Achillefs N. Kapanidis

Publications

• Tethered Fluorophore Motion: Studying Large DNA Conformational Changes by Single-fluorophore Imaging
  Biophysical Journal. Sep, 2014  |   Pubmed ID: 25185556
• Single-molecule FRET Reveals a Corkscrew RNA Structure for the Polymerase-bound Influenza Virus Promoter
  Proceedings of the National Academy of Sciences of the United States of America. Aug, 2014  |   Pubmed ID: 25071209
• In Vivo Single-molecule Imaging of Bacterial DNA Replication, Transcription, and Repair
  FEBS Letters. Oct, 2014  |   Pubmed ID: 24859634
• Studying the Organization of DNA Repair by Single-cell and Single-molecule Imaging
  DNA Repair. Aug, 2014  |   Pubmed ID: 24629485
• Long-lived Intracellular Single-molecule Fluorescence Using Electroporated Molecules
  Biophysical Journal. Dec, 2013  |   Pubmed ID: 24314075
• Conformational Transitions During FtsK Translocase Activation of Individual XerCD-dif Recombination Complexes
  Proceedings of the National Academy of Sciences of the United States of America. Oct, 2013  |   Pubmed ID: 24101525
• Conformational Landscapes of DNA Polymerase I and Mutator Derivatives Establish Fidelity Checkpoints for Nucleotide Insertion
  Nature Communications. 2013  |   Pubmed ID: 23831915
• Multiscale Spatial Organization of RNA Polymerase in Escherichia Coli
  Biophysical Journal. Jul, 2013  |   Pubmed ID: 23823236
• Rotavirus MRNAS Are Released by Transcript-specific Channels in the Double-layered Viral Capsid
  Proceedings of the National Academy of Sciences of the United States of America. Jul, 2013  |   Pubmed ID: 23818620
• Single-molecule DNA Repair in Live Bacteria
  Proceedings of the National Academy of Sciences of the United States of America. May, 2013  |   Pubmed ID: 23630273
• Non-covalent Single Transcription Factor Encapsulation Inside a DNA Cage
  Angewandte Chemie (International Ed. in English). Feb, 2013  |   Pubmed ID: 23325751
• The Transcription Bubble of the RNA Polymerase-promoter Open Complex Exhibits Conformational Heterogeneity and Millisecond-scale Dynamics: Implications for Transcription Start-site Selection
  Journal of Molecular Biology. Mar, 2013  |   Pubmed ID: 23274143
• Six Steps Closer to FRET-driven Structural Biology
  Nature Methods. Dec, 2012  |   Pubmed ID: 23223168
• Capturing Reaction Paths and Intermediates in Cre-loxP Recombination Using Single-molecule Fluorescence
  Proceedings of the National Academy of Sciences of the United States of America. Dec, 2012  |   Pubmed ID: 23184986
• T7 RNA Polymerase Functions in Vitro Without Clustering
  PloS One. 2012  |   Pubmed ID: 22768341
• Characterization of Dark Quencher Chromophores As Nonfluorescent Acceptors for Single-molecule FRET
  Biophysical Journal. Jun, 2012  |   Pubmed ID: 22713582
• A Protein Biosensor That Relies on Bending of Single DNA Molecules
  Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. Mar, 2012  |   Pubmed ID: 22368093
• Colorful Molecular Diagnostics
  Clinical Chemistry. Apr, 2012  |   Pubmed ID: 22300628
• DAOSTORM: an Algorithm for High- Density Super-resolution Microscopy
  Nature Methods. Apr, 2011  |   Pubmed ID: 21451515
• Identifying Molecular Dynamics in Single-molecule FRET Experiments with Burst Variance Analysis
  Biophysical Journal. Mar, 2011  |   Pubmed ID: 21402040
• Improved Temporal Resolution and Linked Hidden Markov Modeling for Switchable Single-molecule FRET
  Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. Feb, 2011  |   Pubmed ID: 21280168
• Defining the Limits of Single-molecule FRET Resolution in TIRF Microscopy
  Biophysical Journal. Nov, 2010  |   Pubmed ID: 21044609
