23rd Annual

Engineering Antibodies

New Science for Engineering of Next-Generation Biotherapeutics

May 3 - 4, 2022 | Hynes Convention Center, Boston, MA | EDT

The field of protein engineering is at an exciting point in its development, with the COVID-19 pandemic bringing new attention to therapeutic antibodies and discovery platforms being deployed under extremely accelerated timelines. New generations of therapeutic antibodies progressing through development and into the market – and a growing body of clinical evidence – is being used to inform development of a next generation of safe and highly effective therapies for unmet medical needs. The popular PEGS Engineering Antibodies conference explores case examples of significant emerging technologies used by protein scientists working at the discovery and design stages to efficiently and creatively design novel biotherapeutics directed at elusive targets and pathways.

Sunday, May 1

2:00 pm Recommended Pre-Conference Short Course*

SC1: Antibody Drug Discovery: From Target to Lead

*Short Courses will be offered in-person only. Separate registration required. See short course page for details. 

Tuesday, May 3

ROOM LOCATION: Ballroom B

ENGINEERING EXTRACELLULAR PROTEIN DEGRADATION

2:15 pm

Chairperson’s Opening Remarks

Jamie B. Spangler, PhD, Assistant Professor, Biomedical Engineering and Chemical & Biomolecular Engineering, Johns Hopkins University
2:20 pm

Engineering Antibody-PROTAC Conjugates

Yaxian (Sherry) Zhou, Researcher, Pharmaceutical Sciences, School of Pharmacy, University of Wisconsin, Madison

Targeted protein degradation (TPD) technology has drawn significant attention from researchers in both academia and industry. As most efforts focus on cytosolic proteins using PROteolysis TArgeting Chimera (PROTAC), LYsosome TArgeting Chimera (LYTAC) recently emerged as a promising technology to deliver extracellular protein targets to the lysosome for degradation. Here, we describe the potential of different lysosomal targeting receptors such as asialoglycoprotein receptor (ASGPR), which is specifically expressed on liver cells, for the degradation of extracellular proteins including membrane proteins by a new class of antibody conjugates.

2:50 pm

Inducing Extracellular Protein Degradation

James A. Wells, PhD, Professor, Departments of Pharmaceutical Chemistry and Cellular & Molecular Pharmacology, University of California, San Francisco

The cell surface proteome (surfaceome) is the major biohub for cells to engage their extracellular world and represents the primary target for small molecules and virtually all biologics. We have developed a new technology called AbTAC, that is fashioned after intracellular PROTACs, but utilize genetically encoded bi-specific antibodies that recruit transmembrane E3 ligases to membrane targets of interest inducing their degradation. We will discuss their properties and structure activity relationships.

3:20 pm

Featured Poster Presentation: Discovery and Characterization of Intracellularly Functional hnRNPA2/B1 Specific Nanobodies for Live-cell Imaging and Targeted Protein Degradation

Azady Pirhanov, PhD Candidate, Bioengineering & Biomedical Engineering, University of Connecticut

Nanobodies (sdAbs) are antibody fragments derived from heavy-chain-only antibodies. Owing to their small size (~15 kDa) and unique biochemical properties, nanobodies emerged as promising protein based reagents. In this presentation, a high-throughput nanobody discovery platform using yeast surface display libraries will be introduced. Approaches to characterize nanobody stability and specificity along with the live cell imaging and targeted protein degradation applications will be discussed.

3:50 pm Refreshment Break in the Exhibit Hall with Poster Viewing (Exhibit Hall A & B)

ENGINEERING FOR EMERGING MODALITIES

4:30 pm

Mechanism-Driven Selection of Multi-Specific Antibody Architecture

Jamie B. Spangler, PhD, Assistant Professor, Biomedical Engineering and Chemical & Biomolecular Engineering, Johns Hopkins University

One of the most advantageous features of antibody-based therapeutics is their diverse and multi-layered mechanisms of action, including activities such as neutralization, signal modulation, and immune recruitment. For each of these various mechanisms, the format of the employed antibody plays a critical role in determining its efficacy. This talk will highlight the effects of antibody geometry on functional performance for several representative multi-specific antibodies that act through distinct therapeutic mechanisms.

