Tag Archives: data

Antibody developability datasets

Next to binding the antigen with high affinity, antibodies for therapeutic purposes need to be developable. These developability properties includes high expression, high stability, low aggregation, low immunogenicity, and low non-specificity [1]. These properties are often linked and therefore optimising for one property might be at the expense of another. Machine learning methods have been build to guide the optimistation process of one or multiple developability properties.

Performance of these methods is often limited by the amount and type of data available for training. These dataset contain experimental determined scores of biophysical assays related to developability. Some common experimental assays are described in a previous blog post by Matthew Raybould [2]. Here I will discuss some (commonly) used and new dataset related to antibody developability. This list is not exhaustive but might help you start understanding more about antibody developability.

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Sharing Data Responsibly: The FAIR Principles

So you’ve submitted your paper, made your code publicly available, and maybe even provided documentation to ensure somebody can reproduce your work. But what about the data your work is based on? Is that readily available to your readers, too?

Maybe it’s too large to put on GitHub alongside your code. Maybe it’s sensitive, or subject to GDPR restrictions, so you can’t just stick a download link on your website. Maybe it’s in a proprietary format that needs non-open software to read. There are many reasons sharing data can be less straightforward than sharing code, and often it’s not entirely clear what ‘best practices’ are for a given situation. Data management is a complicated topic, and to do it justice would require far more than a quick blog post. Instead, I’d like to focus on a single source of guidance that serves as a useful starting point for thinking about responsible data management: the FAIR principles.

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