• 2023
  Krentzel D, Shorte SL, Zimmer C, Deep learning in image-based phenotypic drug discovery., Trends Cell Biol 2023 Jul; 33(7): 538-554.
• 2021
  Herbert S, Valon L, Mancini L, Dray N, Caldarelli P, Gros J, Esposito E, Shorte SL, Bally-Cuif L, Aulner N, Levayer R, Tinevez JY, LocalZProjector and DeProj: a toolbox for local 2D projection and accurate morphometrics of large 3D microscopy images., BMC Biol 2021 Jul; 19(1): 136.
• 2021
  Chansard A, Dubrulle N, Poujol de Molliens M, Falanga PB, Stephen T, Hasan M, van Zandbergen G, Aulner N, Shorte SL, David-Watine B, Corrigendum: Unveiling Interindividual Variability of Human Fibroblast Innate Immune Response Using Robust Cell-Based Protocols., Front Immunol 2021 ; 12(): 685768.
• 2020
  Chansard A, Dubrulle N, Poujol de Molliens M, Falanga PB, Stephen T, Hasan M, van Zandbergen G, Aulner N, Shorte SL, David-Watine B, , Unveiling Interindividual Variability of Human Fibroblast Innate Immune Response Using Robust Cell-Based Protocols., Front Immunol 2020 ; 11(): 569331.
• 2018
  Charles-Orszag A, Tsai FC, Bonazzi D, Manriquez V, Sachse M, Mallet A, Salles A, Melican K, Staneva R, Bertin A, Millien C, Goussard S, Lafaye P, Shorte S, Piel M, Krijnse-Locker J, Brochard-Wyart F, Bassereau P, Duménil G, Adhesion to nanofibers drives cell membrane remodeling through one-dimensional wetting., Nat Commun 2018 Oct; 9(1): 4450.
• 2018
  Leduc C, Salles A, Shorte SL, Etienne-Manneville S, Imaging Intermediate Filaments and Microtubules with 2-dimensional Direct Stochastic Optical Reconstruction Microscopy., J Vis Exp 2018 Mar; (133): .
• 2018
  Wolff C, Tinevez JY, Pietzsch T, Stamataki E, Harich B, Guignard L, Preibisch S, Shorte S, Keller PJ, Tomancak P, Pavlopoulos A, , Multi-view light-sheet imaging and tracking with the MaMuT software reveals the cell lineage of a direct developing arthropod limb., Elife 2018 03; 7(): .
• 2018
  Patin E, Hasan M, Bergstedt J, Rouilly V, Libri V, Urrutia A, Alanio C, Scepanovic P, Hammer C, Jönsson F, Beitz B, Quach H, Lim YW, Hunkapiller J, Zepeda M, Green C, Piasecka B, Leloup C, Rogge L, Huetz F, Peguillet I, Lantz O, Fontes M, Di Santo JP, Thomas S, Fellay J, Duffy D, Quintana-Murci L, Albert ML, , , Natural variation in the parameters of innate immune cells is preferentially driven by genetic factors., Nat Immunol 2018 Mar; 19(3): 302-314.
• 2018
  Piasecka B, Duffy D, Urrutia A, Quach H, Patin E, Posseme C, Bergstedt J, Charbit B, Rouilly V, MacPherson CR, Hasan M, Albaud B, Gentien D, Fellay J, Albert ML, Quintana-Murci L, , , Distinctive roles of age, sex, and genetics in shaping transcriptional variation of human immune responses to microbial challenges., Proc Natl Acad Sci U S A 2018 Jan; 115(3): E488-E497.
• 2017
  Tinevez JY, Perry N, Schindelin J, Hoopes GM, Reynolds GD, Laplantine E, Bednarek SY, Shorte SL, Eliceiri KW, , TrackMate: An open and extensible platform for single-particle tracking., Methods 2017 02; 115(): 80-90.
• 2017
  Quereda JJ, Sachse M, Balestrino D, Grenier T, Fredlund J, Danckaert A, Aulner N, Shorte S, Enninga J, Cossart P, Pizarro-Cerdá J, Assessing Vacuolar Escape of Listeria Monocytogenes, Methods Mol. Biol. 2017;1535:173-195.
