Author

Mandar Deshpande

European Bioinformatics InstituteORCID 0000-0002-9043-7665Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 4

Signature Assays, Organisms & Methods

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Assay:protein structure· 3 Research Focus:database / resource· 2 Approach:experimental assay· 2 Research Focus:software / tool· 2 Approach:statistical model· 1

Frequent Co-Authors

Mihály VáradiiD· 4 shared Sameer S VelankariD· 4 shared Sreenath Sasidharan NairiD· 3 shared Stephen AnyangoiD· 3 shared Damiano PiovesaniD· 2 shared Silvio C. E. TosattoiD· 2 shared Sri Devan AppasamyiD· 2 shared Agata LaydoniD· 1 shared

Activity by Year

2022-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 34 mutual co-author links

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4 shared papersBioinformatics

Mihály VáradiORCID

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Author profile →

4 papers

Recent·Most cited

R2DT: a comprehensive platform for visualising RNA secondary structure

Holly McCann, Caeden D. Meade, Loren Dean Williams, Anton S. Petrov, Philip Z. Johnson, Anne E. Simon, David Hoksza, Eric P. Nawrocki, Patricia P. Chan, Todd M. Lowe, Carlos Eduardo Ribas, Blake Sweeney, Fábio Madeira, Stephen Anyango, Sri Devan Appasamy, , Anton I. Petrov

R2DT is a software platform for visualizing RNA secondary structures with enhanced features like SNP display and template-free visualization.

Nucleic Acids Research · Feb 8, 2025Peer-reviewedBioinformatics

Annotating Macromolecular Complexes in the Protein Data Bank: Improving the FAIRness of Structure Data

Sri Devan Appasamy, John M. Berrisford, Romana Gáborová, Sreenath Sasidharan Nair, Stephen Anyango, Sergei Grudinin, Mandar Deshpande, David R. Armstrong, Ivanna Pidruchna, Joseph I. J. Ellaway, Grisell Díaz Leines, Deepti Sood Gupta, Déborah Harrus, Mihály Váradi, Sameer S Velankar

The paper standardizes naming and annotations for macromolecular complexes in the PDB using external resources, improving FAIRness and enabling better research and education.

Scientific Data · Dec 1, 2023Peer-reviewedBioinformatics

PDB ProtVista: A reusable and open-source sequence feature viewer

Mandar Deshpande, Mihály Váradi, Typhaine Paysan‐Lafosse, Sreenath Sasidharan Nair, Damiano Piovesan, Saqib Mir, Aleksandras Gutmanas, Silvio C. E. Tosatto, Sameer S Velankar

PDB ProtVista is a sequence feature viewer that provides 2D visualization of residue-level annotations and integrates with 3D molecular viewers.

bioRxiv · Jul 22, 2022 · PreprintBioinformatics

3D-Beacons: Decreasing the gap between protein sequences and structures through a federated network of protein structure data resources

Mihály Váradi, Sreenath Sasidharan Nair, Ian Sillitoe, Gerardo Tauriello, Stephen Anyango, Stefan Bienert, Clemente Borges, Mandar Deshpande, Tim Green, Demis Hassabis, András Hatos, Tamás Hegedűs, Maarten L. Hekkelman, Robbie P. Joosten, John Jumper, , Sameer S Velankar

3D-Beacons provides a federated network to unify access to protein structure data from multiple sources, enabling comparative analysis of models.

GigaScience · Jan 1, 2022Peer-reviewedBioinformatics