5:00 pm

Understanding TCR-pMHC Binding to Guide TCR Mimetic Antibody Design

Matthew Raybould, PhD, Postdoctoral Researcher, Immunoinformatics, University of Oxford, United Kingdom

TCR mimetic (TCRm) antibodies represent a powerful new therapeutic/diagnostic modality in immuno-oncology. By recognizing specific peptide:major histocompatibility complexes (pMHCs), they offer a vector to target cancerous cells with pinpoint accuracy through intracellular biomarkers and an ability to sidestep immunosuppressive microenvironments that downregulate T cell signaling. In this talk, I will share a computational analysis of immunoglobulin:general antigen and immunoglobulin:pMHC complexes which yields guiding principles for future pMHC-specific TCRm design.

5:30 pm

Case Study: Activation of an Antibody by a Single Amino Acid Change in the Framework

Wei-Ching Liang, Senior Principal Scientific Researcher, Antibody Engineering, Genentech, Inc.

Rabbit mAb 4A11 (rbt4A11) disrupts both TGFß2 and TGFß3 signaling. During the humanization of rbt4A11 where, two variants of humanized 4A11, v2 and v7 had identical CDRs, maintained high-affinity binding to TGFß2/3, yet exhibited distinct differences in activity. The complex structure of v2 or v7 with TGFß2 identified a novel interaction between two heavy chain molecules. Further characterization revealed heavy chain framework residue variations at either position 19, 79, or 81 strikingly interconvert antibody function. Our work suggests that in addition to CDRs, framework residues between Fabs in an antibody could be engineered to further modulate antibody activity.

6:00 pm Close of Day
6:00 pm Dinner Short Course Registration (Hynes Main Lobby)
6:30 pm Recommended Dinner Short Course*

SC7: Developability of Bispecific Antibodies: Formats and Applications

*Short Courses will be offered in-person only. Separate registration required. See short course page for details.

Wednesday, May 4

7:30 am Registration and Morning Coffee (Hynes Main Lobby)

ROOM LOCATION: Ballroom B

TARGETING CHALLENGES

8:25 am

Chairperson’s Remarks

Shohei Koide, PhD, Professor, Biochemistry & Molecular Pharmacology, New York University School of Medicine; Perlmutter Cancer Center, NYU Langone Health
8:30 am

Targeting Intracellular Oncoproteins with Biologics

Shohei Koide, PhD, Professor, Biochemistry & Molecular Pharmacology, New York University School of Medicine; Perlmutter Cancer Center, NYU Langone Health

Advances in biologics discovery have rendered essentially all cell surface and extracellular proteins druggable. In contrast, there remain many intracellular targets that are undruggable using conventional therapeutic modalities. Intracellular biologics, such as genetically encoded monobodies and monobody-VHL fusions (“bio-degraders”), are invaluable tools to advance mechanistic understanding of target biology and inform drug discovery strategies. This talk will illustrate opportunities and challenges of such approaches with focus on RAS oncoproteins.

9:00 am

Antibody Discovery Solutions to Complex Membrane Protein Multi-Spanner Targets

Agnieszka Kielczewska, PhD, Director, Research, Antibody Discovery and Screening, Biologics Discovery, Amgen, Canada

Multi-spanner receptors, including GPCRs, constitute a therapeutically interesting yet technically challenging target class for therapeutic antibodies. Factors contributing to the difficulty of targeting these receptors include high homology across species resulting in immune silencing during immunization, relatively low or transient cell-surface expression levels, and difficulty in formulation as a soluble protein applicable to immunogen and screening reagent applications. This talk will cover some examples of approaches to overcome these challenges.

9:30 am KEYNOTE PRESENTATION:

From Alpha to Epsilon: A Global Consortium Study to Define Variant Resistant Epitopes on SARS-CoV-2 Spike

Kathryn M. Hastie, PhD, Instructor, La Jolla Institute for Immunology

Broadly effective, antibody-based therapeutics and vaccines are essential to combat COVID-19 morbidity and mortality after severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection. The Coronavirus Immunotherapeutic Consortium (CoVIC) was formed to develop prevention and therapeutic strategies that could be mobilized in low- and middle-income countries. With now more than 350 unique antibodies, CoVIC has mapped the epitope landscape on the SARS-CoV-2 spike protein and has identified key communities of receptor-binding domain (RBD)-targeted antibodies that are resistant to major emerging variants. These results provide a framework for selecting antibody treatment cocktails and understanding how viral variants might affect antibody therapeutic efficacy.

