Paper Roundup – February 2017

This will be my last paper roundup, and might be a bit shorter than usual as I begin to step away from UCSF.

  • A dye with 1050 nm emission for IR imaging [1]
  • STED with background depletion for clearer images [2]
  • An online tool for visualization of volumetric data [3]
  • A scattering compensation scheme for two photon microscopy [4]
  • Phasor analysis for spectral unmixing [5]
  • Cryogenic optical localization with Angstrom resolution [6]
  • Automated neurite segmentation algorithm [7]
  • Measuring complex stoichiometry with FRET [8]
  • Single-molecule FRET to constrain protein structures [9]


  1. S. Zhu, Q. Yang, A.L. Antaris, J. Yue, Z. Ma, H. Wang, W. Huang, H. Wan, J. Wang, S. Diao, B. Zhang, X. Li, Y. Zhong, K. Yu, G. Hong, J. Luo, Y. Liang, and H. Dai, "Molecular imaging of biological systems with a clickable dye in the broad 800- to 1,700-nm near-infrared window", Proceedings of the National Academy of Sciences, vol. 114, pp. 962-967, 2017.
  2. P. Gao, B. Prunsche, L. Zhou, K. Nienhaus, and G.U. Nienhaus, "Background suppression in fluorescence nanoscopy with stimulated emission double depletion", Nature Photonics, 2017.
  3. M. Fantham, and C.F. Kaminski, "A new online tool for visualization of volumetric data", Nature Photonics, vol. 11, pp. 69-69, 2017.
  4. I.N. Papadopoulos, J. Jouhanneau, J.F.A. Poulet, and B. Judkewitz, "Scattering compensation by focus scanning holographic aberration probing (F-SHARP)", Nature Photonics, vol. 11, pp. 116-123, 2016.
  5. F. Cutrale, V. Trivedi, L.A. Trinh, C. Chiu, J.M. Choi, M.S. Artiga, and S.E. Fraser, "Hyperspectral phasor analysis enables multiplexed 5D in vivo imaging", Nature Methods, vol. 14, pp. 149-152, 2017.
  6. S. Weisenburger, D. Boening, B. Schomburg, K. Giller, S. Becker, C. Griesinger, and V. Sandoghdar, "Cryogenic optical localization provides 3D protein structure data with Angstrom resolution", Nature Methods, vol. 14, pp. 141-144, 2017.
  7. T. Beier, C. Pape, N. Rahaman, T. Prange, S. Berg, D.D. Bock, A. Cardona, G.W. Knott, S.M. Plaza, L.K. Scheffer, U. Koethe, A. Kreshuk, and F.A. Hamprecht, "Multicut brings automated neurite segmentation closer to human performance", Nature Methods, vol. 14, pp. 101-102, 2017.
  8. M. Ben-Johny, D.N. Yue, and D.T. Yue, "Detecting stoichiometry of macromolecular complexes in live cells using FRET", Nature Communications, vol. 7, pp. 13709, 2016.
  9. B. Hellenkamp, P. Wortmann, F. Kandzia, M. Zacharias, and T. Hugel, "Multidomain structure and correlated dynamics determined by self-consistent FRET networks", Nature Methods, vol. 14, pp. 174-180, 2016.

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