• 2016
  Urrutia A, Duffy D, Rouilly V, Posseme C, Djebali R, Illanes G, Libri V, Albaud B, Gentien D, Piasecka B, Hasan M, Fontes M, Quintana-Murci L, Albert ML, , , Standardized Whole-Blood Transcriptional Profiling Enables the Deconvolution of Complex Induced Immune Responses., Cell Rep 2016 Sep; 16(10): 2777-2791.
• 2015
  Cornelius Sicker, Jörg Heber, Dirk Berndt, Florian Rückerl, Jean-Yves Tinevez, Spencer Shorte, Michael Wagner, Harald Schenk, Spatially resolved contrast measurement of diffractive micromirror arrays, Cornelius Sicker ; Jörg Heber ; Dirk Berndt ; Florian Rückerl ; Jean-Yves Tinevez, et al. " Spatially resolved contrast measurement of diffractive micromirror arrays ", Proc. SPIE 9375, MOEMS and Miniaturized Systems XIV, 93750D (February 27, 2015); doi:10.1117/12.2076921; http://dx.doi.org/10.1117/12.2076921.
• 2015
  Clément Fallet, Maxime Dubois, Jean-Yves Tinevez, Stephane Oddos, Julien Caron, Roger Persson, Spencer L Shorte, Gabriel Y Sirat, A new method to achieve tens of nm axial super-localisation based on conical diffraction PSF shaping, SPIE BiOS, 2015.
• 2015
  F Rückerl, S Bellow, D Berndt, JY Tinevez, J Heber, M Wagner, S Shorte, Spatio-angular light control in microscopes using micro mirror arrays, SPIE BiOS.
• 2014
  Fernandez J, Portilho DM, Danckaert A, Munier S, Becker A, Roux P, Zambo A, Shorte S, Jacob Y, Vidalain PO, Charneau P, Clavel F, Arhel NJ, Microtubule-associated proteins 1 (MAP1) promote human immunodeficiency virus type I (HIV-1) intracytoplasmic routing to the nucleus, J. Biol. Chem. 2015 Feb;290(8):4631-46.
• 2014
  Mellouk N, Weiner A, Aulner N, Schmitt C, Elbaum M, Shorte SL, Danckaert A, Enninga J, Shigella subverts the host recycling compartment to rupture its vacuole, Cell Host Microbe 2014 Oct;16(4):517-30.
• 2014
  Clément Fallet, Julien Caron, Stephane Oddos, Jean-Yves Tinevez, Lionel Moisan, Gabriel Y Sirat, Philippe O Braitbart, Spencer L Shorte, Conical diffraction as a versatile building block to implement new imaging modalities for superresolution in fluorescence microscopy, SPIE NanoScience+ Engineering.
• 2014
  Kesavan SV, Momey F, Cioni O, David-Watine B, Dubrulle N, Shorte S, Sulpice E, Freida D, Chalmond B, Dinten JM, Gidrol X, Allier C, High-throughput monitoring of major cell functions by means of lensfree video microscopy, Sci Rep 2014 Aug;4:5942.
• 2014
  Dragavon J, Sinow C, Holland AD, Rekiki A, Theodorou I, Samson C, Blazquez S, Rogers KL, Tournebize R, Shorte SL, A step beyond BRET: Fluorescence by Unbound Excitation from Luminescence (FUEL), J Vis Exp 2014 May;(87).
• 2014
  Tournebize R, Dragavon J, Miller AD, Shorte S, Silencing the radicals improves Click Chemistry, Biotechnol J 2014 May;9(5):595-6.
• 2014
  Holland AD, Rückerl F, Dragavon JM, Rekiki A, Tinevez JY, Tournebize R, Shorte SL, , In vitro characterization of Fluorescence by Unbound Excitation from Luminescence: broadening the scope of energy transfer., Methods 2014 Mar; 66(2): 353-61.
