QBI 2020 Conference Sessions

6 Jan - 9 Jan

Wednesday January 8

Registration Desk Opens

08:00 18:00 Registration Desk/Area

Minisymposium: New Frontiers in Single Molecule Microscopy

Session Chair: Susan Cox

08:30 08:50 Room 1

Single Molecule localization microscopy with modulated excitation (# 602)

Pierre Jouchet, Clement Cabriel, Nicolas Bourg, Abigail Illand, Marion Bardou, Christian Poüs, Emmanuel Fort, Sandrine Leveque-Fort

08:30 08:50

Session: New Frontiers in Single Molecule Microscopy

Session Chair: Susan Cox

08:50 10:10 Room 1

Isotropic 3D molecular resolution in cells with MINFLUX nanoscopy (# 272)

Francisco Balzarotti, Jasmin Pape, Klaus Gwosch, Stefan W. Hell
Research Institute for Molecular Pathology, Goettingen, DE

08:50 09:10

Bayesian Grouping of Localizations: Sub-Nanometer Precision, Counting and Resolution Doubling (# 470)

Keith A Lidke
University of New Mexico, Albuquerque, US

09:10 09:30

Uniting Structured Illumination and Localization Microscopy (SIMFLUX) (# 418)

Carlas Smith

09:30 09:50

Quantifying Localization Accuracy in Single-Molecule Super-Resolution Microscopy (# 282)

Hesam Mazidi, Tianben Ding, Arye Nehorai, Matthew D. Lew
Washington University in St. Louis,

09:50 10:10

Session: Imaging in Immunology

Session Chair: Diane Lidke

08:30 10:00 Room 2

Leukocyte mech(n)anobiology: super-resolution microscopy reveals actin nanoscale architecture at cell protrusions (# 387)

Alessandra Cambi, Koen van den Dries
Radboud UMC, RIMLS, Nijmegen, NL

08:30 08:45

Thermoregulation of immune cell dynamics (# 368)

Stefan Wieser, Jaime Ortega Arroyo, Bernard Ciraulo, Ivan Company Garrido, Romain Quidant, Verena Ruprecht
ICFO - The Institute of Photonic Sciences, Castelldefels, ES

08:45 09:00

Lipid Membrane Sensing and Remodeling during the immune synapse (# 391)

Jorge Bernardino de la Serna, Esther A. Garcia-Gonzalez
Imperial College London,

09:00 09:15

Quantitative analysis of macropinocytosis in Dictyostelium captured with light-sheet microscopy (# 419)

Josiah Lutton, Daniel Moore, Sharon Collier, Piotr Baniukiewicz, Till Bretschneider
University of Warwick,

09:15 09:30

Single-molecule approach to study mechanical control of B cell antigen recognition (# 398)

Anna Teresa Bajur, Maria Iliopoulou, Kaltelyn Spillane
King's College London,

09:30 09:45

Quantifying binding affinities and kinetics of biomolecular complexes with mass photometry (# 463)

Fabian Soltermann, Weston Struwe, Philipp Kukura
Oxford University,

09:45 10:00

Coffee Break

10:10 10:40 Foyer

Minisymposium: Modern Machine Learning Approaches to Image Analysis Uncertainty Quantification in Microscopy

Session Chair: Yoav Shechtman

10:40 11:40 Room 1

Deep learning based Phase Microscopy with Uncertainty Quantification (# 517)

Lei Tian, Yujia Xue, Shiyi Cheng, Yunzhe Li
Boston University,

10:40 11:00

Using machine learning to design intelligent computational microscopes (# 518)

Roarke Horstmeyer, Amey Chaware, Colin Cooke, Kanghyun Kim, Pavan Konda
Duke University,

11:00 11:20

Comprehensive In-situ Profiling of Brain Cellular Alterations in the Injured Brain for Accelerating Drug Discovery (# 412)

Badri Roysam
University of Houston,

11:20 11:40

Session: Modern machine learning approaches to image analysis uncertainty quantification in microscopy

Session Chair: Christopher P Calderon

11:40 11:55 Room 1

Leveraging Self-Supervised Denoising for Image Segmentation (# 475)

Mangal Prakash, Tim-Oliver Buchholz, Manan Lalit, Pavel Tomancak, Florian Jug, Alexander Krull

11:40 11:55

Session: Software

Session Chair: Jens Rittscher

10:40 12:10 Room 2

3Dscript: animating 3D/4D microscopy data using a naturallanguage- based syntax. (# 522)

