Publications
34. Mehra D, and Puchner, EM. Correlative Conventional and Super-resolution Photoactivated Localization Microscopy (PALM) Imaging to Characterize Chromatin Structure and Dynamics in Live Mammalian Cells. Bio-protocol 13(20): e4850. (2023).
33. Banerjee C, Mehra D, Song D, Mancebo A, Park JM, Kim DH and Puchner EM. ULK1 forms distinct oligomeric states and nanoscopic structures during autophagy initiation. Sci. Adv. 9, eadh4094 (2023).
32. Najt CP, Adhikari S, Heden TD, Cui W, Gansemer ER, Rauckhorst AJ, Markowski TW, Higgins L, Kerr EW, Boyum MD, Alvarez J, Brunko S, Mehra D, Puchner EM, Taylor EB, Mashek DG. Organelle interactions compartmentalize hepatic fatty acid trafficking and metabolism. Cell Rep. 2023 May 30;42(5):112435. PMID: 37104088; PMCID: PMC10278152.
30. Mehra D, Adhikari S, Banerjee C, Puchner EM* "Characterizing locus specific chromatin structure and dynamics with correlative conventional and super-resolution imaging in living cells" Nucleic Acids Res. 2022 Jul 22;50(13):e78. PMID: 35524554; PMCID: PMC9303368.
29. Adhikari S, Moscatelli J, Puchner EM* "Quantitative live-cell PALM reveals nanoscopic Faa4 redistributions and dynamics on lipid droplets during metabolic transitions of yeast" Mol Biol Cell. 2021 Aug 15;32(17):1565-1578. PMID: 34161133; PMCID: PMC8351750.
31. Mancebo A, Mehra D, Banerjee C, Kim DH, Puchner EM* "Efficient Cross-Correlation Filtering of One- and Two-Color Single Molecule Localization Microscopy Data" Front Bioinform. 2021 Nov 4;1:739769. PMID: 36303727; PMCID: PMC9581065.
28. Adhikari S, Banerjee C, Moscatelli J, Puchner EM*. "Conventional BODIPY Conjugates for Live-Cell Super-Resolution Microscopy and Single-Molecule Tracking" J Vis Exp. 2020 Jun 8;(160):10.3791/60950. PMID: 32568221; PMCID: PMC8725576.
Text only: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8725576/
Video tutorial: https://www.jove.com/t/60950/conventional-bodipy-conjugates-for-live-cell-super-resolution
27. Mancebo A Jr, DeMars L, Ertsgaard CT, Puchner EM* "Precisely calibrated and spatially informed illumination for conventional fluorescence and improved PALM imaging applications" Methods Appl Fluoresc. 2020 Feb 19;8(2):025004. https://doi.org/10.1088/2050-6120/ab716a
26. Adhikari S, Moscatelli J, Smith EM, Banerjee C & Puchner EM* "Single-molecule localization microscopy and tracking with red-shifted states of conventional BODIPY conjugates in living cells" Nat Commun. 2019 Jul 30;10(1):3400. PMID: 31363088; PMCID: PMC6667493.
https://doi.org/10.1038/s41467-019-11384-6
See highlight in Nature Methods: https://doi.org/10.1038/s41592-019-0596-3
25. Smith EM, Gautier A and Puchner EM* "Single-Molecule Localization Microscopy with the Fluorescence-Activating and Absorption-Shifting Tag (FAST) System" ACS Chem. Biol. 2019, 14, 6, 1115–112 ...Link
24. van Lengerich B, Agnew C, Puchner EM, Huang B and Jura N, "EGF and NRG induce phosphorylation of HER3/ERBB3 by EGFR using distinct oligomeric mechanisms", Proc. Nat. Acad. Sci. 114 (14), E2836–E2845, (2017). ...Link
23. Ramírez MP, Rivera M, Quiroga-Roger D, Bustamante A, Vega M, Baez M, Puchner EM, Wilson CA "Single molecule force spectroscopy reveals the effect of BiP chaperone on protein folding" Protein Science doi: 10.1002/pro.3137. (2017). ...Link
22. Sydor AM, Czymmek KJ, Puchner EM*, Mennella V*. " Super-Resolution Microscopy: From Single Molecules to Supramolecular Assemblies" Trends in cell biology 25(12), 730-748. (2015). ...Link
21. Wu CY, Roybal KT, Puchner EM, Onuffer J, Lim WA. “Boolean AND logic design for a synthetic immunoreceptor that is combinatorially controlled by ligand and small molecule” Science 350, 6258 (2015). ...Link