• 2014
  Chenouard N, Smal I, de Chaumont F, Maška M, Sbalzarini IF, Gong Y, Cardinale J, Carthel C, Coraluppi S, Winter M, Cohen AR, Godinez WJ, Rohr K, Kalaidzidis Y, Liang L, Duncan J, Shen H, Xu Y, Magnusson KE, Jaldén J, Blau HM, Paul-Gilloteaux P, Roudot P, Kervrann C, Waharte F, Tinevez JY, Shorte SL, Willemse J, Celler K, van Wezel GP, Dan HW, Tsai YS, Ortiz de Solórzano C, Olivo-Marin JC, Meijering E, , Objective comparison of particle tracking methods., Nat Methods 2014 Mar; 11(3): 281-9.
• 2014
  Kesavan SV, Navarro FP, Menneteau M, Mittler F, David-Watine B, Dubrulle N, Shorte SL, Chalmond B, Dinten JM, Allier CP, Real-time label-free detection of dividing cells by means of lensfree video-microscopy, J Biomed Opt 2014 Mar;19(3):36004.
• 2014
  Dragavon J, Rekiki A, Theodorou I, Samson C, Blazquez S, Rogers KL, Tournebize R, Shorte S, In vitro and in vivo demonstrations of Fluorescence by Unbound Excitation from Luminescence (FUEL), Methods Mol. Biol. 2014;1098:259-70.
• 2014
  Caron J, Fallet C, Tinevez JY, Moisan L, Braitbart LP, Sirat GY, Shorte SL, , Conical diffraction illumination opens the way for low phototoxicity super-resolution imaging., Cell Adh Migr 2014 ; 8(5): 430-9.
• 2013
  Samantha Papal, Matteo Cortese, Kirian Legendre, Nasrin Sorusch, Joseph Dragavon, Iman Sahly, Spencer Shorte, Uwe Wolfrum, Christine Petit, Aziz El-Amraoui, The giant spectrin βV couples the molecular motors to phototransduction and Usher syndrome type I proteins along their trafficking route, Human Molecular Genetics, 2013, 22 (18), pp.3773 - 3788. ⟨10.1093/hmg/ddt228⟩.
• 2013
  F. Rückerl, Martin Kielhorn, J-Y. Tinevez, J. Heber, R. Heintzmann, S. Shorte, Micro mirror arrays as high-resolution spatial light modulators for photoactivation and optogenetics, Proc. SPIE 8586, Optogenetics: Optical Methods for Cellular Control, 85860U (8 March 2013); doi: 10.1117/12.2010408;.
• 2012
  Dragavon J, Blazquez S, Rekiki A, Samson C, Theodorou I, Rogers KL, Tournebize R, Shorte SL, In vivo excitation of nanoparticles using luminescent bacteria, Proc. Natl. Acad. Sci. U.S.A. 2012 Jun;109(23):8890-5.
• 2012
  Tinevez JY, Dragavon J, Baba-Aissa L, Roux P, Perret E, Canivet A, Galy V, Shorte S, , A quantitative method for measuring phototoxicity of a live cell imaging microscope., Methods Enzymol 2012 ; 506(): 291-309.
• 2010
  Yu Y, Trouvé A, Chalmond B, Renaud O, Shorte SL, Confocal bi-protocol: a new strategy for isotropic 3D live cell imaging, J Microsc 2011 Apr;242(1):70-85.
• 2009
  Frischknecht F, Gunzer M, Shorte SL, Retrospective: Birth of the cool – imaging and microbiology from Ibn al-Haytham to Jean Comandon, Biotechnol J 2009 Jun;4(6):787-90.
• 2009
  Frischknecht F, Mota M, Way M, Shorte S, Perspective: Hidden treasures from the archives, Biotechnol J 2009 Jun;4(6):784-5.
• 2009
  Le Saux B, Chalmond B, Yu Y, Trouvé A, Renaud O, Shorte SL, Isotropic high-resolution three-dimensional confocal micro-rotation imaging for non-adherent living cells, J Microsc 2009 Mar;233(3):404-16.
• 2008
  Rogers KL, Martin JR, Renaud O, Karplus E, Nicola MA, Nguyen M, Picaud S, Shorte SL, Brûlet P, Electron-multiplying charge-coupled detector-based bioluminescence recording of single-cell Ca2+, J Biomed Opt 2008 May-Jun;13(3):031211.
