Nanopore

648. WE-Heraeus-Seminar

Transport Mechanisms in Biological and Synthetic Nanopores and –channels

July 16th – 21st, 2017
Jacobs University Bremen

Abstracts | Pictures

Sunday, July 16th

Arrival day
17:00 – 17:30 Ulrich Kleinekathöfer (Jacobs University Bremen, Germany)
Introductory remarks
17:30 – 19:00 Cees Dekker (Kavli Institute Nanoscience Delft, The Netherlands)
The versatility of solid-state nanopores as a single-biomolecule tool
19:00 Welcome BBQ

 

Monday, July 17th

08:00 – 09:00 Breakfast (in College III)
09:00 – 09:45 Stefan Howorka (University College London, United Kingdom)
Synthetic Membrane Nanopores Made from DNA
09:45 – 10:15 Adithya Ananth (TU Delft, The Netherlands)
Mimicking the Nuclear Pore Complex with Solid-State Nanopores
10:15 – 10:45 Eric Beamish (University of Ottawa, Canada)
Identifying Structure in Short DNA Scaffolds using Solid-State Nanopores
10:45 – 11:10 Coffee break
11:10 – 11:55 Friedrich Simmel (TU München, Germany)
Nanopores as components for artificial cells
11:55 – 12:25 Kaikai Chen (University of Massachusetts Amherst, USA)
Ionic Current-Based Mapping of Short Sequence Motifs in Single DNA Molecules using Solid-State Nanopores
12:25 – 14:00 Lunch (food is served until 13:30)
14:00 – 14:45 Liviu Movileanu (Syracuse University, USA)
An Engineered Protein Nanopore using the V-ATPase Rotary Motor
14:45 – 15:15 Curtis Balusek (Georgia Institute of Technology, USA)
How barrel size affects the structure and conductivity of the outer membrane protein OmpX
15:15 – 15:45 Silvia Acosta-Gutierrez (University of Cagliari, Italy)
The filtering mechanism in Enterobacteraceiae
15:45 – 16:10 Coffee break
16:10 – 16:55 J. C. Gumbart (Georgia Institute of Technology, USA)
Folding and inserting outer-membrane porins
16:55 – 17:40 Fabien Montel (Ecole Normale Supérieure de Lyon, France)
Transport through the nuclear pore complex: crowding and plasticity
17:40 – 18:10 Jigneshkumar Prajapati (Jacobs University Bremen, Germany)
Minimum free energy pathways of ciprofloxacin and enrofloxacin across OmpC
18:10 – 19:30 Dinner (food is served until 19:00)
19:30 – 20:15 Amit Meller (Technion Institute of Technology, Israel)
Enhanced Opto-electrical Sensing using Nanopores
20:15 – 20:45 Sergii Pud (TU Delft, The Netherlands)
Locking DNA in a double-nanopore system

 

Tuesday, July 18th

08:00 – 09:00 Breakfast (in College III)
09:00 – 09:45 Juan Pelta (Evry University, France)
Dynamics in confined biomimetic nanopores in memory to Loïc Auvray
09:45 – 10:15 Xiaoyan Lin (Imperial College London, United Kingdom)
Selective single molecule sensing of proteins using nanopore and DNA aptamer-functionalised gold nanoparticles
10:15 – 10:45 Rémi Terrasse (Jacobs University Bremen, Germany)
Engineering Intrinsically Fluorescent Porins to Monitor Antibiotic Permeation
10:45 – 11:10 Coffee break
11:10 – 11:55 Min Chen (University of Massachusetts Amherst, USA)
Single molecule protein analysis using OmpG nanopore
11:55 – 12:25 Chan Cao (EPFL, Switzerland)
Aerolysin Nanopore for Single Oligonucleotide Analysis
12:25 – 14:00 Lunch (food is served until 13:30)
14:00 – 14:45 Matteo Ceccarelli (University of Cagliari, Italy)
Antibiotics: modeling the permeation pathway through bacterial porins
14:45 – 15:15 Firdaus Samsudin (University of Southampton, United Kingdom)
Atomistic Simulations of OmpA and Peptidoglycan: A Step Towards the Virtual Bacterial Envelope
15:15 – 15:45 Manish Shankla (University of Illinois, Urbana-Champaign, USA)
Defect-Guided Transport of Biomacromolecules
15:45 – 16:25 Conference photo & coffee break
16:25 – 17:10 Satya Bhamidinarri (Jacobs University Bremen, Germany)
Electrophysiological measurements of substrate translocation across biological pores
17:10 – 17:40 Karunakar Pothula (Jacobs University Bremen, Germany)
Modeling of the pedal bin mechanism of the SusCD channel complex
17:40 – 18:10 Gonzalo Pérez-Mitta (Universidad Nacional De La Plata / CONICET, Argentina)
Next generation of ionic transport control in nanofluidics by integration of conductive polymers into asymmetric solid-state nanopores. Insights from theory and experiments
18:10 – 19:30 Dinner (food is served until 19:00)
19:30 – 20:15 Aleksei Aksimentiev (University of Illinois, Urbana-Champaign, USA)
Solid-state nanopores for DNA and protein sequencing

