Ahmed Elnaggar

16 papers B 1Misc 1Journal 10Unranked 4

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	Ankh3: Multi-Task Pretraining with Sequence Denoising and Completion Enhances Protein Representations. CoRR Hazem Alsamkary, Mohamed Elshaffei, Mohamed Elkerdawy, Ahmed Elnaggar
2025	J	`jnl`	Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction. CoRR Hazem Alsamkary, Mohamed Elshaffei, Mohamed Soudy, Sara Ossman, Abdallah Amr, Nehal Adel Abdelsalam, Mohamed Elkerdawy, Ahmed Elnaggar
2023	—	`conf`	A journey into the Generative AI and large language models: From NLP to BioInformatics. ICGI Ahmed Elnaggar
2023	J	`jnl`	Ankh: Optimized Protein Language Model Unlocks General-Purpose Modelling. CoRR Ahmed Elnaggar, Hazem Essam, Wafaa Salah-Eldin, Walid Moustafa, Mohamed Elkerdawy, Charlotte Rochereau, Burkhard Rost
2022	J	`jnl`	ProtTrans: Toward Understanding the Language of Life Through Self-Supervised Learning. IEEE Trans. Pattern Anal. Mach. Intell. Ahmed Elnaggar, Michael Heinzinger, Christian Dallago, Ghalia Rehawi, Yu Wang, Llion Jones, Tom Gibbs, Tamas Feher, Christoph Angerer, Martin Steinegger, Debsindhu Bhowmik, Burkhard Rost
2021	B	`conf`	Automated Employee Objective Matching Using Pre-trained Word Embeddings. EDOC Mohab Ghanem, Ahmed Elnaggar, Adam Mckinnon, Christian Debes, Olivier Boisard, Florian Matthes
2021	J	`jnl`	CodeTrans: Towards Cracking the Language of Silicone's Code Through Self-Supervised Deep Learning and High Performance Computing. CoRR Ahmed Elnaggar, Wei Ding, Llion Jones, Tom Gibbs, Tamas Feher, Christoph Angerer, Silvia Severini, Florian Matthes, Burkhard Rost
2020	J	`jnl`	ProtTrans: Towards Cracking the Language of Life's Code Through Self-Supervised Deep Learning and High Performance Computing. CoRR Ahmed Elnaggar, Michael Heinzinger, Christian Dallago, Ghalia Rehawi, Yu Wang, Llion Jones, Tom Gibbs, Tamas Feher, Christoph Angerer, Martin Steinegger, Debsindhu Bhowmik, Burkhard Rost
2019	J	`jnl`	Modeling aspects of the language of life through transfer-learning protein sequences. BMC Bioinform. Michael Heinzinger, Ahmed Elnaggar, Yu Wang, Christian Dallago, Dmitrii Nechaev, Florian Matthes, Burkhard Rost
2018	Misc	`conf`	A Machine Learning Based Approach to Application Landscape Documentation. PoEM Jörg Landthaler, Ömer Uludag, Gloria Bondel, Ahmed Elnaggar, Saasha Nair, Florian Matthes
2018	—	`conf`	Deep Learning for Named-Entity Linking with Transfer Learning for Legal Documents. AICCC Ahmed Elnaggar, Robin Otto, Florian Matthes
2018	—	`conf`	Multi-Task Deep Learning for Legal Document Translation, Summarization and Multi-Label Classification. AICCC Ahmed Elnaggar, Christoph Gebendorfer, Ingo Glaser, Florian Matthes
2018	J	`jnl`	Multi-Task Deep Learning for Legal Document Translation, Summarization and Multi-Label Classification. CoRR Ahmed Elnaggar, Christoph Gebendorfer, Ingo Glaser, Florian Matthes
2018	J	`jnl`	Named-Entity Linking Using Deep Learning For Legal Documents: A Transfer Learning Approach. CoRR Ahmed Elnaggar, Robin Otto, Florian Matthes
2018	—	`conf`	Stop Illegal Comments: A Multi-Task Deep Learning Approach. AICCC Ahmed Elnaggar, Bernhard Waltl, Ingo Glaser, Jörg Landthaler, Elena Scepankova, Florian Matthes
2018	J	`jnl`	Stop Illegal Comments: A Multi-Task Deep Learning Approach. CoRR Ahmed Elnaggar, Bernhard Waltl, Ingo Glaser, Jörg Landthaler, Elena Scepankova, Florian Matthes