Publisher: Royal Society of Chemistry
DOI: 10.1039/d3nr02740f

C-terminal truncation of α-synuclein alters DNA structure from extension to compaction.

Author(s): Kai Jiang; Sandra Rocha; Ranjeet Kumar; Fredrik Westerlund; Pernilla Wittung-Stafshede
Published in: Biochemical and Biophysical Research Communications, Issue 568, 2021, Page(s) 43-47, ISSN 1090-2104
Publisher: Elsevier
DOI: 10.1016/j.bbrc.2021.06.059

Xrs2/NBS1 promote end-bridging activity of the MRE11-RAD50 complex

Author(s): Carl Möller, Rajhans Sharma, Robin Öz, Giordano Reginato, Elda Cannavo, Ilaria Ceppi, K.K. Sriram, Petr Cejka, Fredrik Westerlund
Published in: Biochemical and Biophysical Research Communications, Issue 695, 2024, Page(s) 149464, ISSN 0006-291X
Publisher: Academic Press
DOI: 10.1016/j.bbrc.2023.149464

The HIV-1 nucleocapsid chaperone protein forms locally compacted globules on long double-stranded DNA

Author(s): Kai Jiang, Nicolas Humbert, Sriram K.K., Ioulia Rouzina, Yves Mely, Fredrik Westerlund
Published in: Nucleic Acids Research, Issue 49/8, 2021, Page(s) 4550-4563, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gkab236

Book chapters (1)

Fluorescence Microscopy of Nanochannel-Confined DNA

Author(s): Sriram KK, Fredrik Persson, Joachim Fritzsche, Jason P. Beech, Jonas O. Tegenfeldt, Fredrik Westerlund
Published in: Methods in Molecular Biology, Single Molecule Analysis, 2023, Page(s) 175-202
Publisher: Springer US
DOI: 10.1007/978-1-0716-3377-9_9