2024 journal article
Single-molecule fluorescence imaging of DNA maintenance protein binding dynamics and activities on extended DNA
CURRENT OPINION IN STRUCTURAL BIOLOGY, 87.
2023 journal article
Assembly path dependence of telomeric DNA compaction by TRF1, TIN2, and SA1
BIOPHYSICAL JOURNAL, 122(10), 1822–1832.
2023 journal article
High-speed AFM imaging reveals DNA capture and loop extrusion dynamics by cohesin-NIPBL
JOURNAL OF BIOLOGICAL CHEMISTRY, 299(11).
2023 article
PARP1 associates with R-loops to promote their resolution and genome stability
Laspata, N., Kaur, P., Mersaoui, S. Y., Muoio, D., Liu, Z. S., Bannister, M. H., … Fouquerel, E. (2023, February 16). NUCLEIC ACIDS RESEARCH, Vol. 2.
2023 journal article
Single-molecule imaging of genome maintenance proteins encountering specific DNA sequences and structures
DNA REPAIR, 128.
2023 article
Structure-specific roles for PolG2-DNA complexes in maintenance and replication of mitochondrial DNA
Wojtaszek, J. L., Hoff, K. E., Longley, M. J., Kaur, P., Andres, S. N., Wang, H., … Copeland, W. C. (2023, August 18). NUCLEIC ACIDS RESEARCH, Vol. 8.
2022 journal article
Densely methylated DNA traps Methyl-CpG-binding domain protein 2 but permits free diffusion by Methyl-CpG-binding domain protein 3
JOURNAL OF BIOLOGICAL CHEMISTRY, 298(10).
2022 article
Structural and dynamic basis of DNA capture and translocation by mitochondrial Twinkle helicase
Li, Z., Kaur, P., Lo, C.-Y., Chopra, N., Smith, J., Wang, H., & Gao, Y. (2022, November 18). NUCLEIC ACIDS RESEARCH, Vol. 11.
2021 journal article
Structure, dynamics, and regulation of TRF1-TIN2-mediated trans- and cis-interactions on telomeric DNA
JOURNAL OF BIOLOGICAL CHEMISTRY, 297(3).
2021 journal article
Structure, dynamics, and regulation of TRF1-TIN2-mediated trans-and cis-interactions on telomeric DNA
Journal of Biological Chemistry, 101080.
2021 journal article
TIN2 is an architectural protein that facilitates TRF2-mediated trans- and cis-interactions on telomeric DNA
NUCLEIC ACIDS RESEARCH, 49(22), 13000–13018.
2021 journal article
Using Atomic Force Microscopy to Study the Real Time Dynamics of DNA Unwinding by Mitochondrial Twinkle Helicase
BIO-PROTOCOL, 11(17).
2020 journal article
Cohesin SA1 and SA2 are RNA binding proteins that localize to RNA containing regions on DNA
NUCLEIC ACIDS RESEARCH, 48(10), 5639–5655.
2020 journal article
Cohesin SA1 and SA2 are RNA binding proteins that localize to RNA containing regions on DNA
Nucleic Acids Research.
2020 journal article
DNA looping by two 5-methylcytosine-binding proteins quantified using nanofluidic devices
EPIGENETICS & CHROMATIN, 13(1).
2020 journal article
Single-molecule level structural dynamics of DNA unwinding by human mitochondrial Twinkle helicase
JOURNAL OF BIOLOGICAL CHEMISTRY, 295(17), 5564–5576.
2020 journal article
Single-molecule level structural dynamics of DNA unwinding by human mitochondrial Twinkle helicase
Journal of Biological Chemistry, 295(17), 5564–5576.
2019 journal article
Cohesin SA2 and EWSR1 in R-Loop Regulation
Biophysical Journal, 116(3), 505a.
2019 article
Measuring UV Photoproduct Repair in Isolated Telomeres and Bulk Genomic DNA
DNA REPAIR: METHODS AND PROTOCOLS, Vol. 1999, pp. 295–306.
2019 chapter
Measuring UV Photoproduct Repair in Isolated Telomeres and Bulk Genomic DNA
In DNA Repair (pp. 295–306). Springer.
2019 journal article
Single-Molecule Study of TRF2 Mediated DNA Compaction using Physiologically Relevant Long Telomeric DNA
Biophysical Journal, 116(3), 505a.
2019 journal article
TIN2 is an Architectural Protein Stabilizing TRF1 at Telomere
Biophysical Journal, 116(3), 211a–212a.
2018 journal article
Single-molecule DREEM imaging reveals DNA wrapping around human mitochondrial single-stranded DNA binding protein
NUCLEIC ACIDS RESEARCH, 46(21), 11287–11302.