20. Puchner EM, Huang B and Gaub HE. “Single molecule techniques - applications in biology” Editorial, FEBS 588(19), 3519 (2014). ...Link
19. Puchner EM, Walter JM, Kasper R, Huang B and Lim WA. "Counting molecules in single organelles with superresolution microscopy allows tracking of the endosome maturation trajectory" PNAS 110(40), 16015-16020 (2013). ...Link
18. Heucke SF, Puchner EM, Stahl SW, Holleitner AW, Gaub HE and Tinnefeld P. "Nanoapertures for AFM-based single-molecule force spectroscopy" Int. J. of Nanotechnology 10(5/6/7), 607 - 619 (2013). ...Link
17. Puchner EM, and Gaub HE. "Single-Molecule Mechanoenzymatics" Annual Review of Biophysics 41, 497-518 (2012). ...Link
16. Strackharn M, Stahl SW, Puchner EM and Gaub HE. "Functional Assembly of Aptamer Binding Sites by Single-Molecule Cut-and-Paste" Nano Letters 12(5), 2425-8 (2012). ...Link
15. Stahl SW, Puchner EM, Alexandrovich A, Gautel M and Gaub HE. "A conditional gating mechanism assures the integrity of the molecular force-sensor titin kinase" Biophysical journal 101, 1978-86 (2011). ...Link
14. Heus HA, Puchner EM, van Vugt-Jonker AJ, Zimmermann JL and Gaub HE. "Atomic force microscope-based single-molecule force spectroscopy of RNA unfolding"Analytical biochemistry 414, 1-6 (2011). ...Link
13. Puchner EM and Gaub HE "Exploring the conformation-regulated function of titin kinase by mechanical pump and probe experiments with single molecules" Angewandte Chemie 49, 1147-50 (2010). ...Link
12. Geisler M, Xiao S, Puchner EM, Grater F and Hugel T. "Controlling the Structure of Proteins at Surfaces" Journal of the American Chemical Society 132, 17277-17281 (2010). ...Link
11. Cordes TM, Strackharn M, Stahl SW, Summerer W, Steinhauer C, Forthmann C, Puchner EM, Vogelsang J, Gaub HE and Tinnefeld P. "Resolving single-molecule assembled patterns with superresolution blink-microscopy" Nano Letters 10, 645-51 (2010). ...Link
10. Stahl SW, Puchner EM and Gaub HE. "Photothermal cantilever actuation for fast single-molecule force spectroscopy" The Review of scientific instruments 80, 073702 (2009). ...Link
9. Puchner EM and Gaub HE. "Force and function: probing proteins with AFM-based force spectroscopy" Current Opinion in Structural Biology 19, 605-14 (2009). ...Link
8. Kufer SK, Strackharn M, Stahl SW, Gumpp H, Puchner EM and Gaub HE. "Optically monitoring the mechanical assembly of single molecules" Nature Nanotechnology 4, 45-9 (2009). ...Link
7. Gumpp H, Stahl SW, Strackharn M, Puchner EM and Gaub HE. "Ultrastable combined atomic force and total internal reflection fluorescence microscope" The Review of scientific instruments 80, 063704 (2009). ...Link
6. Gumpp H, Puchner EM, Zimmermann JL, Gerland U, Gaub HE and Blank K. "Triggering enzymatic activity with force" Nano Letters 9, 3290-5 (2009). ...Link
5. Puchner EM, Kufer SK, Strackharn M, Stahl SW and Gaub HE. "Nanoparticle self-assembly on a DNA-scaffold written by single-molecule cut-and-paste" Nano Letters 8, 3692-5 (2008).
4. Puchner EM, Franzen G, Gautel M and Gaub HE. "Comparing proteins by their unfolding pattern" Biophysical Journal 95, 426-34 (2008). ...Link
3. Puchner EM, Alexandrovich A, Kho AL, Hensen U, Schafer LV, Brandmeier B, Grater F, Grubmuller H, Gaub HE and Gautel M. "Mechanoenzymatics of titin kinase" PNAS 105, 13385-90 (2008). ...Link
2. Morfill J, Neumann J, Blank K, Steinbach U, Puchner EM, Gottschalk KE and Gaub HE. "Force-based analysis of multidimensional energy landscapes: application of dynamic force spectroscopy and steered molecular dynamics simulations to an antibody fragment-peptide complex" Journal of Molecular Biology 381, 1253-66 (2008). ...Link
1. Kufer SK, Puchner EM, Gumpp H, Liedl T and Gaub HE. "Single-molecule cut-and-paste surface assembly" Science 319, 594-6 (2008). ...Link