• 2008
  Hoppe AD, Shorte SL, Swanson JA, Heintzmann R, Three-dimensional FRET reconstruction microscopy for analysis of dynamic molecular interactions in live cells, Biophys. J. 2008 Jul;95(1):400-18.
• 2008
  Laksameethanasan D, Brandt SS, Engelhardt P, Renaud O, Shorte SL, A Bayesian reconstruction method for micro-rotation imaging in light microscopy, Microsc. Res. Tech. 2008 Feb;71(2):158-67.
• 2008
  Renaud O, Viña J, Yu Y, Machu C, Trouvé A, Van der Voort H, Chalmond B, Shorte SL, High-resolution 3-D imaging of living cells in suspension using confocal axial tomography, Biotechnol J 2008 Jan;3(1):53-62.
• 2007
  Ramsden AE, Mota LJ, Münter S, Shorte SL, Holden DW, The SPI-2 type III secretion system restricts motility of Salmonella-containing vacuoles, Cell. Microbiol. 2007 Oct;9(10):2517-29.
• 2007
  Morales MA, Renaud O, Faigle W, Shorte SL, Späth GF, Over-expression of Leishmania major MAP kinases reveals stage-specific induction of phosphotransferase activity, Int. J. Parasitol. 2007 Sep;37(11):1187-99.
• 2007
  Thiberge S, Blazquez S, Baldacci P, Renaud O, Shorte S, Ménard R, Amino R, In vivo imaging of malaria parasites in the murine liver, Nat Protoc 2007;2(7):1811-8.
• 2007
  Amino R, Thiberge S, Blazquez S, Baldacci P, Renaud O, Shorte S, Ménard R, Imaging malaria sporozoites in the dermis of the mammalian host, Nat Protoc 2007;2(7):1705-12.
• 2006
  Arhel N, Genovesio A, Kim KA, Miko S, Perret E, Olivo-Marin JC, Shorte S, Charneau P, Quantitative four-dimensional tracking of cytoplasmic and nuclear HIV-1 complexes, Nat. Methods 2006 Oct;3(10):817-24.
• 2006
  Amino R, Thiberge S, Shorte S, Frischknecht F, Ménard R, Quantitative imaging of Plasmodium sporozoites in the mammalian host, C. R. Biol. 2006 Nov;329(11):858-62.
• 2006
  Sáez-Cirión A, Nicola MA, Pancino G, Shorte SL, Quantitative real-time analysis of HIV-1 gene expression dynamics in single living primary cells, Biotechnol J 2006 Jun;1(6):682-9.
• 2006
  Münter S, Enninga J, Vazquez-Martinez R, Delbarre E, David-Watine B, Nehrbass U, Shorte SL, Actin polymerisation at the cytoplasmic face of eukaryotic nuclei, BMC Cell Biol. 2006 May;7:23.
• 2006
  Frischknecht F, Renaud O, Shorte SL, Imaging today’s infectious animalcules, Curr. Opin. Microbiol. 2006 Jun;9(3):297-306.
• 2006
  Amino R, Thiberge S, Martin B, Celli S, Shorte S, Frischknecht F, Ménard R, Quantitative imaging of Plasmodium transmission from mosquito to mammal, Nat. Med. 2006 Feb;12(2):220-4.
• 2005
  Lizundia R, Sengmanivong L, Guergnon J, Müller T, Schnelle T, Langsley G, Shorte SL, Use of micro-rotation imaging to study JNK-mediated cell survival in Theileria parva-infected B-lymphocytes, Parasitology 2005 Jun;130(Pt 6):629-35.
• 2005
  Freitas-Junior LH, Hernandez-Rivas R, Ralph SA, Montiel-Condado D, Ruvalcaba-Salazar OK, Rojas-Meza AP, Mâncio-Silva L, Leal-Silvestre RJ, Gontijo AM, Shorte S, Scherf A, , Telomeric heterochromatin propagation and histone acetylation control mutually exclusive expression of antigenic variation genes in malaria parasites., Cell 2005 Apr; 121(1): 25-36.
• 2005
  Rogers KL, Stinnakre J, Agulhon C, Jublot D, Shorte SL, Kremer EJ, Brûlet P, Visualization of local Ca2+ dynamics with genetically encoded bioluminescent reporters, Eur. J. Neurosci. 2005 Feb;21(3):597-610.
