6 papers
HyCoSeq: Contextual Hyperbolic Representation Learning for Genomic Sequences
Chenhao Zeng, Zhibin Pu, Shufei Ge
Hyperbolic geometry provides a natural inductive bias for genomic representation learning, but existing hyperbolic genomic models primarily use Lorentz convolutions to learn local…
A Bayesian hierarchical model for meta-analysis
Jing Dai, Sijie Xu, Shufei Ge
Meta-analysis is a key statistical tool for synthesizing clinical trial data to evaluate treatment effects, yet traditional methods such as fixed-effect and random-effects models o…
Bayesian Brain Edge-Based Connectivity (BBeC): a Bayesian model for brain edge-based connectivity inference
Zijing Li, Chenhao Zeng, Shufei Ge
Brain connectivity analysis based on magnetic resonance imaging is crucial for understanding neurological mechanisms. However, edge-based connectivity inference faces significant c…
A Mapper Algorithm with implicit intervals and its optimization
Yuyang Tao, Shufei Ge
The Mapper algorithm is an essential tool for visualizing complex, high dimensional data in topology data analysis (TDA) and has been widely used in biomedical research. It outputs…
A spatial-correlated multitask linear mixed-effects model for imaging genetics
Zhibin Pu, Shufei Ge
Imaging genetics aims to uncover the hidden relationship between imaging quantitative traits (QTs) and genetic markers (e.g. single nucleotide polymorphism (SNP)), and brings valua…
A distribution-guided Mapper algorithm
Yuyang Tao, Shufei Ge
Motivation: The Mapper algorithm is an essential tool to explore shape of data in topology data analysis. With a dataset as an input, the Mapper algorithm outputs a graph represent…