Teresa Barata, Head of Protein Science Division, Protein Science Division, FlowEighteen38

Discovery and selection of biotherapeutics, as antibodies, is traditionally driven by affinity, PK profiles and potency. Optimization of such properties does not necessarily translate in candidates with favourable biophysical properties. This can lead to longer timelines in CMC and downstream process development. It is, therefore, imperative to include biophysical characterization early in discovery workflows and insure a fit for purpose design of screening cascades for every stage of the discovery process.

10:30 am Coffee Break in the Exhibit Hall with Poster Viewing (Exhibit Hall A & B)
11:10 am Transition to Plenary Keynote

PLENARY KEYNOTE LOCATION: Ballroom B

PLENARY KEYNOTE SESSION

11:20 am

Plenary Keynote Introduction

Horacio G. Nastri, PhD, Associate Vice President, Biotherapeutics, Incyte Corporation
11:30 am

Future Directions in Drug Discovery & Development

Roger M. Perlmutter, MD, PhD, Chairman and CEO, Eikon Therapeutics, Inc.

The intrinsic complexity of human physiology has generally defeated attempts to model normal cellular functions, meaning that until recently we have had few tools to disentangle the molecular pathology associated with common illnesses. Now, dramatic improvements in instrumentation, automation, and computing provide ways to measure dynamic responses in living cells, and to use these measurements to identify both new disease targets, and new chemical starting points for future medicines. These fundamental advances, coupled with improvements in clinical trial design and execution, together offer hope that the new therapeutics landscape will include compounds with superior therapeutic indices, developed at lower cost. I will illustrate how these opportunities might materialize, drawing examples from current research that integrates image analysis, computation, engineering, molecular biology, and medicinal chemistry.

12:15 pm Session Break

ROOM LOCATION: Ballroom B

Tracey Mullen, SVP, Operations, Abveris, A Division of Twist Bioscience

In this presentation, Tracey Mullen, VP/GM of Abveris, a division of Twist Bioscience will discuss:
•Challenges in the therapeutic mAb discovery against cell surface receptors and transmembrane proteins such as GPCR & ion channels

•Overview of key technologies to access development-ready lead candidates for conventionally challenging targets

•A case study of a discovery campaign against a cell surface receptor using both humanized & hyperimmune mice for risk-mitigation & expanded diversity

Oren Beske, Amalgamator of Business and Biology, ATUM

Launched only a few years ago, the Leap-In Transposase platform has rapidly become an industry standard technology for the generation of CHO cells for the manufacturing of antibodies and other biologics.  This presentation will highlight achievements and case studies of the platform including high titer mAb manufacturing, rapid anti-COVID responses, and some novel, next generation, applications.  

1:30 pm Find Your Table and Meet Your Discussion Moderator
1:35 pm Interactive Discussions (Exhibit Hall A & B)

Interactive Discussions are informal, moderated discussions, allowing participants to exchange ideas and experiences and develop future collaborations around a focused topic. Each discussion will be led by a facilitator who keeps the discussion on track and the group engaged. To get the most out of this format, please come prepared to share examples from your work, be a part of a collective, problem-solving session, and participate in active idea sharing. Please visit the Interactive Discussion page on the conference website for a complete listing of topics and descriptions.

TABLE 1: Emerging Immunizations in Antibody Discovery

Wei-Ching Liang, Senior Principal Scientific Researcher, Antibody Engineering, Genentech, Inc.
  • Emerging systems: rabbits, chickens, llamas, cows, sharks
  • Broad applications in research and development
  • Best practices for antibody discovery with these technologies
  • Areas for improvement in humanization​

TABLE 2: Developing an Antibody Discovery Pipeline from the Ground Up

Kathryn M. Hastie, PhD, Instructor, La Jolla Institute for Immunology
  • Sample source: hybridoma vs plasma or memory cells
  • Hit identification: antigen selection is key
  • NGS vs sanger sequencing
  • Screening and characterization of antibodies at the same time – single clones or bulk expressions?
  • Triaging hits: affinity measurements, epitope binning and cell-based assays from crude or purified samples
  • Rapid structural characterization from small scale expressions​

