GP-write Meeting Agenda
May 9-10, 2017 | New York, NY
GP-write: A Grand Challenge Using DNA Synthesis, Gene Editing and Other Technologies to Understand, Engineer and Test Living Systems
New York Genome Center • 101 Avenue of the Americas • New York, NY 10013
This meeting will be primarily comprised of short talks, format is: main talk with 2 minutes of questions and 1 minute transition within the time allotted.
MAY 9, 2017
8:30–9:00 | REGISTRATION AND CONTINENTAL BREAKFAST
[line]9:00–9:10 | WELCOME TO THE NEW YORK GENOME CENTER
Overview of the Meeting, Nancy J Kelley, Nancy J Kelley & Associates
9:10–10:20 | OVERVIEW OF PROJECT: FROM READING TO WRITING GENOMES
- Jef Boeke, NYU Langone Medical Center, George Church, Harvard Medical School | Evolution of GP-write and Progress to Date (20 minutes)
- Edison Liu, The Jackson Laboratory | Lessons Learned From Reading Human Genomes (10 minutes)
- Carrie Albertin, University of Chicago | Octopus Genome Insights (10 minutes)
- June Medford, Colorado State University | Understanding Plants for Human and Environmental Use (10 minutes)
- Jonathan D Moreno, University of Pennsylvania and Barbara Evans, University of Houston Law Center | Ethical Frameworks for GP-write (10 minutes each)
10:20-10:50 | GP-write: PRESENTATION/DISCUSSION OF NEW PILOT PROJECTS
- Yasunori Aizawa, Tokyo Institute of Technology | Synthetic Screening for Essential Introns and Retroelements in Human and Animal Cells (10 minutes)
- Neville Sanjana, New York Genome Center | Precision Human Genome Engineering of Disease-Associated Noncoding Variants (10 minutes)
- Jeantine Lunshof, Harvard Medical School and University Medical Center, Groningen | Framing and Addressing the Ethical Issues Raised by GP-write: Anticipate, Understand and Influence (10 minutes)
10:50–11:20 BREAK
[line]11:20–12:00 GP-write: PRESENTATION/DISCUSSION OF NEW PILOT PROJECTS (cont.)
- Max Berry | Isothermal Amplification Array to Extend Genetic Gene Sequence; Recombinase-Mediated Assembly (10 minutes)
- Nili Ostrov, Harvard Medical School | Ultrasafe Cell Line (10 minutes)
- Gigi Gronvall, Johns Hopkins Center for Health Security | Understanding and Anticipating Governance Systems (Local, state, national and international) (10 minutes)
- Matt Maurano, NYU Langone Medical Center | Synthetic Regulatory Genomics (10 minutes)
12:00–1:00 PANEL/GROUP DISCUSSION | LUNCH (provided)
- Required Elements of an Ethical, Social, and Legal Roadmap for GP-write
- Moderators: Jonathan D Moreno, University of Pennsylvania and Barbara Evans, University of Houston Law Center
- Nicole Lockhart, National Human Genome Research Institute
- Robert Smith, King’s College London
- Jeantine Lunshof, Harvard Medical School and University Medical Center, Groningen
1:00–4:10 GP-write RELATED RESEARCH AREAS
1:00–2:00 Microorganism Genomes
- Angela Belcher, MIT (15 minutes)
- Sc 2.0 Scientific Talks
- Yizhi Cai, University of Edinburgh(15 minutes)
- Junbiao Dai, Tsinghua University | Unlock the Power of SCRaMbLE with ReSCUeS (15 minutes)
- Yingjin Yuan, Tianjin University, Redesign of Yeast Chromosome and Potential Application (15 minutes)
- Kazuhito Tabata, The University of Tokyo | Technology for the Construction of Synthetic Bacteria (15 minutes)
2:00–2:30 Microbiome Engineering
- Jeffrey Way, Wyss Institute of Biological Engineering | Rational Engineering of Bacterial Consortia within the Gut Microbiome (10 minutes)
- Harris Wang, Columbia University Department of Systems Biology | Engineering the Microbiome and Mammalian Genome with Enhanced Metabolic Functions (10 minutes)
- Julia Oh, The Jackson Laboratory | The Human Skin Microbiome: Metagenomes to Therapeutics (10 minutes)
