Quote from Jeremy Charette on December 6, 2022, 9:12 am

Topic: NHGRI Sequencing Tech Dev Working Group – December 2022

Agenda

• PI presentation: Marija Drndic, Professor of Physics at University of Pennsylvania
• Meeting Summary: SMPS3 – Cees Dekker, Professor at Delft University of Technology
• Tech Area Forum discussion
• AGTD Program Committee – seeking members
• January Joint Working Group Meeting

Video Recording: 12.01.22 SeqTech WG
 Passcode: 120122SeqTechWG

Action Item – volunteers needed for AGTD Program Committee

PI Presentation: Marija Drndic - How to Measure Translocation at 10 MHz bandwidth (sub-100 ns)
Recent published works:

1. Ultrafast Polymer Dynamics through a Nanopore (Nano Letters, 21, 8719-8727, 2022)
   1. 10 MHz sampling using an amplifier from Elements that is the result of collaboration with Drndic lab
   2. Higher bandwidth leads to higher signal-to-noise. Using pores tha tare small and thin (~ sub-5 nm) with high voltage and salt concentration achieves acceptable signal-to-noise levels
   3. Detects ultrafast translocations and features within short duration.
   4. Developed algorithm to detect and analyze the translocation events and features.
   5. Enables very sensitive detection of variation in the current – so lots of potential to see changes in short timescales, such as protein conformational changes  
2. Silicon Nitride Nanopores Formed by Simple Chemical Etching: DNA Translocations and TEM Imaging (ACS Nano, 16, 11, 18648, 2022)
   1. Used hydrofluoric acid (HF) to etch pores in SiNx pores etched onto glass substrates
   2. Simpler and less expensive than other SiNx pore-forming methods, such as focused ion or electron milling
   3. Etched pores are suitable for ionic and translocation measurements
   4. More work needed to improve control over size and number of pores per membrane.
      Collaborative works with Goeppert
      

Meeting Summary: Single-Molecule Protein Sequencing 3 (SMPS3) in Delft October 31 – Nov 3, 2022.
Dekker Lab for more information about current research projects

Single-Molecule Protein Sequencing Conference has been growing over the years

• Delft 2017 – 60 participants
• Jerusalem 2019 – 100 participants
• Delft 2022 – 157 participants
  • 11 sessions with 39 speakers
• SMPS4 will be held in Switzerland in late 2024/early 2025

Highlighted talks:

• Phillip Kukura – mass photometry (label free)
• Giovanni Maglia – large multimeric pore
• Edward Marcotte – Edman-like degradation – with Erisyon
• Mike Filius (post-doc of Chirlmin Joo) – FRET X 
• Amit Meller – sample prep (e.g. single cell --> single molecule proteins)
• Chan Cao – aerolysin modifications
• Sonja Schmid – protein trapping (NEOtrap)
• Michael Mayer – also trapping
• Rienk Eelkema – C-terminal modification of peptides with DNA
• Jeff Nivala – adaption the MinION with ClpX
• Wesley Wong – force spectroscopy – optical and magnetic tweezers
• Aleksandra Radenovic – capillaries & force spectroscopy to measure interaction distances
• Brian Reed – Quantum Si  commercial platform development

Tech Area Forum discussion

• TDCC is seeking input on ways to spread the word about advances from the GT community
• Additional webinars, highlighting published papers, etc.
• Suggestion to enhance interactions among the trainees and enlist them in spreading the word
• Raise awareness of the NHGRI GT Program at the University level – Deans of College etc.
• Multi-author critical perspective articles from GT grantees

Upcoming meetings for 2023

• January 9th – joint working group
• February 23rd – staff-trainees only
• March – Opportunity Funds reports
• April – Top 10 papers
• May – TBD
• June 6-8 – AGTD in San Diego

AGTD 2023 Planning Committee 

• Looking for volunteers to assist with planning and reviewing abstracts