This is a working document with all the papers that we will potentially discuss in our reading group. The document contains logical sections under which the papers are cited. The papers that have not been discussed in the reading group yet have a symbol [ ], while the ones that are already discussed have [X]. Under each section, the newly added paper goes at the end.Voting and Proposals for April 10th, 2018:For voting, you can simply use the "cite" button of authorea to retrieve relevant reference. Please select "local" in the options to cite the references already available in the document. If the reference is not present in the bibtex file, insert the link of the paper instead of citing (E.g. (Zhou 2017)).Please add your name in the markdown table (Add new row before"Final Name" row).
«Topology belongs to the stratosphere of human thought! It might conceivable turn out to be of some use in the 24th.», Soljenystine, The First Circle. As great a writer Soljenystine was, he was off 3 centuries with his prediction. Recent advances in computational topology have made this abstract field of mathematics relevant to society by defining new ways of finding structures in complex dataset.
Photon event centroiding in photon counting imaging and single-molecule localisation in super-resolution fluorescence microscopy share many traits. Although photon event centroiding has traditionally been performed with simple single-iteration algorithms, we recently reported that iterative fitting algorithms originally developed for single-molecule localisation fluorescence microscopy work very well when applied to centroiding photon events imaged with an MCP-intensified CMOS camera. Here, we have applied these algorithms for centroiding of photon events from an electron-bombarded CCD (EBCCD). We find that centroiding algorithms based on iterative fitting of the photon events yield excellent results and allow fitting of overlapping photon events, a feature not reported before and an important aspect to facilitate an increased count rate and shorter acquisition times. KEYWORDS: Photon counting imaging, single-molecule localisation, electron-bombarded CCD OCIS CODES: (040.3780) Detectors: Low light level, (030.5260) Coherence and statistical optics: Photon counting, (100.6640) Image processing: Superresolution, (110.0180) Imaging systems: Microscopy, (170.2520) Medical optics and biotechnology: Fluorescence microscopy
PURPOSE: To measure the hydrodynamic radii of intravitreal anti-VEGF drugs ranibizumab, aflibercept and bevacizumab with μs time-resolved fluorescence anisotropy. METHODS: Ruthenium-based dye Ru(bpy)₂(mcbpy-O-Su-ester)(PF₆)₂, whose lifetime of several hundred nanoseconds is comparable to the rotational correlation time of these drugs in buffer, was used as a label. The hydrodynamic radii were calculated from the rotational correlation times of the Ru(bpy)₂(mcbpy-O-Su-ester)(PF₆)₂-labelled drugs obtained with time-resolved fluorescence anisotropy measurements in buffer/glycerol solutions of varying viscosity. RESULTS: The measured radii of 2.76±0.04 nm for ranibizumab, 3.70±0.03 nm for aflibercept and 4.58±0.01 nm for bevacizumab agree with calculations based on molecular weight and other experimental measurements. CONCLUSIONS: Time-resolved fluorescence anisotropy is a relatively simple and straightforward method that allows experimental measurement of hydrodynamic radius of individual proteins, and is superior to theoretical calculations which cannot give the required accuracy for a particular protein. KEYWORDS: Hydrodynamic radius, fluorescence, phosphorescence, time-resolved anisotropy, rotational diffusion