• 2004
  Frischknecht F, Baldacci P, Martin B, Zimmer C, Thiberge S, Olivo-Marin JC, Shorte SL, Ménard R, Imaging movement of malaria parasites during transmission by Anopheles mosquitoes, Cell. Microbiol. 2004 Jul;6(7):687-94.
• 2004
  Roux P, Münter S, Frischknecht F, Herbomel P, Shorte SL, Focusing light on infection in four dimensions, Cell. Microbiol. 2004 Apr;6(4):333-43.
• 2002
  Leclerc GM, Leclerc GJ, Shorte SL, Stephen Frawley L, Boockfor FR, Cloning and mRNA expression of the Ca2+-binding DREAM protein in the pituitary, Gen. Comp. Endocrinol. 2002 Oct;129(1):45-55.
• 2002
  Shorte SL, Leclerc GM, Vazquez-Martinez R, Leaumont DC, Faught WJ, Frawley LS, Boockfor FR, PRL gene expression in individual living mammotropes displays distinct functional pulses that oscillate in a noncircadian temporal pattern, Endocrinology 2002 Mar;143(3):1126-33.
• 2001
  Vazquez-Martinez R, Shorte SL, Faught WJ, Leaumont DC, Frawley LS, Boockfor FR, Pulsatile exocytosis is functionally associated with GnRH gene expression in immortalized GnRH-expressing cells, Endocrinology 2001 Dec;142(12):5364-70.
• 2001
  Vazquez-Martinez R, Shorte SL, Boockfor FR, Frawley LS, Synchronized exocytotic bursts from gonadotropin-releasing hormone-expressing cells: dual control by intrinsic cellular pulsatility and gap junctional communication, Endocrinology 2001 May;142(5):2095-101.
• 2000
  Shorte SL, Faught WJ, Frawley LS, Spontaneous calcium oscillatory patterns in mammotropes display non-random dynamics, Cell Calcium 2000 Sep;28(3):171-9.
• 1999
  David-Watine B, Shorte SL, Fucile S, de Saint Jan D, Korn H, Bregestovski P, Functional integrity of green fluorescent protein conjugated glycine receptor channels, Neuropharmacology 1999 Jun;38(6):785-92.
• 1997
  Shorte SL, N-methyl-D-aspartate evokes rapid net depolymerization of filamentous actin in cultured rat cerebellar granule cells, J. Neurophysiol. 1997 Aug;78(2):1135-43.
• 1996
  Shorte SL, Schofield JG, The effect of extracellular polyvalent cations on bovine anterior pituitary cells. Evidence for a Ca(2+)-sensing receptor coupled to release of intracellular calcium stores, Cell Calcium 1996 Jan;19(1):43-57.
• 1995
  Shorte SL, Stafford SJ, Collett VJ, Schofield JG, Simultaneous measurement of [Ca2+]i and secretion-coupled membrane turnover, by single cell fluorescence microscopy, Cell Calcium 1995 Nov;18(5):440-54.
• 1993
  Shorte SL, Stafford SJ, Bamford M, Collett VJ, Schofield JG, Thyroliberin-induced changes in the fluorescence of a membrane probe in individual bovine anterior pituitary cells, J. Physiol. (Lond.) 1993 Oct;470:191-210.
• 1993
  Stafford SJ, Shorte SL, Schofield JG, Use of a fluorescent dye to measure secretion from intact bovine anterior pituitary cells, Biosci. Rep. 1993 Feb;13(1):9-17.
• 1991
  Shorte SL, Schofield JG, Thyrotropin-releasing hormone-induced cytosolic calcium transients: characterisation of store refilling in bovine anterior pituitary cells, Mol. Cell. Endocrinol. 1991 Aug;79(1-3):167-76.
• 1991
  Shorte SL, Collingridge GL, Randall AD, Chappell JB, Schofield JG, Ammonium ions mobilize calcium from an internal pool which is insensitive to TRH and ionomycin in bovine anterior pituitary cells, Cell Calcium 1991 Apr;12(4):301-12.