2022 Advances in Genomic Technology Development Annual Meeting

Name: 2022 Advances in Genomic Technology Development Annual Meeting
Start: Tue, 07/12/2022 - 09:00 EST
End: Thu, 07/14/2022 - 16:25 EST
Location: National Institute of Health

Event Details

The Advances in Genomic Technology Development (AGTD) 2022 Annual Meeting was hosted by the Technology Development Coordinating Center (TDCC) from July 12-14, 2022 at The Jackson Laboratory (Farmington, CT). The purpose of the meeting series is to provide a forum to discuss key scientific and technical challenges faced with advanced nucleic acid sequencing, genomic analyses, and synthetic nucleic acid technologies. The hybrid meeting brought together NHGRI Genomic Technology (GT) Program grantees who work on a wide range of novel approaches to studying the structure and function of the human genome. Activities were designed to update fellow grantees, NHGRI, and the TDCC about progress in the field and specific funded projects, facilitate collaborations, and provide an interactive forum of presentations and networking opportunities for faculty/PIs, lab members, and trainees.

In conjunction with the meeting, an AGTD Outreach Symposium was held on Thursday, July 7, 2022. Recent improvements in the efficiency, accuracy and complexity of genomic analyses have been driven by new technological advances. The objective of this live, virtual symposium was to provide biomedical researchers, learners and providers with a fundamental understanding of how these new technologies are utilized, as well as emerging opportunities and challenges associated with their optimization and use. Speakers discussed genomic technologies that include nanopore and epigenetic sequencing as well as multi-omic analyses of genomic structure and function.

All times Eastern.

Jul 12, 2022, 9:00 AM to

Jul 14, 2022, 4:25 PM

The Jackson Laboratory

10 Discovery Dr.
Farmington, CT 06032

Recorded Videos

View on YouTube

Tuesday, July 12, 2022

Time	Topic	Speaker
9:00 a.m.	Welcome and Introduction	Mark Adams, Ph.D. The Jackson Laboratory. Michael Smith, Ph.D. NHGRI
Genome Structure and Function: Part I Session Moderators: Sabrina Krueger, Ph.D., Stowers Institute for Medical Research and Josh Tycko, Stanford University
9:10 a.m.	Development of Novel Methods for Multi-omic Analysis of Chromatin Conformation, DNA Methylation, and Protein-DNA Binding	Jesse Dixon, M.D. Ph.D. Salk Institute for Biological Studies
9:25 a.m.	AVATAR: Novel Technology for Highly Parallel Analysis of Variation in Transcription Factors and their DNA Binding Sites	Shubham Khetan, Ph.D. Brigham and Women’s Hospital
9:40 a.m.	Development of Quantitative Controls for CUT&RUN and CUT&Tag Workflows	Bryan Venters, Ph.D. EpiCypher, Inc.
9:55 a.m.	New Compact Tools for Transcriptional Activation and Repression in Human Cells: Systematic Development and Testing with High-Throughput Methods	Lacramioara Bintu, Ph.D. Stanford University
10:10 a.m.	High Throughput, Multiplexed Epigenomic Profiling of Primary Tissue for Molecular Interrogation of Clinical Disease States	Sarah Traynor Active Motif, Inc.
10:25 a.m.	Panel Discussion
10:45 a.m.	Coffee Break
11:05 a.m.	Keynote Single-cell Epigenomics: Gene Regulation at Unprecedented Resolution Panel Discussion with Julia Zeitlinger, Ph.D., Stowers Institute for Medical Research	Jason Buenrostro, Ph.D. Harvard University Hao Wu, Ph.D., University of Pennsylvania
12:15 p.m.	Lunch
Functional Genomics Session Moderators: Vishnu Udayakumaran Nair Sunitha Kumary, Ph.D., EpiCypher and Clarice Hong, Washington University in St. Louis
1:00 p.m.	Opportunity Fund Update: Programmable Eukaryotic Protein Expression with RNA Sensors	Omar Abudayyeh, Ph.D. Massachusetts Institute of Technology
1:15 p.m.	Multiplex Genomic Recording of Enhancer and Signal Transduction Activities in Mammalian Cells	Wei Chen, Ph.D. University of Washington
1:30 p.m.	A Novel Approach for Studying RBP-RNA and RBP-RBP Interactions at Isoform and Single-Molecule Resolution	Pratibha Jagannatha University of California, San Diego
1:45 p.m.	Define the Phenotypic Landscape of Essential Human Genes with Image-Based Pooled Genomic Screens	Paul Blainey, Ph.D. Broad Institute of MIT and Harvard
2:00 p.m.	Panel Discussion
2:20 p.m.	Coffee Break
New Sequencing Technology Session Moderators: Sukanya Punthambaker, Ph.D., Harvard University and Jeremy Charette, The Jackson Laboratory
2:40 p.m.	Cost-Efficient Whole Genome-Sequencing using Novel Mostly Natural Sequencing-by-Synthesis Chemistry and Open Fluidics Platform	Mark Pratt, Ph.D. Ultima Genomics
2:55 p.m.	Opportunity Fund Update: Nanopore Sequencing of AEGIS Nucleotides	Christopher Thomas, University of Washington
3:10 p.m.	Rapid Identification of DNA Fragments Through Direct Sequencing with Electro-Optical Zero-Mode Waveguides	Meni Wanunu, Ph.D. Northeastern University
3:25 p.m.	Single-Molecule Electronic Nucleic Acid Sequencing-By-Synthesis using Tagged Nucleotides and Nanopore Constructs	Jingyue Ju, Ph.D. Columbia University
3:40 p.m.	Panel Discussion
Flash Talks and Poster Previews Session Moderators: Yimeng Kong, Ph.D., Icahn School of Medicine at Mount Sinai and Jonathan Radda, Yale University
4:00 p.m.	Li-Tao Guo, Ph.D., Yale University Bang-An Wang, Ph.D., Salk Institute for Biological Studies Crystal Rodriguez, University of Massachusetts Amerst Hyeon-Jin Kim, University of Washington Rebecca Carlson, Broad Institute of MIT & Harvard Junhong Choi, Ph.D., University of Washington
4:30 p.m.	Poster Session
6:00 p.m.	Group Dinner

