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Updated: Aug 6, 2025

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
Published on: July 16, 2017
Poincaré maps for visualization of large protein families
Anna Klimovskaia Susmelj1,2, Yani Ren3, Yann Vander Meersche3
1Swiss Data Science Center, ETH Zurich and EPFL, Zurich, Switzerland.
Abstract:
In the era of constantly increasing amounts of the available protein data, a relevant and interpretable visualization becomes crucial, especially for tasks requiring human expertise. Poincaré disk projection has previously demonstrated its important efficiency for visualization of biological data such as single-cell RNAseq data. Here, we develop a new method PoincaréMSA for visual representation of complex relationships between protein sequences based on Poincaré maps embedding. We demonstrate its efficiency and potential for visualization of protein family topology as well as evolutionary and functional annotation of uncharacterized sequences. PoincaréMSA is implemented in open source Python code with available interactive Google Colab notebooks as described at https://www.dsimb.inserm.fr/POINCARE_MSA.
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