7 papers
A Hierarchical Sheaf Spectral Embedding Framework for Single-Cell RNA-seq Analysis
Xiang Xiang Wang, Guo-Wei We
Single-cell RNA-seq data analysis typically requires representations that capture heterogeneous local structure across multiple scales while remaining stable and interpretable. In…
Persistent commutative algebra on graphs and hypergraphs
Faisal Suwayyid, Guo-Wei Wei
We introduce a persistent commutative algebra for studying the algebraic and combinatorial evolution of edge ideals of graphs and hypergraphs under filtration. Building on the Pers…
GBNL: Graded Betti Number Learning of Complex Biological Data
Mushal Zia, Faisal Suwayyid, Guo-Wei Wei
While persistent homology is widely used for data shape analysis, persistent commutative algebra (PCA) has seen limited adoption in machine learning and data science. Unlike persis…
CAP: Commutative Algebra Prediction of Protein-Nucleic Acid Binding Affinities
Mushal Zia, Faisal Suwayyid, Yuta Hozumi +3
An accurate prediction of protein-nucleic acid binding affinity is vital for deciphering genomic processes, yet existing approaches often struggle in reconciling high accuracy with…
Commutative algebra neural network reveals genetic origins of diseases
JunJie Wee, Faisal Suwayyid, Mushal Zia +3
Genetic mutations can disrupt protein structure, stability, and solubility, contributing to a wide range of diseases. Existing predictive models often lack interpretability and fai…
CAKR: Commutative algebra k-mer representations for genomics
Faisal Suwayyid, Yuta Hozumi, Hongsong Feng +3
Despite the availability of various sequence analysis models, comparative genomic analysis remains a challenge in genomics, genetics, and phylogenetics. Commutative algebra, a fund…