Wednesday, July 13, 2022

Time	Topic	Speaker
RNA Sequencing: Part I Session Moderators: Xiaoxu Li, Ph.D., Columbia University and Chuanjuan Tao, Columbia University
9:00 a.m.	High-Throughput Detection of Transcriptomic and Epitranscriptomic Variation and Kinetics using MarathonRT	Anna Marie Pyle, Ph.D. Yale University
9:15 a.m.	Recent Advances in Direct tRNA Sequencing Based on Nanopore Technology	Miten Jain, Ph.D. Northeastern University
9:30 a.m.	Development of Next-Generation Mass Spectrometry-based de novo RNA Sequencing Capturing All Modifications	Shenglong Zhang, Ph.D. New York Institute of Technology
9:45 a.m.	Opportunity Fund Update: Synthetic Control Set for Accurate Nanopore-Based Single Molecule Detection of RNA Modifications	Sara Rouhanifard, Ph.D. Northeastern University
10:00 a.m.	Enzymatic RNA Synthesis	Nilesh Karalkar, Ph.D. Foundation for Applied Molecular Evolution
10:15 a.m.	Chemical Synthesis and Non-Chromatographic Purification of Long RNA Oligonucleotides Containing Naturally Occurring Modifications	Maksim Royzen, Ph.D. State University of New York at Albany
10:30 a.m.	Coffee Break
RNA Sequencing: Part II Session Moderators: Vishnu Udayakumaran Nair Sunitha Kumary, Ph.D., EpiCypher and Clarice Hong, Washington University in St. Louis
10:50 a.m.	Opportunity Fund Update: Programmable Eukaryotic Protein Expression with RNA Sensors	Omar Abudayyeh, Ph.D. Massachusetts Institute of Technology
11:05 a.m.	Multiplex Genomic Recording of Enhancer and Signal Transduction Activities in Mammalian Cells	Wei Chen, Ph.D. University of Washington
11:20 a.m.	A Novel Approach for Studying RBP-RNA and RBP-RBP Interactions at Isoform and Single-Molecule Resolution	Pratibha Jagannatha University of California, San Diego
11:35 a.m.	Define the Phenotypic Landscape of Essential Human Genes with Image-Based Pooled Genomic Screens	Paul Blainey, Ph.D. Broad Institute of MIT and Harvard
11:50 a.m.	Panel Discussion
12:10 p.m.	Lunch
1:00 p.m.	Keynote Charting Genotype to Phenotype Maps of Tumorigenesis at Single Cell Resolution Panel Discussion with Julia Salzman, Ph.D., Stanford University	Christina Curtis, Ph.D., MSc Stanford University Chun Jimmie Ye, Ph.D. University of California, San Francisco
Flash Talks and Poster Previews Session Moderators: Kaia Mattioli, Ph.D., Brigham and Women’s Hospital and Simon Bourdareau, Ph.D., Stowers Institute for Medical Research
2:00 p.m.	Barak Cohen, Ph.D., Washington University in St. Louis Anna Le, Broad Institute of MIT and Harvard Pengyu Zheng, Northeastern University Jingtian Zhou, Salk Institute for Biological Studies Yimeng Kong, Ph.D., Icahn School of Medicine at Mount Sinai Jake Qiu, Broad Institute of MIT and Harvard
2:50 p.m.	Coffee Break
Panel Discussion: Strategies for Commercialization
3:10 p.m.	Jenny Rooke, Ph.D., Genoa Ventures Michael Keogh, Ph.D., EpiCypher Eric Ervin, Ph.D., Electronic Biosciences Winston Timp, Ph.D., Johns Hopkins University
4:30 p.m.	Poster Session
6:00 p.m.	Group Dinner

