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Audiovisual Mathematics Library

Audiovisual Mathematics Library

Documents Söding, Johannes 1 results

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Fast structure and positional ortholog searching and viral metagenome assembly - Söding, Johannes (Author of the conference) | CIRM H

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I will give an update on Foldseek, which can perform structural similarity searches and alignment through the Uniprot50 and MGnify/ESM30 database of 95M structures in a few seconds on a single core, at a sensitivity similar to TMalign (search.foldseek.com). At its core is the 3Di structural alphabet that we learned using a discrete variational autoencoder. I will also present SpaceDust, a tool for fast sequence- and structure-based searches of clusters of 'positional orthologs' between genomes, as well as PenguiN, our new strain-resolved viral metagenome assembler.[-]
I will give an update on Foldseek, which can perform structural similarity searches and alignment through the Uniprot50 and MGnify/ESM30 database of 95M structures in a few seconds on a single core, at a sensitivity similar to TMalign (search.foldseek.com). At its core is the 3Di structural alphabet that we learned using a discrete variational autoencoder. I will also present SpaceDust, a tool for fast sequence- and structure-based searches of ...[+]

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