 

Wednesday, July 19th

08:00 – 09:00 Breakfast (in College III)
09:00 – 09:45 Yi – Tao Long (East China University of Science and Technology, China)
Single molecule analysis by a confined space
09:45 – 10:30 Marie – Therese Wolfram (University of Warwick, United Kingdom)
Reduced PNP models for synthetic and biological poress
10:30 – 11:00 Zachery Hulings (Clarkson University, USA)
Self-consistent calculations of the ionic current traces of a nanoparticle translocating through a nanopore
11:00 – 11:25 Coffee break
11:25 – 12:10 Aleksandra Radenovic (EPFL, Switzerland)
Nanopores in 2d materials opportunities and challenges
12:10 – 12:40 Kherim Willems (imec, Belgium)
Numerical modelling of single-protein trapping inside a biological nanopore
12:40 – 14:00 Lunch (food is served until 13:30)
14:00 Excursion

 

Thursday, July 20th

08:00 – 09:00 Breakfast (in College III)
09:00 – 09:45 Syma Khalid (University of Southampton, United Kingdom)
Molecular Dynamics Simulations of the E.coli Cell Envelope: capturing the complexity
09:45 – 10:15 Shreyas Kaptan (Jacobs University Bremen, Germany)
Maintaing lipid asymmetry in the outer membrane
10:15 – 10:45 Laura Restrepo-Perez (TU Delft, The Netherlands)
Towards single-molecule protein sequencing using nanopore fingerprinting
10:45 – 11:10 Coffee break
11:10 – 11:55 Jan Behrens (University of Freiburg, Germany)
Membrane Physiology & -Technology
11:55 – 12:25 Indra Schröder (TU Darmstadt, Germany)
Exploring the principles of ion channel gating with viral potassium channels
12:25 – 14:00 Lunch (food is served until 13:30)
14:00 – 14:45 Ulrich Keyser (University of Cambridge, United Kingdom)
Enhanced nanopore sensing with DNA nanotechnology
14:45 – 15:15 William Maulbetsch (Brown University, USA)
The Nanopore Mass Spectrometer
15:15 – 15:45 Yun – Chiao Yao (University of California, USA)
Ionic Conductance and Selectivity of Carbon Nanotube Porins
15:45 – 16:10 Coffee break
16:10 – 16:55 Giovanni Maglia (University of Groningen, The Netherlands)
Folded and unfolded protein analysis with nanopores: catch and release
16:55 – 17:40 Joseph Robertson (National Institute of Standards and Technology, USA)
Channel formation: a tale of two bacterial beta-barrel endotoxins
17:40 – 18:10 Robert Henley (Northeastern University, USA)
Nanopore Detection of the MELAS A23243 Single Nucleotide Mutation In Mitochondrial tRNA
18:10 – 19:30 Dinner (food is served until 19:00)
19:30 – 20:15 Marija Drndic (University of Pennsylvania, USA)
Bioelectronics Applications with Nanostructures

 

Friday, July 21st

08:00 – 09:00 Breakfast (in College III)
09:00 – 09:45 Bert de Groot (Max Planck Institute for Biophysical Chemistry, Germany)
The molecular dynamics of potassium channel permeation, selectivity and gating
09:45 – 10:15 Aleksandar Ivanov (Imperial College London, United Kingdom)
Selective single molecule sensing using nanopores
10:15 – 10:40 Coffee break
10:40 – 11:25 Meni Wanunu (Northeastern University, USA)
Solid-state nanopores, fluidic channels
11:25 – 11:55 Laurent Bacri (University of Evry, France)
Biomimetic cyclodextrin nanotubes for Ion-channel Applications: Design, synthesis and ionic conduction
11:55 – 12:00 Closing remarks
12:00 – 14:00 Lunch (food is served until 13:30)