ENGINEERING FOR NEXT-GENERATION DRUG DELIVERY

2:20 pm

Chairperson’s Remarks

Agnieszka Kielczewska, PhD, Director, Research, Antibody Discovery and Screening, Biologics Discovery, Amgen, Canada
2:25 pm

Replicating RNA for the Delivery of Gene-Encoded Antibodies

Jesse H. Erasmus, PhD, Director, Virology, HDT Bio; Assistant Professor, University of Washington School of Medicine

Monoclonal antibody (mAb) products have broad applications in infectious and autoimmune diseases as well as oncology. Alternative approaches to mAb delivery could expand both the applications and use of this impactful technology. We are developing replicating RNA for the delivery of gene-encoded mAbs in order to enable 1) enhanced antibody expression following peripheral administration, including intramuscular injection routes, 2) rapid response to pandemics, and 3) sequence-independent manufacturing processes.

2:55 pm

Delivery of IL-15 to PD1+ Lymphocytes for Cancer Immunotherapy

Patrick Holder, PhD, Scientist, Protein Chemistry, Genentech, Inc.

Therapeutic administration of IL-15 to enhance the number and effector status of tumor-reactive lymphocytes is desired for cancer immunotherapy. To accomplish this goal, we designed a recombinant IL-15 that selectively agonizes lymphocytes that express PD1, a marker of T cell activation. In this talk, we will demonstrate how protein engineering enables long half-life, PD1+ selectivity in vitro, and efficacy in a range of tumor models in vivo.

Mart Ustav, Jr., PhD, CSO, Icosagen Cell Factory OÜ

During this talk I will highlight the potential of Icosagen's proprietary technology platforms in developing highly potent SARS-CoV-2 neutralizing antibodies. Although neutralizing antibodies against SARS-CoV-2 demonstrate efficacy in reducing the development of severe COVID-19, the cumbersome intravenous administration of antibodies limits the effective use of such therapies. Here we demonstrate the potential use of inhalation based delivery of SARS-CoV-2 neutralizing antibodies for generating rapid passive immunity.

3:55 pm Ice Cream Break in the Exhibit Hall with Poster Viewing (Exhibit Hall A & B)

THERAPEUTIC ANTIBODIES FOR NON-CANCER INDICATIONS

4:30 pm

How COVID Learnings Will Impact the Future Course of Drug Development for Infectious Diseases

Gregory C. Ippolito, PhD, Research Associate Professor, Molecular Biosciences, University of Texas at Austin

A compilation of COVID-19 lessons and their application to human immunology, future vaccines, and how we might continue to address the enduring threat of emerging infectious diseases and novel pandemic pathogens shall be discussed.

5:00 pm

Brain Uptake of Brain Shuttle Gantenerumab (RG6102)

Jens Niewoehner, PhD, Matrix Lead, Roche Pharmaceuticals, Germany

Brain uptake of therapeutic antibodies has been reported using different experimental systems and diverse methodologies, but the precise measurement of drug levels in all relevant brain compartments is often hampered by technical difficulties. We present the comprehensive characterization of a Brain Shuttle anti-amyloid antibody in Cynomolgus monkeys, including modeling-supported plasma and brain pharmacokinetics, and provide first evidence for brain uptake in humans.

5:30 pm

Deep Biology Approach for Development of Biotherapeutics for Autoimmunity and Inflammation

Ali Zarrin, PhD, Executive Director, Discovery, TRex Bio

While it has become increasingly appreciated that regulatory T cells (Tregs) act in a tissue-specific manner to control inflammatory circuits and tissue repair, the unique biology of human tissue Tregs was poorly understood. To this end, we developed a high-resolution map of human immune-regulatory pathways by single-cell RNA sequencing of healthy, inflammatory, or cancer tissues. Modern computational tools paired with rapid functional validation in disease-relevant human Treg assays allow us to prioritize pathways and targets for modulation in disease. This approach identified novel regulatory nodes and forms the foundation of our growing pipeline of tissue-Treg-focused therapeutics.

6:00 pm Networking Reception in the Exhibit Hall with Poster Viewing (Exhibit Hall A & B)
7:00 pm Close of Engineering Antibodies





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