Computational design of target-specific linear peptide binders with TransformerBeta

Haowen Zhao, Francesco Aprile, Barbara Bravi; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:1-27

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Wave-LSTM: Multi-scale analysis of somatic whole genome copy number profiles

Charles Gadd, Christopher Yau; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:28-37

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Towards improving full-length ribosome density prediction by bridging sequence and graph-based representations

Mohan Vamsi Nallapareddy, Francesco Craighero, Cédric Gobet, Felix Naef, Pierre Vandergheynst; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:38-52

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CONE: COntext-specific Network Embedding via Contextualized Graph Attention

Renming Liu, Hao Yuan, Kayla Johnson, Arjun Krishnan; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:53-71

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Joint trajectory and network inference via reference fitting

Stephen Y Zhang; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:72-85

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Beware of Data Leakage from Protein LLM Pretraining

Leon Hermann, Tobias Fiedler, Hoang An Nguyen, Melania Nowicka, Jakub M Bartoszewicz; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:106-116

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Graph learning for capturing long-range dependencies in protein structures

Ali Hariri, Pierre Vandergheynst; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:117-128

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QuickBind: A Light-Weight And Interpretable Molecular Docking Model

Wojtek Treyde, Seohyun Chris Kim, Nazim Bouatta, Mohammed AlQuraishi; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:129-152

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PathoLM: Identifying pathogenicity from the DNA sequence through the Genome Foundation Model

Sajib Acharjee Dip; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:153-161

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MedGraphNet: Leveraging Multi-Relational Graph Neural Networks and Text Knowledge for Biomedical Predictions

Oladimeji S Macaulay, Michael Servilla, Kushal Virupakshappa, David Arredondo, Yue Hu, Luis Tafoya, Yanfu Zhang, Avinash Sahu; Proceedings of the 19th Machine Learning in Computational Biology meeting, PMLR 261:162-182

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