Thursday, July 14, 2022

Time	Topic	Speaker
Nanopore Sequencing Session Moderators: Christopher Thomas, University of Washington and Pengyu Zheng, Northeastern University
9:00 a.m.	High-Throughput Detection of Transcriptomic and Epitranscriptomic Variation and Kinetics using MarathonRT	Anna Marie Pyle, Ph.D. Yale University
9:15 a.m.	Recent Advances in Direct tRNA Sequencing Based on Nanopore Technology	Miten Jain, Ph.D. Northeastern University
9:30 a.m.	Development of Next-Generation Mass Spectrometry-based de novo RNA Sequencing Capturing All Modifications	Shenglong Zhang, Ph.D. New York Institute of Technology
9:45 a.m.	Opportunity Fund Update: Synthetic Control Set for Accurate Nanopore-Based Single Molecule Detection of RNA Modifications	Sara Rouhanifard, Ph.D. Northeastern University
10:00 a.m.	Enzymatic RNA Synthesis	Nilesh Karalkar, Ph.D. Foundation for Applied Molecular Evolution
10:15 a.m.	Chemical Synthesis and Non-Chromatographic Purification of Long RNA Oligonucleotides Containing Naturally Occurring Modifications	Maksim Royzen, Ph.D. State University of New York at Albany
10:30 a.m.	Coffee Break
10:45 a.m.	Keynote Charting Genotype to Phenotype Maps of Tumorigenesis at Single Cell Resolution Panel Discussion with Julia Salzman, Ph.D., Stanford University	Christina Curtis, Ph.D., MSc Stanford University Chun Jimmie Ye, Ph.D. University of California, San Francisco
Nucleic Acid Synthesis Session Moderators: Vishnu Udayakumaran Nair Sunitha Kumary, Ph.D., EpiCypher and Clarice Hong, Washington University in St. Louis
11:45 a.m.	GenSyn: A Cycle for Serial Assembly of very Large DNA Molecules	David Schwartz, Ph.D. University of Wisconsin-Madison
11:55 a.m.	MEADS: Multiplexed Exponential, Architect-Mediated DNA Synthesis	Romel Menacho-Melgar, Ph.D. Duke University
12:05 p.m.	Development of a Fully Enzymatic Oligonucleotide Synthesis Cycle by Engineered Template Independent Polymerases and a Novel Phosphate dNTP Blocking Group	Deanne Sammond, Ph.D. Molecular Assemblies Inc
12:15 p.m.	Progress Towards a Low-Cost Benchtop Inkjet Enzymatic DNA Synthesizer	Damiano Verardo, Ph.D. DNA Script, Inc.
12:25 p.m.	Lunch
Genome Structure and Function: Part II Session Moderators: Qi Qiu, Ph.D., University of Pennsylvania and Sara Olson, University of Connecticut Health Center
1:15 p.m.	Developing New Sequencing Technology and Production Methods to Reach Complete, Telomere-to-Telomere Assemblies	Karen Miga, Ph.D. University of California, Santa Cruz
1:30 p.m.	Ultralong Nanopore Sequencing to Interrogate the Epigenome	Winston Timp, Ph.D. Johns Hopkins University
1:45 p.m.	High-Accuracy Detection of Single-Cell Genetic Variation through Combinatorial Barcoding and Duplex Sequencing	Ian Dowsett, Ph.D. University of Washington
2:00 p.m.	Quantifying the Impact of Genomic and Cellular Environments on Gene Expression Noise	Clarice Hong Washington University in St. Louis
2:15 p.m.	A Multiplexed in situ Method to Study the Combinatorial Code of Epigenetic Marks in Single Cells	Yanbo Chen Yale University
2:30 p.m.	Coffee Break
2:45 p.m.	Parallel Sessions Session I: Career Paths Beatrice Adelizzi, Ph.D., DNA Script Varsha Rao, Ph.D., Claret Bioscience,LLC Paul Hook, Ph.D., Johns Hopkins University Kelsey Noll, Ph.D., EpiCypher, Inc. Session II: Principal Investigators
4:00 p.m.	Break
Wrap-up and Future Directions
4:10 p.m.	NHGRI Wrap-up and Future Directions
4:25 p.m.	Poster Session

Last updated: August 8, 2022