Ralph Palmisano
Friedrich-Alexander University Erlangen-Nürnberg,

10:40 10:55

PhenoPlot-Web for visualising microscopy data (# 482)

Andrea Chatrian, Jens Rittscher, Heba Sailem
University of Oxford, Oxford, GB

10:55 11:10

CLIJ: GPU-accelerated real-time image analysis is the key to smart microscopy (# 439)

Robert Haase, Daniela Vorkel, Akanksha Jain, Nicola Maghelli, Pavel Tomancak, Eugene W. Myers
Max Planck Institute for Molecular Cell Biology and Genetics,

11:10 11:25

Virtual Reality for Quantification of Multidimensional Single-Molecule Data (# 422)

Thomas Blanc, Bassam HAJJ, Mohamed El Beheiry, Jean-Baptiste Masson
Institut Curie,

11:25 11:40

Developing microscope software with Python (# 348)

Mick A Phillips, David Miguel Susano Pinto, Tiago Susano Pinto, Richard M Parton, Chris Weisiger, Andrew Jefferson, John W Sedat, Ilan Davis, Ian Dobbie
University of Oxford,

11:40 11:55

Metadata and Performance Tracking for Fluorescent Microscopes (# 506)

Mathias Hammer, Alex Rigano, Farzin Farzam, Andrew Shanaj, Colton Horman, Carlas Sierd Smith, Russell W. Ulbrich, Caterina Strambio de Castilla, David Grunwald, Maximiliaan Huisman
UMass Medical School, WORCESTER, US

11:55 12:10

Lunch (provided)

12:00 13:30 Food Area

QBI Postdoc/Student Chapter: Meet the Expert

12:00 13:30 Food Area

Minisymposium: Spatial Statistics in Microscopy

Session Chair: Edward Cohen

13:30 15:00 Room 1

Inferring correlation in inhomogeneous and multitype point patterns – a review and new contributions (# 527)

Rasmus Plenge Waagepetersen
Aalborg University,

13:30 14:00

Bayesian Inference of the Spatial Distribution of Proteins from Three-Cube Förster Resonance Energy Transfer Data (# 586)

Jan-Otto Hooghoudt, Rasmus Plenge Waagepetersen
Aalborg University,

14:00 14:20

Quantitative analysis of molecular coupling with SODA (# 625)

Thibault Lagache, Lydia A Danglot, Jean-Christophe Olivo-Marin
Institut Pasteur,

14:20 14:40

QuantEv: A Quantitative Approach for Analyzing the Spatio-Temporal Distribution of 3D Events in Fluorescence Microscopy (# 526)

Thierry Pecot, Zengzhen Liu, Jerome Boulanger, Jean SALAMERO, Charles Kervrann
Medical University of South Carolina,

14:40 15:00

Session: Applications in BioPharma

Session Chair: Sripad Ram

13:30 15:00 Room 2

Machine learning and airy-light-sheet microscopy reveals morphometric indicators in organoids for informed anti-cancer drug discovery (# 495)

Craig Terence Russell

13:30 13:45

Multiplexed imaging of lung tissue using a macroscopic light sheet fluorescence microscope with uniform axial resolution (# 376)

Arianna Gentile Polese, Gregory Seedorf, Leonardo Saunders, Dominik Stich, Douglas Parker Shepherd
Arizona State University,

13:45 14:00

Quantification of bone tissue heterogeneity and cell distribution patterns from digital histology: application to osteosarcoma (# 445)

Anthony Mancini, Anne Gomez-Brouchet, Michel quintard, Sylvie Lorthois, Pascal Swider, Pauline Assemat

14:00 14:15

Leveraging Automated Blood Cell Morphology for Myelodysplastic Syndrome Diagnosis and Prognosis Prediction (# 485)

José Guilherme de Almeida, George Vassiliou, Moritz Gerstung
European Bioinformatics Institute,

14:15 14:30

Image-based nanoparticle characterization to aid drug design (# 367)

Shoh Michael Asano, Katherine J. Hales

14:30 14:45

Automating FLImP – macromolecular structure fingerprints for personalised cancer therapy (# 339)

Daniel James Rolfe
Rutherford Appleton Laboratory,

14:45 15:00

Coffee Break

15:00 16:30 Foyer

Poster Session

15:00 16:30 Poster Area

Marketing Presentation: AbbeLight

Session Chair: Carlas Smith

16:00 16:15 Room 1

Session: Spatial Statistics and Clustering

Session Chair: Dylan Owen

16:30 18:30 Room 1

Functional summary statistics for Poisson processes on bounded convex three dimensional shapes (# 516)

