Ka Yee Yeung

发表

Quality Control and Robust Estimation for cDNA Microarrays With Replicates

Raphael Gottardo, Adrian E. Raftery, Ka Yee Yeung, 2006, Journal of the American Statistical Association.

Profiling Resource Utilization of Bioinformatics Workflows pdf

Ka Yee Yeung, Huazeng Deng, Ling-Hong Hung, 2020, ArXiv.

Predicting relapse prior to transplantation in chronic myeloid leukemia by integrating expert knowledge and expression data

Adrian E. Raftery, Ka Yee Yeung, T. A. Gooley, 2012, Bioinform..

Building Containerized Workflows Using the BioDepot-Workflow-Builder.

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2019, Cell systems.

Identifying dynamical time series model parameters from equilibrium samples, with application to gene regulatory networks

Adrian E. Raftery, Ka Yee Yeung, William Chad Young, 2018, Statistical modelling.

Model-Based Clustering With Data Correction For Removing Artifacts In Gene Expression Data.

Ka Yee Yeung, Adrian E Raftery, William Chad Young, 2016, The annals of applied statistics.

Integration of multiple data sources for gene network inference using genetic perturbation data

Adrian E. Raftery, Ka Yee Yeung, Ling-Hong Hung, 2017, bioRxiv.

Reproducible Bioconductor Workflows Using Browser-based Interactive Notebooks and Containers

Ka Yee Yeung, Ling-Hong Hung, Jiaming Hu, 2017, bioRxiv.

Bayesian model averaging: development of an improved multi-class, gene selection and classification tool for microarray data

Adrian E. Raftery, Ka Yee Yeung, Roger Eugene Bumgarner, 2005, Bioinform..

An Investigation on Public Cloud Performance Variation for an RNA Sequencing Workflow

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2020 .

fastBMA: scalable network inference and transitive reduction

Adrian E. Raftery, Ka Yee Yeung, Ling-Hong Hung, 2017, bioRxiv.

A posterior probability approach for gene regulatory network inference in genetic perturbation data.

Ka Yee Yeung, Adrian E Raftery, William Chad Young, 2016, Mathematical biosciences and engineering : MBE.

Software solutions for reproducible RNA-seq workflows

Ka Yee Yeung, Ling-Hong Hung, Trevor Meiss, 2017, bioRxiv.

Integrating external biological knowledge in the construction of regulatory networks from time-series expression data

Adrian E. Raftery, Ka Yee Yeung, Jun Zhu, 2012, BMC Systems Biology.

Using BioDepot-workflow-builder to Access Public Databases in a Containerized Environment

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2019, 2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

The Iterative Bayesian Model Averaging Algorithm: an improved method for gene selection and classication using microarray data

Adrian E. Raftery, Ka Yee Yeung, Roger E. Bumgarner, 2015 .

Building containerized workflows using the BioDepot-workflow-builder (Bwb)

Ka Yee Yeung, Ling-Hong Hung, Trevor Meiss, 2017, bioRxiv.

fastBMA: Scalable Network Inference and Transitive Reduction

Adrian E. Raftery, Ka Yee Yeung, Ling-Hong Hung, 2017 .

Accessible and interactive RNA sequencing analysis using serverless computing

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2019, bioRxiv.

Donuts, scratches and blanks: robust model-based segmentation of microarray images

Adrian E. Raftery, Ka Yee Yeung, Qunhua Li, 2005, Bioinform..

Validating clustering for gene expression data

Ka Yee Yeung, Walter L. Ruzzo, David R. Haynor, 2001, Bioinform..

Signature discovery for personalized medicine

Ka Yee Yeung, K. Y. Yeung, 2013, 2013 IEEE International Conference on Intelligence and Security Informatics.

Cluster analysis of gene expression data

Ka Yee Yeung, Walter L. Ruzzo, 2001 .

Hot-starting software containers for bioinformatics analyses

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2017 .

Characterizing Performance Variation of Genomic Data Analysis Workflows on the Public Cloud

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2020, 2020 IEEE Intl Conf on Dependable, Autonomic and Secure Computing, Intl Conf on Pervasive Intelligence and Computing, Intl Conf on Cloud and Big Data Computing, Intl Conf on Cyber Science and Technology Congress (DASC/PiCom/CBDCom/CyberSciTech).

Hot-starting software containers for STAR aligner

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2018, GigaScience.

Holistic optimization of an RNA-seq workflow for multi-threaded environments

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2018 .

Methods for the inference of biological pathways and networks.