2017 journal article
Cohesin SA2 is a sequence independent DNA binding protein that recognizes DNA replication and repair intermediates
Journal of Biological Chemistry, jbc-M117.
2017 journal article
Cohesin SA2 is a sequence-independent DNA-binding protein that recognizes DNA replication and repair intermediates
JOURNAL OF BIOLOGICAL CHEMISTRY, 293(3), 1054–1069.
2017 journal article
CpG and methylation-dependent DNA binding and dynamics of the methylcytosine binding domain 2 protein at the single-molecule level
NUCLEIC ACIDS RESEARCH, 45(15), 9164–9177.
2017 journal article
Nucleosome-like, Single-stranded DNA (ssDNA)-Histone Octamer Complexes and the Implication for DNA Double Strand Break Repair
Journal of Biological Chemistry, 292(13), 5271–5281.
2017 journal article
Single Molecule Fluorescence and Atomic Force Microscopy Studies of DNA Repair
Biophysical Journal, 112(3), 7a.
2017 journal article
Using Atomic Force Microscopy to Characterize the Conformational Properties of Proteins and Protein--DNA Complexes That Carry Out DNA Repair
Methods in Enzymology, 592, 187–212.
2017 journal article
Walking the DNA Methylation Tightrope: The Involvement of Intrinsically Disordered Regions of Transcription Factors
Biophysical Journal, 112(3), 207a.
2016 journal article
Enhanced electrostatic force microscopy reveals higher-order DNA looping mediated by the telomeric protein TRF2
Scientific Reports, 6(1).
2016 journal article
Functional interplay between SA1 and TRF1 in telomeric DNA binding and DNA--DNA pairing
Nucleic Acids Research, gkw518.
2016 journal article
Functional interplay between SA1 and TRF1 in telomeric DNA binding and DNA-DNA pairing
NUCLEIC ACIDS RESEARCH, 44(13), 6363–6376.
2016 journal article
TRF2-Mediated Control of Telomere DNA Topology as a Mechanism for Chromosome-End Protection
Molecular Cell.
2016 journal article
TRF2-mediated control of telomere DNA topology as a mechanism for chromosome-end protection
Molecular Cell, 61(2), 274–286.
2016 journal article
Visualizing the Path of DNA through Proteins Using DREEM Imaging
MOLECULAR CELL, 61(2), 315–323.
2015 journal article
Determining the DNA Diffusion Behavior of SA2 on Various DNA Substrates
Biophysical Journal, 108(2), 397a.
2015 journal article
Interference of ATP with the fluorescent probes YOYO-1 and YOYO-3 modifies the mechanical properties of intercalator-stained DNA confined in nanochannels
Microchimica Acta, 182(7-8), 1561–1565.
2015 journal article
Revealing Structure and Dynamics of Telomere Maintenance Proteins on DNA: One Molecule at a Time
Biophysical Journal, 108(2), 7a.
2015 journal article
Single-Molecule Imaging Reveals Dynamics of SA1-TRF1 Interactions on Telomeric DNA
Biophysical Journal, 108(2), 206a.
2015 journal article
Telomeres are partly shielded from ultraviolet-induced damage and proficient for nucleotide excision repair of photoproducts
NATURE COMMUNICATIONS, 6.
2014 journal article
Probing transient protein-mediated DNA linkages using nanoconfinement
Biomicrofluidics, 8(3), 034113.
Contributors: M. Roushan n, P. Kaur n, A. Karpusenko n, P. Countryman n, C. Ortiz n, S. Lim n , n , R. Riehn n
2014 journal article
Single-molecule analysis reveals human UV-damaged DNA-binding protein (UV-DDB) dimerizes on DNA via multiple kinetic intermediates
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 111(18), E1862–E1871.
2014 conference paper
Single-molecule imaging reveals DNA-binding properties of cohesin proteins SA1 and SA2.
Environmental and Molecular Mutagenesis, 55, S29–29.
2014 journal article
TRF1 and TRF2 use different mechanisms to find telomeric DNA but share a novel mechanism to search for protein partners at telomeres
Nucleic Acids Research, 42(4), 2493–2504.
2014 journal article
Unraveling secrets of telomeres: One molecule at a time
DNA REPAIR, 20, 142–153.
2013 journal article
DNA polymerase delta stalls on telomeric lagging strand templates independently from G-quadruplex formation
NUCLEIC ACIDS RESEARCH, 41(22), 10323–10333.
2013 review
Investigating bioconjugation by atomic force microscopy
[Review of ]. Journal of Anobiotechnology, 11.
2013 journal article
Investigating bioconjugation by atomic force microscopy
J. Nanobiotechnol, 11, 25.
2013 journal article
Real-time single-molecule imaging reveals a direct interaction between UvrC and UvrB on DNA tightropes
Nucleic Acids Research, gkt177.
