In the rapidly evolving field of biomolecular modelling and design—using computers to understand molecules like proteins and DNA and to create customised versions for specific purposes—having access to the right computational tools is essential. Dr Abeeb Abiodun Yekeen, a computational structural biologist and postdoctoral researcher at the University of Texas Medical Center (Dallas, USA), has addressed this need with BioMoDes—a comprehensive online repository of tools for biomolecular modelling and design.
Since its launch, BioMoDes has gained popularity online, particularly within the structural bioinformatics community, quickly becoming a go-to resource for researchers worldwide. With the 2024 Nobel Prize in Chemistry recognising achievements in computational protein design and structure prediction, the significance of resources like BioMoDes has never been more apparent. In this interview, Dr Yekeen shares insights into the inspiration, impact, and future plans for BioMoDes.
Introduction and Inspiration
What is BioMoDes? BioMoDes, short for Biomolecular Modelling and Design, is a web-based platform (https://abeebyekeen.com/series/biomodes) that curates the most advanced computational tools for studying biomolecules. It enables researchers, students, and professionals to discover suitable cutting-edge technologies for various bioinformatics tasks. By centralising these resources, BioMoDes simplifies access to the right tools for specific needs.
What inspired you to create BioMoDes? The field of biomolecular modelling and design has been advancing rapidly, with new tools emerging almost daily. Researchers often struggle to keep track of or find the appropriate ones for their specific needs. I created BioMoDes to bridge this gap, providing a single platform where users can easily locate the resources they require.
How does your background influence this initiative? My doctoral research involved the application of algorithms for protein design and structure modelling, and I actively use many of these tools in my current research. These experiences gave me firsthand insight into the challenges researchers face in accessing and utilising suitable computational tools, inspiring me to make these tools more accessible.
Features and Scope
What types of tools can users find in BioMoDes? The repository includes tools for structure prediction, molecular design, property prediction, databases, ligand design, and more.
How is BioMoDes organised? Tools are categorised by their primary functions, with each tool accompanied by a brief description, links to associated publications, documentation, code, and webservers.
What sets BioMoDes apart from similar platforms? BioMoDes prioritises quality and impact. Each tool is evaluated before being added to ensure significant potential and relevance.
Who would benefit most from BioMoDes? Researchers, educators, students, and industry professionals working in biomolecular modelling and design will find it invaluable. It also serves as a great starting point for newcomers to the field.
What impact do you hope to achieve with BioMoDes? I aim for BioMoDes to become the go-to platform for identifying the most important tools in the field and determining their suitability for specific tasks. Its growing popularity reinforces its value as a resource addressing these needs.
Challenges and Future Plans
What challenges did you face while building BioMoDes? The main challenges included ensuring the quality of the tools, keeping track of new literature, and maintaining updates for BioMoDes.
How do you plan to keep BioMoDes up to date? I actively monitor developments in the field for new tools and updates, while encouraging developers and followers of BioMoDes to suggest additions.
How does BioMoDes reflect trends in biomolecular modelling? The 2024 Nobel Prize in Chemistry underscores the growing significance of computational approaches. BioMoDes aligns with this trend by curating tools that empower researchers to harness bioinformatics in transformative ways. This move towards democratising resources is accelerating progress across fields like drug discovery, synthetic biology, and biotechnology.
What message do you have for young researchers entering this field? Structural bioinformatics tools are incredibly empowering, but their effectiveness depends on the questions you ask. Stay curious, collaborate, and explore widely. This is an exciting time to be involved in biomolecular modelling and design.
By creating BioMoDes, Dr Yekeen has provided a valuable resource for the bioinformatics community. Its growing influence highlights the critical role of computational tools in shaping the future of science and innovation.
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