136 citations · 195 across the 4 of their papers we have counts for
4 papers
Kernel-Based Evaluation of Conditional Biological Sequence Models
Pierre Glaser, Steffanie Paul, Alissa M. Hummer +3
We propose a set of kernel-based tools to evaluate the designs and tune the hyperparameters of conditional sequence models, with a focus on problems in computational biology. The b…
Biological Sequence Kernels with Guaranteed Flexibility
Alan Nawzad Amin, Eli Nathan Weinstein, Debora Susan Marks
Applying machine learning to biological sequences - DNA, RNA and protein - has enormous potential to advance human health, environmental sustainability, and fundamental biological…
Analytical Theory for Sequence-Specific Binary Fuzzy Complexes of Charged Intrinsically Disordered Proteins
Alan N. Amin, Yi-Hsuan Lin, Suman Das +1
Intrinsically disordered proteins (IDPs) are important for biological functions. In contrast to folded proteins, molecular recognition among certain IDPs is "fuzzy" in that their b…
Coarse-Grained Residue-Based Models of Disordered Protein Condensates: Utility and Limitations of Simple Charge Pattern Parameters
Suman Das, Alan Amin, Yi-Hsuan Lin +1
Biomolecular condensates undergirded by phase separations of proteins and nucleic acids serve crucial biological functions. To gain physical insights into their genetic basis, we s…