Ka Yee Yeung, Roger E Bumgarner, K. Y. Yeung, 2009, Methods in molecular biology.

Holistic optimization of an RNA-seq workflow for multi-threaded environments

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2019, Bioinform..

Accessible and interactive RNA sequencing analysis using serverless computing

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2020 .

Clustering or Automatic Class Discovery: Non-Hierarchical, Non-Som

Ka Yee Yeung, K. Y. Yeung, 2003 .

Algorithms for choosing differential gene expression experiments

Ka Yee Yeung, Richard M. Karp, Roland Stoughton, 1999, RECOMB.

Embedding containerized workflows inside data science notebooks enhances reproducibility

Ka Yee Yeung, Ling-Hong Hung, Jiaming Hu, 2018 .

Integration of Multiple Data Sources for Gene Network Inference Using Genetic Perturbation Data

Ka Yee Yeung, Ling-Hong Hung, Adrian E Raftery, 2019, J. Comput. Biol..

Reproducible Bioconductor Workflows Using Browser-based Interactive Notebooks and Containers

Ka Yee Yeung, Ling-Hong Hung, Jiaming Hu, 2017, bioRxiv.

Using BioDepot-workflow-Builder to Create and Execute Reproducible Bioinformatics Workflows

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2018, BCB.

GUIdock: Using Docker Containers with a Common Graphics User Interface to Address the Reproducibility of Research

Ka Yee Yeung, Ling-Hong Hung, Daniel Kristiyanto, 2016, PloS one.

Algorithms for Choosing Informative Differential Gene Expression Experiments

Ka Yee Yeung, Richard M. Karp, Roland Stoughton, 1999 .

CyNetworkBMA: a Cytoscape app for inferring gene regulatory networks

Adrian E. Raftery, Ka Yee Yeung, Maciej Fronczuk, 2015, Source Code for Biology and Medicine.

Bayesian mixture model based clustering of replicated microarray data

Ka Yee Yeung, Mario Medvedovic, Roger Eugene Bumgarner, 2004, Bioinform..

Iterative Bayesian Model Averaging: a method for the application of survival analysis to high-dimensional microarray data

Adrian E. Raftery, Ka Yee Yeung, Roger Eugene Bumgarner, 2009, BMC Bioinformatics.

Principal component analysis for clustering gene expression data

Ka Yee Yeung, Walter L. Ruzzo, W. L. Ruzzo, 2001, Bioinform..

Model-based clustering and data transformations for gene expression data

Adrian E. Raftery, Ka Yee Yeung, Walter L. Ruzzo, 2001, Bioinform..

Context-specific infinite mixtures for clustering gene expression profiles across diverse microarray dataset

Ka Yee Yeung, Mario Medvedovic, Xiangdong Liu, 2006, Bioinform..

Fast Bayesian inference for gene regulatory networks using ScanBMA

Adrian E. Raftery, Ka Yee Yeung, William Chad Young, 2014, BMC Systems Biology.

Application of natural language processing and machine learning to radiology reports

Ka Yee Yeung, Ling-Hong Hung, Seoungdeok Jeon, 2021, BCB.

Principal component analysis (PCA) for clustering gene expression data

Ka Yee Yeung, Walter L. Ruzzo, 2001 .

A crowdsourced analysis to identify ab initio molecular signatures predictive of susceptibility to viral infection

Thomas Yu, Ka Yee Yeung, Maria K. Jaakkola, 2018, Nature Communications.

Supplemental Information Bayesian context-specific infinite mixture model for clustering of gene expression profiles across diverse microarray datasets

Ka Yee Yeung, Mario Medvedovic, Siva Sivaganesan, 2006 .

From co-expression to co-regulation

Ka Yee Yeung, Roger E. Bumgarner, Mario Medvedovic, 2004 .

Details of the Adjusted Rand index and Clustering algorithms Supplement to the paper “ An empirical study on Principal Component Analysis for clustering gene expression data ” ( to appear in Bioinformatics )

Ka Yee Yeung, Walter L. Ruzzo, W. L. Ruzzo, 2001 .

Bayesian Model Averaging methods and R package for gene network construction

Adrian E. Raftery, Ka Yee Yeung, Chris Fraley, 2016 .

Serverless Computing Provides On-Demand High Performance Computing for Biomedical Research

Ka Yee Yeung, Ling-Hong Hung, Wes Lloyd, 2018 .

The derivation of diagnostic markers of chronic myeloid leukemia progression from microarray data.

Ka Yee Yeung, Adrian E Raftery, Roger E Bumgarner, 2009, Blood.