Determining absolute protein numbers by quantitative fluorescence microscopy

Aravamudhan, 2013, The budding yeast point centromere associates with two Cse4 molecules during mitosis, Current Biology, 23, 770, 10.1016/j.cub.2013.03.042 Bacia, 2003, A dynamic view of cellular processes by in vivo fluorescence auto- and cross-correlation spectroscopy, Methods, 29, 74, 10.1016/S1046-2023(02)00291-8 Braeckmans, 2011, Measuring molecular dynamics by FRAP, FCS, and SPT, 153 Bulseco, 2013, Fluorescence correlation spectroscopy: Molecular complexing in solution and in living cells, Methods in Cell Biology, 114, 489, 10.1016/B978-0-12-407761-4.00021-X Charpilienne, 2001, Individual rotavirus-like particles containing 120 molecules of fluorescent protein are visible in living cells, The Journal of Biological Chemistry, 276, 29361, 10.1074/jbc.M101935200 Chen, 1999, Fluorescence fluctuation spectroscopy, Methods, 19, 234, 10.1006/meth.1999.0854 Chen, 2002, Molecular brightness characterization of EGFP in vivo by fluorescence fluctuation spectroscopy, Biophysical Journal, 82, 133, 10.1016/S0006-3495(02)75380-0 Chen, 1999, The photon counting histogram in fluorescence fluctuation spectroscopy, Biophysical Journal, 77, 553, 10.1016/S0006-3495(99)76912-2 Chung, 1991, Forward-backward non-linear filtering technique for extracting small biological signals from noise, Journal of Neuroscience Methods, 40, 71, 10.1016/0165-0270(91)90118-J Coffman, 2012, Counting protein molecules using quantitative fluorescence microscopy, Trends in Biochemical Sciences, 37, 499, 10.1016/j.tibs.2012.08.002 Coffman, 2011, CENP-A exceeds microtubule attachment sites in centromere clusters of both budding and fission yeast, The Journal of Cell Biology, 195, 563, 10.1083/jcb.201106078 Das, 2007, Membrane protein stoichiometry determined from the step-wise photobleaching of dye-labelled subunits, Chembiochem: A European Journal of Chemical Biology, 8, 994, 10.1002/cbic.200600474 Douglass, 2008, Single-molecule imaging of fluorescent proteins, Methods in Cell Biology, 85, 113, 10.1016/S0091-679X(08)85006-6 Enderlein, 2004, Art and artefacts of fluorescence correlation spectroscopy, Current Pharmaceutical Biotechnology, 5, 155, 10.2174/1389201043377020 Engel, 2009, Intraflagellar transport particle size scales inversely with flagellar length: Revisiting the balance-point length control model, The Journal of Cell Biology, 187, 81, 10.1083/jcb.200812084 Erlemann, 2012, An extended gamma-tubulin ring functions as a stable platform in microtubule nucleation, The Journal of Cell Biology, 197, 59, 10.1083/jcb.201111123 Furuyama, 2007, Centromere identity is specified by a single centromeric nucleosome in budding yeast, Proceedings of the National Academy of Sciences of the United States of America, 104, 14706, 10.1073/pnas.0706985104 Gosch, 2005, Fluorescence correlation spectroscopy of molecular motions and kinetics, Advanced Drug Delivery Reviews, 57, 169, 10.1016/j.addr.2004.07.016 Graham, 2011, Counting proteins bound to a single DNA molecule, Biochemical and Biophysical Research Communications, 415, 131, 10.1016/j.bbrc.2011.10.029 Haase, 2013, A 3D map of the yeast kinetochore reveals the presence of core and accessory centromere-specific histone, Current Biology, 23, 1939, 10.1016/j.cub.2013.07.083 Haase, 2012, Bub1 kinase and Sgo1 modulate pericentric chromatin in response to altered microtubule dynamics, Current Biology, 22, 471, 10.1016/j.cub.2012.02.006 Hallworth, 2012, Single molecule imaging approach to membrane protein stoichiometry, Microscopy and Microanalysis: The Official Journal of Microscopy Society of America, Microbeam Analysis Society, Microscopical Society of Canada, 18, 771, 10.1017/S1431927612001195 Haustein, 2007, Fluorescence correlation spectroscopy: Novel variations of an established technique, Annual Review of Biophysics and Biomolecular Structure, 36, 151, 10.1146/annurev.biophys.36.040306.132612 Hoffman, 2001, Microtubule-dependent changes in assembly of microtubule motor proteins and mitotic spindle checkpoint proteins at PtK1 kinetochores, Molecular Biology of the Cell, 12, 1995, 10.1091/mbc.12.7.1995 Joglekar, 2008, Molecular architecture of the kinetochore-microtubule attachment site is conserved between point and regional centromeres, Journal of Cell Biology, 181, 587, 10.1083/jcb.200803027 Joglekar, 2006, Molecular architecture of a kinetochore-microtubule attachment site, Nature Cell Biology, 8, 581, 10.1038/ncb1414 Joglekar, 2008, Counting kinetochore protein numbers in budding yeast using genetically encoded fluorescent proteins, Methods in Cell Biology, 85, 127, 10.1016/S0091-679X(08)85007-8 Johnson, 2013, Fluorescent protein applications in microscopy, Methods in Cell Biology, 114, 99, 10.1016/B978-0-12-407761-4.00005-1 Johnston, 2010, Vertebrate kinetochore protein architecture: Protein copy number, The