Paper Roundup – January 2017

  • Incorporating Cy dyes into proteins by nonsense supression [1]
  • An approach for extracting 3D information from 2D localization data [2]
  • Quantitative optimization of staining of fixed and cleared spheroids [3]
  • Large field-of-view imaging by imaging samples mounted on a rotating disk [4]
  • mNeonGreen is 3-5x brighter than GFP in C. elegans [5]
  • A ‘turn-on’ probe for RNA imaging by recruiting an unstable aptamer to the RNA to be monitored [6]
  • A protocol for automated imaging of bacterial collections on agar pads [7]
  • A review of single molecule imaging in biology [8]
  • A review of machine learning for biological imaging [9]
  • A blind SIM reconstruction algorithm [10]
  • A microfabricated mirror system for light sheet imaging [11]


  1. L. Leisle, R. Chadda, J.D. Lueck, D.T. Infield, J.D. Galpin, V. Krishnamani, J.L. Robertson, and C.A. Ahern, "Cellular encoding of Cy dyes for single-molecule imaging", eLife, vol. 5, 2016.
  2. C. Franke, M. Sauer, and S. van de Linde, "Photometry unlocks 3D information from 2D localization microscopy data", Nature Methods, vol. 14, pp. 41-44, 2016.
  3. I. Smyrek, and E.H.K. Stelzer, "Quantitative three-dimensional evaluation of immunofluorescence staining for large whole mount spheroids with light sheet microscopy", Biomedical Optics Express, vol. 8, pp. 484, 2017.
  4. A.H.L. Tang, P. Yeung, G.C.F. Chan, B.P. Chan, K.K.Y. Wong, and K.K. Tsia, "Time-stretch microscopy on a DVD for high-throughput imaging cell-based assay", Biomedical Optics Express, vol. 8, pp. 640, 2017.
  5. L. Hostettler, L. Grundy, S. Käser-Pébernard, C. Wicky, W.R. Schafer, and D.A. Glauser, "The Bright Fluorescent Protein mNeonGreen Facilitates Protein Expression Analysis In Vivo", G3: Genes|Genomes|Genetics, vol. 7, pp. 607-615, 2017.
  6. W.Q. Ong, Y.R. Citron, S. Sekine, and B. Huang, "Live Cell Imaging of Endogenous mRNA Using RNA-Based Fluorescence “Turn-On” Probe", ACS Chemical Biology, vol. 12, pp. 200-205, 2016.
  7. H. Shi, A. Colavin, T.K. Lee, and K.C. Huang, "Strain Library Imaging Protocol for high-throughput, automated single-cell microscopy of large bacterial collections arrayed on multiwell plates", Nature Protocols, vol. 12, pp. 429-438, 2017.
  8. E. Monachino, L.M. Spenkelink, and A.M. van Oijen, "Watching cellular machinery in action, one molecule at a time", Journal of Cell Biology, vol. 216, pp. 41-51, 2016.
  9. B.T. Grys, D.S. Lo, N. Sahin, O.Z. Kraus, Q. Morris, C. Boone, and B.J. Andrews, "Machine learning and computer vision approaches for phenotypic profiling", Journal of Cell Biology, vol. 216, pp. 65-71, 2016.
  10. L. Yeh, L. Tian, and L. Waller, "Structured illumination microscopy with unknown patterns and a statistical prior", Biomedical Optics Express, vol. 8, pp. 695, 2017.
  11. E. Zagato, T. Brans, S. Verstuyft, D. van Thourhout, J. Missinne, G. van Steenberge, J. Demeester, S. De Smedt, K. Remaut, K. Neyts, and K. Braeckmans, "Microfabricated devices for single objective single plane illumination microscopy (SoSPIM)", Optics Express, vol. 25, pp. 1732, 2017.