Scott Ward, Edward Cohen, Niall Adams
Imperial College London, London, GB

16:30 16:45

Generalized Statistical Object Distance Analysis (GSODA) For Object Based Colocalization In Quantitative Microscopy (# 486)

Suvadip Mukherjee, Thibault Lagache, Daniel Gonzalez-Obando, Vannary Meas-Yedid, Lydia A Danglot, Jean-Christophe Olivo-Marin
Institut Pasteur,

16:45 17:00

Cluster Analysis of Localization Microscopy Data with Machine Learning (# 461)

David Williamson, Garth Burn, Sabrina Simoncelli, Ruby Peters, Juliette Griffie, Daniel Davis, Dylan Owen
King's College London,

17:00 17:15

FOCAL3D: A 3D clustering algorithm for single-molecule localization microscopy (# 371)

Daniel Felipe Nino, Josh Milstein
University of Toronto, Mississauga, CA

17:15 17:30

Toward Absolute Molecular Numbers in DNA-PAINT (# 313)

Johannes Stein, Florian Stehr, Patrick Schueler, Philipp Blumhardt, Florian Schueder, Jonas Muecksch, Ralf Jungmann, Petra Schwille
Max-Planck-Institute of Biochemistry,

17:30 17:45

Molecular counting with calibrated fluorescent labelling and photobleaching step analysis (# 493)

Klaus Yserentant, Johan Hummert, Felix Braun, Wioleta Chmielewicz, Dirk-Peter Herten
Heidelberg University, Heidelberg, DE

17:45 18:00

Stoichiometric quantification of spatially dense assemblies with qPAINT (# 317)

Daniel J Nieves
University of Birmingham,

18:00 18:15

Statistical modeling of spatial interactions in biological patterns, with application to plant nuclear organization (# 489)

Javier Arpon, Kaori Sakai, Valérie Gaudin, Philippe Andrey
INRA, Versailles, FR

18:15 18:30

Session: 3D methods

Session Chair: Matthew D. Lew

16:30 18:30 Room 2

3D model-based restoration methods for 3D-SIM (# 320)

Cong Tuan Son Van, Chrysanthe Preza, Hasti Shabani
The University of Memphis,

16:30 16:45

4Pi-SMLM and the 3D architecture of the Nuclear Pore Complex (# 384)

Mark Bates
Max Planck Institute for Biophysical Chemistry, Goettingen, DE

16:45 17:00

Off-focus imaging exploits supercritical-angle fluorescence emission for precise SMLM (# 397)

Alexander Jesacher, Philipp Zelger, Lisa Bodner, Lukas Velas, Gerhard Schütz
Medical University of Innsbruck,

17:00 17:15

Analysis of relative positions in 3D PALM and dSTORM provides high-resolution information on ordered biological complexes (# 441)

Alistair Curd, Ruth Hughes, Michelle Peckham
University of Leeds,

17:15 17:30

Selective volumetric microcopy for single molecule imaging in living cells (# 421)

Tommaso Galgani, Remi Galland, Virgile Viasnoff, Jean-Baptiste Sibarita, Bassam HAJJ
Institut Curie - CNRS, Paris, FR

17:30 17:45

3D Multicolor Nanoscopy at 10,000 Cells a Day (# 299)

Andrew E S Barentine, Yu Lin, Miao Liu, Phylicia Kidd, Leonhard Balduf, Michael Grace, Siyuan Wang, Joerg Bewersdorf, David Baddeley
Yale University,

17:45 18:00

High-throughput multicolor 3D localization in live cells by depth-encoding imaging flow cytometry (# 335)

Lucien E Weiss, Yael Shalev Ezra, Sarah Goldberg, Boris Ferdman, Onit Alalouf, Yoav Shechtman
Technion, Israel Institute of Technology, Haifa, IL

18:00 18:15

3D-SRRF: Real-Time Live-Cell-Compatible Volumetric Super-Resolution Microscopy (# 426)

Romain F Laine, Tommaso Galgani, Bassam HAJJ, Ricardo Henriques

18:15 18:30

Dinner Break (on own)

18:30 20:30 (on own)

Workshop: Introduction to programming for microscopy image analysis

Session Chair: Anish V. Abraham

18:30 21:30 Room 1

QBI Society Meeting

Session Chair: Raimund Ober

20:30 22:00 Room 2