Journal of Cell Biology, 189, 937, 10.1083/jcb.200912022 Kask, 1999, Fluorescence-intensity distribution analysis and its application in biomolecular detection technology, Proceedings of the National Academy of Sciences of the United States of America, 96, 13756, 10.1073/pnas.96.24.13756 Khan, 1988, Effects of mot gene expression on the structure of the flagellar motor, Journal of Molecular Biology, 202, 575, 10.1016/0022-2836(88)90287-2 Kojima, 2004, Solubilization and purification of the MotA/MotB complex of Escherichia coli, Biochemistry, 43, 26, 10.1021/bi035405l Lando, 2012, Quantitative single-molecule microscopy reveals that CENP-A(Cnp1) deposition occurs during G2 in fission yeast, Open Biology, 2, 120078, 10.1098/rsob.120078 Lawrimore, 2011, Point centromeres contain more than a single centromere-specific Cse4 (CENP-A) nucleosome, Journal of Cell Biology, 195, 573, 10.1083/jcb.201106036 Leake, 2006, Stoichiometry and turnover in single, functioning membrane protein complexes, Nature, 443, 355, 10.1038/nature05135 Levin, 2004, Fluorescence correlation spectroscopy and quantitative cell biology, Differentiation; Research in Biological Diversity, 72, 1, 10.1111/j.1432-0436.2004.07201002.x Madl, 2010, Resting state Orai1 diffuses as homotetramer in the plasma membrane of live mammalian cells, The Journal of Biological Chemistry, 285, 41135, 10.1074/jbc.M110.177881 Maresca, 2013, Chromosome segregation: Not to put too fine a point (centromere) on it, Current Biology, 23, R875, 10.1016/j.cub.2013.08.049 McCormick, 2013, Measuring affinities of fission yeast spindle pole body proteins in live cells across the cell cycle, Biophysical Journal, 105, 1324, 10.1016/j.bpj.2013.08.017 McKinney, 2006, Analysis of single-molecule FRET trajectories using hidden Markov modeling, Biophysical Journal, 91, 1941, 10.1529/biophysj.106.082487 Padeganeh, 2013, Octameric CENP-A nucleosomes are present at human centromeres throughout the cell cycle, Current Biology, 23, 764, 10.1016/j.cub.2013.03.037 Patterson, 1997, Use of the green fluorescent protein and its mutants in quantitative fluorescence microscopy, Biophysical Journal, 73, 2782, 10.1016/S0006-3495(97)78307-3 Quammen, 2008, FluoroSim: A visual problem-solving environment for fluorescence microscopy, Eurographics Workshop on Visual Computing for Biomedicine, 2008, 151 Ries, 2012, Fluorescence correlation spectroscopy, BioEssays: News and Reviews in Molecular, Cellular and Developmental Biology, 34, 361, 10.1002/bies.201100111 Rottenfusser, 2013, Proper alignment of the microscope, Methods in Cell Biology, 114, 43, 10.1016/B978-0-12-407761-4.00003-8 Salmon, 2013, A high-resolution multimode digital microscope system, Methods in Cell Biology, 114, 179, 10.1016/B978-0-12-407761-4.00009-9 Shivaraju, 2012, Cell-cycle-coupled structural oscillation of centromeric nucleosomes in yeast, Cell, 150, 304, 10.1016/j.cell.2012.05.034 Slaughter, 2008, SAM domain-based protein oligomerization observed by live-cell fluorescence fluctuation spectroscopy, PLoS One, 3, 10.1371/journal.pone.0001931 Slaughter, 2010, Toward quantitative “in vivo biochemistry” with fluorescence fluctuation spectroscopy, Molecular Biology of the Cell, 21, 4306, 10.1091/mbc.E10-05-0451 Taniguchi, 2010, Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells, Science, 329, 533, 10.1126/science.1188308 Thompson, 2002, Recent advances in fluorescence correlation spectroscopy, Current Opinion in Structural Biology, 12, 634, 10.1016/S0959-440X(02)00368-8 Tian, 2011, Fluorescence correlation spectroscopy: A review of biochemical and microfluidic applications, Applied Spectroscopy, 65, 115A, 10.1366/10-06224 Tsien, 1998, The green fluorescent protein, Annual Review of Biochemistry, 67, 509, 10.1146/annurev.biochem.67.1.509 Ulbrich, 2007, Subunit counting in membrane-bound proteins, Nature Methods, 4, 319, 10.1038/nmeth1024 Verdaasdonk, 2011, Centromeres: Unique chromatin structures that drive chromosome segregation, Nature Reviews. Molecular Cell Biology, 12, 320, 10.1038/nrm3107 Vukojevic, 2005, Study of molecular events in cells by fluorescence correlation spectroscopy, Cellular and Molecular Life Sciences, 62, 535, 10.1007/s00018-004-4305-7 Waters, 2013, Live-cell fluorescence imaging, Methods in Cell Biology, 114, 125, 10.1016/B978-0-12-407761-4.00006-3 Watkins, 2005, Detection of intensity change points in time-resolved single-molecule measurements, The Journal of Physical Chemistry B, 109, 617, 10.1021/jp0467548 Wu, 2005, Counting cytokinesis proteins globally and locally in fission yeast, Science, 310, 310, 10.1126/science.1113230 Xia, 2013, Single-molecule fluorescence imaging in living cells, Annual Review of Physical Chemistry, 64, 459, 10.1146/annurev-physchem-040412-110127 Yu, 2006, Probing gene expression in live cells, one protein molecule at a time, Science, 311, 1600, 10.1126/science.1119623