2013 journal article
TRF1 and TRF2 use different mechanisms to find telomeric DNA but share a novel mechanism to search for protein partners at telomeres
NUCLEIC ACIDS RESEARCH, 42(4), 2493–2504.
2013 journal article
WT UV-DDB Performs a 3D Search on DNA whereas the XP-E Mutant (K244E DDB2) Mutant Slides
Biophysical Journal, 104(2), 77a.
2012 journal article
A New Role for UvrB in NER? Single Molecule Imaging of the NER Complex UvrBC-DNA
Biophysical Journal, 102(3), 485a.
2012 journal article
Damaged DNA induced UV-damaged DNA-binding protein (UV-DDB) dimerization and its roles in chromatinized DNA repair
Proceedings of the National Academy of Sciences, 109(41), E2737–E2746.
2012 journal article
Werner syndrome protein suppresses the formation of large deletions during the replication of human telomeric sequences
Cell Cycle, 11(16), 3036–3044.
2011 journal article
High accuracy FIONA–AFM hybrid imaging
Ultramicroscopy, 111(5), 350–355.
2011 journal article
Investigating Nucleotide Excision DNA Repair by Single-Molecule Imaging of Quantum Dot Labeled Proteins Reveals Unique Scanning Mechanisms
Biophysical Journal, 100(3), 240a.
2011 chapter
Nucleotide excision repair from bacteria to humans: Structure--function studies
In Chemical Carcinogenesis (pp. 267–296). Springer.
2010 journal article
Collaborative Dynamic DNA Scanning by Nucleotide Excision Repair Proteins Investigated by Single- Molecule Imaging of Quantum-Dot-Labeled Proteins
Molecular Cell, 37(5), 702–713.
2010 journal article
Single Molecule Studies of Physiologically Relevant Telomeric Tails Reveal POT1 Mechanism for Promoting G-quadruplex Unfolding
Journal of Biological Chemistry, 286(9), 7479–7489.
2009 journal article
Replication Protein A Stimulates the Werner Syndrome Protein Branch Migration Activity
Journal of Biological Chemistry, 284(50), 34682–34691.
2009 journal article
The Werner syndrome helicase/exonuclease processes mobile D-loops through branch migration and degradation
PLoS One, 4(3), e4825.
2008 journal article
Efficient processing of TFO-directed psoralen DNA interstrand crosslinks by the UvrABC nuclease
Nucleic Acids Research, 36(22), 7136–7145.
2008 journal article
Functional Characterization and Atomic Force Microscopy of a DNA Repair Protein Conjugated to a Quantum Dot
Nano Letters, 8(6), 1631–1637.
2007 chapter
Characterization of protein--protein interactions using atomic force microscopy
In Protein Interactions (pp. 39–77). Springer.
2006 journal article
Structural basis for DNA recognition and processing by UvrB
Nature Structural & Molecular Biology, 13(4), 360–364.
2006 journal article
The C-terminal Zinc Finger of UvrA Does Not Bind DNA Directly but Regulates Damage-specific DNA Binding
Journal of Biological Chemistry, 281(36), 26370–26381.
2006 journal article
UvrB Domain 4, an Autoinhibitory Gate for Regulation of DNA Binding and ATPase Activity
Journal of Biological Chemistry, 281(22), 15227–15237.
2005 journal article
Structural insights into the first incision reaction during nucleotide excision repair
The EMBO Journal, 24(5), 885–894.
2005 journal article
Structural insights into the first incision reaction during nucleotide excision repair
The EMBO Journal, 24(5), 885–894.
2005 journal article
‘Close-fitting sleeves’: DNA damage recognition by the UvrABC nuclease system
Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, 577(1-2), 92–117.
2003 journal article
DNA bending and unbending by MutS govern mismatch recognition and specificity
Proceedings of the National Academy of Sciences, 100(25), 14822–14827.
2003 journal article
Functional oligomeric state of avian sarcoma virus integrase
Journal of Biological Chemistry, 278(2), 1323–1327.
2003 journal article
Quantitative characterization of biomolecular assemblies and interactions using atomic force microscopy
Methods, 29(2), 175–187.
2002 journal article
A minimal exonuclease domain of WRN forms a hexamer on DNA and possesses both 3'-5'exonuclease and 5'-protruding strand endonuclease activities
Biochemistry, 41(9), 2901–2912.
2002 journal article
DNA binding properties of the yeast Msh2-Msh6 and Mlh1-Pms1 heterodimers
Biological Chemistry, 383(6), 969–975.
2001 journal article
High affinity cooperative DNA binding by the yeast Mlh1-Pms1 heterodimer
Journal of Molecular Biology, 312(4), 637–647.
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