Shipra Malhotra

Company: Takeda Pharmaceutical

Job title: Senior Scientist - Biologics, Computational Biology & Machine Learning

Bio:

Shipra is a seasoned computational biologist and AI-driven drug discovery expert with a Ph.D. in Computational Biology. With experience at leading pharmaceutical companies including Takeda Pharmaceuticals and EMD Serono, she brings deep expertise in applying advanced machine learning and computational techniques to therapeutic design and biologics innovation. Her work spans de novo antibody generation, protein engineering, and optimization of therapeutic candidates using tools such as AlphaFold3, DiffAb, Rosetta, RFantibody, and knowledge graphs. A Rosetta Commons alumnus and frequent speaker at international forums, she is passionate about accelerating biologics R&D by advancing the frontiers of in silico drug design.

Seminars:

Defining and Benchmarking De Novo Design to Build Trust & Reproducibility 10:00 am

Tackle the lack of consensus on what constitutes “de novo design” — from novel scaffolds to full sequence generation Discuss the industry’s skepticism toward early success stories and explore solutions to mitigate data bias and reproducibility concerns Propose benchmarking strategies to validate generative pipelines and support reliable progression into experimental testingRead more

day: Conference Day Two

Panel Discussion: The Data Dilemma – Standardizing Datasets to Improve Model Predictability 11:30 am

What progress has been made in creating high-quality, standardized datasets to train robust predictive models? How are industry leaders overcoming data silos and inconsistencies to drive better biologics insights? What role do partnerships, consortia, or public databases play in improving interoperability and model performance?Read more

day: Conference Day One