16 citations · 42 across the 15 of their papers we have counts for
15 papers
BISON: Bi-clustering of spatial omics data with feature selection
Bencong Zhu, Alberto Cassese, Marina Vannucci +2
The advent of next-generation sequencing-based spatially resolved transcriptomics (SRT) techniques has reshaped genomic studies by enabling high-throughput gene expression profilin…
Generalized Bayesian nonparametric clustering framework for high-dimensional spatial omics data
Bencong Zhu, Guanyu Hu, Xiaodan Fan +1
The advent of next-generation sequencing-based spatially resolved transcriptomics (SRT) techniques has transformed genomic research by enabling high-throughput gene expression prof…
Bayesian modeling of co-occurrence microbial interaction networks
Tejasv Bedi, Bencong Zhu, Michael L. Neugent +3
The human body consists of microbiomes associated with the development and prevention of several diseases. These microbial organisms form several complex interactions that are info…
A generalized Bayesian stochastic block model for microbiome community detection
Kevin C. Lutz, Michael L. Neugent, Tejasv Bedi +2
Advances in next-generation sequencing technology have enabled the high-throughput profiling of metagenomes and accelerated the microbiome study. Recently, there has been a rise in…
Bayesian Segmentation Modeling of Epidemic Growth
Tejasv Bedi, Yanxun Xu, Qiwei Li
Tracking the spread of infectious disease during a pandemic has posed a great challenge to the governments and health sectors on a global scale. To facilitate informed public healt…
A Bayesian Modified Ising Model for Identifying Spatially Variable Genes from Spatial Transcriptomics Data
Xi Jiang, Qiwei Li, Guanghua Xiao
A recent technology breakthrough in spatial molecular profiling has enabled the comprehensive molecular characterizations of single cells while preserving spatial information. It p…
Discovering Clinically Meaningful Shape Features for the Analysis of Tumor Pathology Images
Esteban Fernández Morales, Cong Zhang, Guanghua Xiao +2
With the advanced imaging technology, digital pathology imaging of tumor tissue slides is becoming a routine clinical procedure for cancer diagnosis. This process produces massive…
Bayesian Modeling of Spatial Molecular Profiling Data via Gaussian Process
Qiwei Li, Minzhe Zhang, Yang Xie +1
The location, timing, and abundance of gene expression (both mRNA and proteins) within a tissue define the molecular mechanisms of cell functions. Recent technology breakthroughs i…
Using Persistent Homology Topological Features to Characterize Medical Images: Case Studies on Lung and Brain Cancers
Chul Moon, Qiwei Li, Guanghua Xiao
Tumor shape is a key factor that affects tumor growth and metastasis. This paper proposes a topological feature computed by persistent homology to characterize tumor progression fr…
Bayesian Landmark-based Shape Analysis of Tumor Pathology Images
Cong Zhang, Guanghua Xiao, Chul Moon +2
Medical imaging is a form of technology that has revolutionized the medical field in the past century. In addition to radiology imaging of tumor tissues, digital pathology imaging,…
Bayesian biclustering for microbial metagenomic sequencing data via multinomial matrix factorization
Fangting Zhou, Kejun He, Qiwei Li +2
High-throughput sequencing technology provides unprecedented opportunities to quantitatively explore human gut microbiome and its relation to diseases. Microbiome data are composit…
RCRnorm: An integrated system of random-coefficient hierarchical regression models for normalizing NanoString nCounter data
Gaoxiang Jia, Xinlei Wang, Qiwei Li +4
Formalin-fixed paraffin-embedded (FFPE) samples have great potential for biomarker discovery, retrospective studies and diagnosis or prognosis of diseases. Their application, howev…
Bayesian Modeling of Microbiome Data for Differential Abundance Analysis
Qiwei Li, Shuang Jiang, Andrew Y. Koh +2
The advances of next-generation sequencing technology have accelerated study of the microbiome and stimulated the high throughput profiling of metagenomes. The large volume of sequ…
A Bayesian Zero-Inflated Negative Binomial Regression Model for the Integrative Analysis of Microbiome Data
Shuang Jiang, Guanghua Xiao, Andrew Y. Koh +2
Microbiome `omics approaches can reveal intriguing relationships between the human microbiome and certain disease states. Along with the identification of specific bacteria taxa as…
A Bayesian Mark Interaction Model for Analysis of Tumor Pathology Images
Qiwei Li, Xinlei Wang, Faming Liang +1
With the advance of imaging technology, digital pathology imaging of tumor tissue slides is becoming a routine clinical procedure for cancer diagnosis. This process produces massiv…