2:30–3:00 Engineering Intercellular Communication and Other Complex Systems
- Virginia Cornish, Columbia University (10 minutes)
- Neta Agmon, NYU Langone Medical Center (10 minutes)
- Gurol Suel, University of California at San Diego (10 minutes)
- Josh Leonard, Northwestern University (10 minutes)
3:00–3:30 BREAK (James e Pricer, www.jepricer.com)
3:30–4:10 Genome Engineering in Mammalian Systems
- Karen Miga, Jack Baskin School of Engineering, UC at Santa Cruz | Assembling Centromeres in Silico (10 minutes)
- Alina Chan, Harvard Medical School | Human Artificial Chromosomes That Shuttle the Three Kingdoms (10 minutes)
- Luhan Yang, eGenesis (10 minutes)
- Dieter Egli, Columbia University | Haploid Embryonic Stem Cells (10 minutes)
4:10–4:40 CENTER OF EXCELLENCE FOR ENGINEERING BIOLOGY
- Overview: Nancy J Kelley, Nancy J Kelley & Associates (10 minutes)
- GP-write Scientific Executive Committee: Roundtable discussion amongst Jef Boeke, NYU Langone Medical Center, George Church, Harvard Medical School, Pam Silver, Wyss Institute, Farren Isaacs, Yale University (20 minutes)
- Scientific Roadmap and Milestones
- Evaluation of Pilot Projects
- Composition
4:40–5:25 PILOT PROJECT PITCHES
5 minute “elevator pitch” speaking opportunities for scientists to present new ideas for GP-write pilot projects selected from Abstracts submitted prior to the meeting
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- Kenji Tsuge, Kobe University, “Long and precise genomic DNA construction using Bacillus subtilis”
- Tom Ellis, Imperial College, London, “Rearrangement and Reduction at Human Genomic Loci”
- Rosario Isasi, University of Miami Leonard M. Miller School of Medicine, “Rewriting Regulation? A Comparative Policy Study of Natural vs. “Synthetic Cells”, Organoids and Human Genomes”
- Dieter Egli, Columbia University, “Stable Haploid Human Pluripotent Stem Cells”
- Bogumil Karas, University of Western Ontario, “Development of a Pipeline for Precision Cloning and Effective Storage of Large Synthetic or Natural Human DNA Fragments”
- Jacob Beal, Raytheon BBN Technologies, “Genome-scale Design Representation with SBOL”
- Wen Shan Yew, “Winning the Fight Against Diabetes: Singapore to GP-write”
- Stephan Zuchner, University of Miami Leonard M. Miller School of Medicine, “An In-Situ Digital Annotation System to Document and Safeguard GP-write Applications”
- C. Neal Stewart, Jr., University of Tennessee, “Installing “Mini-Symplastomes” in Crops”
6:00–7:30 EVENING COCKTAILS
MAY 10, 2017
8:00–9:00 PRESS BRIEFING
[line]8:30–9:00 REGISTRATION AND CONTINENTAL BREAKFAST
[line]9:00–9:10 WELCOME TO THE NEW YORK GENOME CENTER
Announcements, Nancy J Kelley, Nancy J Kelley & Associates
9:10–11:10 SCIENTIFIC TALKS ON TECHNOLOGY DEVELOPMENT AND TECHNICAL CHALLENGES
9:10–9:40 Genome Engineering Technologies Utilized for Large-Scale Editing (Moderator: Jeffery A Schloss)
- Leslie Mitchell, NYU Langone Medical Center | Protein Based Target Recognition Systems (Tyr/Ser SSRs, Meganucleases, ZFNs, TALENs) and RNA-based Target Recognition Systems (Group II Introns, CRISPR/Cas 9 System) (10 minutes)
- Farren Isaacs, Yale University | DNA Target Recognition Systems (MAGE, CAGE) (10 minutes)
- Ron Weiss, MIT | Synthetic Biology Circuits in Mammalian Cells for Health Related Applications (10 minutes)
9:40–10:40 Engineering from Synthesized DNA (Moderator: Andrew Hessel)
- Duhee Bang, Yonsei University | DNA Synthesis Technologies (10 minutes)
- J William Efcavitch | Molecular Assemblies (10 minutes)
- Naresh Menon, ChromoLogic | SynGen™: Platform for Rapid Assembly and Transfer of Large DNA Constructs (10 minutes)
- Emily Leproust, Twist Bioscience (10 minutes)
- Helge Bastian, ThermoFisher Scientific | Engineering Nucleic Acids to Support Building Genomes (10 minutes)