• Sensing DNA Opening in Transcription Using Quenchable Förster Resonance Energy Transfer
  Biochemistry. Nov, 2010  |   Pubmed ID: 20818825
• Monitoring Multiple Distances Within a Single Molecule Using Switchable FRET
  Nature Methods. Oct, 2010  |   Pubmed ID: 20818380
• Surfing on a New Wave of Single-molecule Fluorescence Methods
  Physical Biology. 2010  |   Pubmed ID: 20686191
• Characterizing Single-molecule FRET Dynamics with Probability Distribution Analysis
  Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. Jul, 2010  |   Pubmed ID: 20575136
• Conformational Transitions in DNA Polymerase I Revealed by Single-molecule FRET
  Proceedings of the National Academy of Sciences of the United States of America. Jan, 2010  |   Pubmed ID: 20080740
• Single-molecule DNA Biosensors for Protein and Ligand Detection
  Angewandte Chemie (International Ed. in English). Feb, 2010  |   Pubmed ID: 20077444
• Probing Biomolecular Structures and Dynamics of Single Molecules Using In-gel Alternating-laser Excitation
  Analytical Chemistry. Dec, 2009  |   Pubmed ID: 19863108
• DNA Monofunctionalization of Quantum Dots
  Chembiochem : a European Journal of Chemical Biology. Jul, 2009  |   Pubmed ID: 19554595
• A Facile Method for Reversibly Linking a Recombinant Protein to DNA
  Chembiochem : a European Journal of Chemical Biology. Jun, 2009  |   Pubmed ID: 19449345
• Single-molecule FRET Analysis of Protein-DNA Complexes
  Methods in Molecular Biology (Clifton, N.J.). 2009  |   Pubmed ID: 19378183
• Biology, One Molecule at a Time
  Trends in Biochemical Sciences. May, 2009  |   Pubmed ID: 19362843
• Reconfigurable, Braced, Three-dimensional DNA Nanostructures
  Nature Nanotechnology. Feb, 2008  |   Pubmed ID: 18654468
• Red Light, Green Light: Probing Single Molecules Using Alternating-laser Excitation
  Biochemical Society Transactions. Aug, 2008  |   Pubmed ID: 18631150
• Periodic Acceptor Excitation Spectroscopy of Single Molecules
  European Biophysics Journal : EBJ. Jul, 2007  |   Pubmed ID: 17279362
• Three-color Alternating-laser Excitation of Single Molecules: Monitoring Multiple Interactions and Distances
  Biophysical Journal. Jan, 2007  |   Pubmed ID: 17040983
• Initial Transcription by RNA Polymerase Proceeds Through a DNA-scrunching Mechanism
  Science (New York, N.Y.). Nov, 2006  |   Pubmed ID: 17110578
• Direct Observation of Abortive Initiation and Promoter Escape Within Single Immobilized Transcription Complexes
  Biophysical Journal. Feb, 2006  |   Pubmed ID: 16299085
• Retention of Transcription Initiation Factor Sigma70 in Transcription Elongation: Single-molecule Analysis
  Molecular Cell. Nov, 2005  |   Pubmed ID: 16285917
• Alternating-laser Excitation of Single Molecules
  Accounts of Chemical Research. Jul, 2005  |   Pubmed ID: 16028886
• Accurate FRET Measurements Within Single Diffusing Biomolecules Using Alternating-laser Excitation
  Biophysical Journal. Apr, 2005  |   Pubmed ID: 15653725
• Fluorescence-aided Molecule Sorting: Analysis of Structure and Interactions by Alternating-laser Excitation of Single Molecules
  Proceedings of the National Academy of Sciences of the United States of America. Jun, 2004  |   Pubmed ID: 15175430
• Fluorescence Resonance Energy Transfer (FRET) in Analysis of Transcription-complex Structure and Function
  Methods in Enzymology. 2003  |   Pubmed ID: 14712697
• The Power and Prospects of Fluorescence Microscopies and Spectroscopies
  Annual Review of Biophysics and Biomolecular Structure. 2003  |   Pubmed ID: 12598370
• Structural Organization of Bacterial RNA Polymerase Holoenzyme and the RNA Polymerase-promoter Open Complex
  Cell. Mar, 2002  |   Pubmed ID: 11893332