Author

Ahmed Allam

University of ZurichORCID 0000-0003-0871-1977Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Genomics· 1 Molecular Biology· 1 Synthetic Biology· 1

Signature Assays, Organisms & Methods

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Approach:machine learning (classical)· 2 Research Focus:variant effect prediction· 2 Organism:bacteria (other)· 1 Research Focus:benchmarking· 1 Assay:CRISPR screen· 1 Research Focus:database / resource· 1 Approach:deep learning· 1 Assay:metagenomics· 1

Frequent Co-Authors

Gerald SchwankiD· 3 shared Michael O. KrauthammeriD· 3 shared Sharan JanjuhaiD· 2 shared Zsolt BalázsiD· 2 shared András TálasiD· 1 shared Anna SintsovaiD· 1 shared Bas van SteenseliD· 1 shared Christian von MeringiD· 1 shared

Activity by Year

2021-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 34 mutual co-author links

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3 shared papersSynthetic Biology

Gerald SchwankORCID

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3 papers

Recent·Most cited

Synthetic BiologyNature CommunicationsPeer-reviewedFeb 8, 2026

Uncovering Cas9 PAM diversity through metagenomic mining and machine learning

Tao Fang, Lea Bogensperger, Lilith Feer…·Gerald Schwank

The paper develops CRISPR-PAMdb and CICERO to uncover PAM diversity in Cas9 proteins, enabling better CRISPR tool design.

3 citationstop 3%

bacteria (other)metagenomics

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Molecular BiologybioRxivPreprintOct 9, 2023

Predicting prime editing efficiency across diverse edit types and chromatin contexts with machine learning

Nicolas Mathis, Ahmed Allam, András Tálas…·Gerald Schwank

7 citations

machine learning (classical)variant effect prediction

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GenomicsNature CommunicationsPeer-reviewedAug 25, 2021

Predicting base editing outcomes with an attention-based deep learning algorithm trained on high-throughput target library screens

Kim Fabiano Marquart, Ahmed Allam, Sharan Janjuha…·Gerald Schwank

This paper develops BE-DICT, a deep learning model trained on high-throughput screens to predict base editing outcomes with high accuracy.

102 citationstop 3%

CRISPR screendeep learning

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