- Thomas Ybert, DNA Script (10 minutes)
10:40 – 11:10 Software Development Tools (Moderator: Andrew Hessel)
- Sean Ward, Synthace | Achieving Digital Biology (10 minutes)
- Joel Bader, Johns Hopkins Biomedical Engineering | Genome CAD Design (10 minutes)
- Azam Khan, Director, Complex Systems Research | Autodesk (10 minutes)
11:00–11:30 BREAK
[line]11:30–12:50 INFRASTRUCTURE DEVELOPMENT
11:30–12:10 Genome Engineering Foundries: Panel Discussion. Moderator: Jeffery A Schloss
- Hille Tekotte, Edinburgh Genome Foundry (10 minutes)
- Leslie Mitchell, Genome Foundry @ ISG (10 minutes)
- Ben Gordon, MIT-Broad Foundry (10 minutes)
- Dave McClymont, London DNA Foundry (10 minutes)
12:10 – 12:50 Strain Engineering Technologies in Industry
- Nathan Wood, President, SGI-DNA | Trends in Writing DNA (10 minutes)
- Jay Konieczkai, enEvolv | Biologically Inspired Engineering of Microorganisms (10 minutes)
- Kevin Ness, CEO, Muse Bio | Genome Scale Engineering (10 minutes)
- John Fuller, Field Applications Scientist, Labcyte | Synthetic Biology Applications Using Echo* Acoustic Dispensing Technology (10 minutes)
12:50 – 1:50 OPEN DISCUSSION | WORKING GROUP MEETINGS | LUNCH (provided)
- Working Groups:
- Social, Legal and Ethical Issues
- Technology and Infrastructure Development
- Safety Engineering
- Standards, Quality Control and Reporting
- Intellectual Property
- Public Communications, Outreach
- Education
- Policy Development
- Funders Meeting:
NIH, NSF, DARPA, Wellcome Trust/Sanger Institute, Japan Science and Technology Agency, New York City Economic Development Corporation, New York State Empire Development, India Department of Biotechnology
1:50–2:30 HIGH PERFORMANCE COMPUTING AND COMPUTATIONAL BIOLOGY
High Performance Computing (Open, Shared Systems)
- Mark Gerstein, Yale University | Scaling Computation to Keep Pace with Data Generation (10 minutes)
- Brian M Bot, Sage Bionetworks | Enabling Communities of Researchers Working Across Institutional Boundaries (10 minutes)
- Jason Bobe, Mount Sinai | Participatory Models of Biomedical Research and Innovation (10 minutes)
Bioinformatics & Computational Tools to Assemble, Understand and Annotate Genomes and Gene Functions
- Binay Panda, Ganit Labs | Assembly, Understanding & Annotation of Gene Functions Involved in Terpenoid Biosynthesis (10 minutes)
[line]
2:30–4:10 WORKING GROUP ROADMAPS
- Social, Legal and Ethical Issues, Barbara Evans, University of Houston Law Center (10 minutes)
- Technology and Infrastructure Development, Jeffery A Schloss, Independent Consultant (10 minutes)
- High Performance Computing and Bioinformatics, Chris Dawn, Independent Consultant (10 minutes)
- Safety Engineering, Farren Isaacs, Yale University (10 minutes)
- Standards, Quality Control and Reporting, Marc Salit, NIST (10 minutes)
- Intellectual Property, Kristin Neuman, MPEGLA (10 minutes)
- Public Communications, Outreach, Jeffrey Bessen, Harvard University (10 minutes)
- Education, Ellen Jorgensen, Genspace and Natalie Kuldell, Biobuilder (10 minutes)
- Policy Development, Gigi Gronvall, Johns Hopkins Center for Health Security (10 minutes)
- bioRxiv: Richard Sever, Cold Spring Harbor Laboratory (10 minutes)
4:10–4:25 WRAP UP AND NEXT STEPS Nancy J Kelley, Nancy J Kelley & Associates
[line]6:00 PM PRESS TOUR OF THE GENOME FOUNDRY AT ISG
Please note the location of the Genome Foundry is the Alexandria Center, 430 E 29th Street, 5th Floor. At security, ask for Dr. Boeke and you will be given a photo ID. Allow 45 minutes for transportation from NYGC and entry to Alexandria Center.
ONLY THOSE WHO ARE PREREGISTERED WILL BE ALLOWED INTO THE ALEXANDRIA CENTER AND THE GENOME FOUNDRY.