Jean Y. H. Yang

According to our database, Jean Y. H. Yang authored at least 45 papers between 2001 and 2025.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2025

IMPACT: interpretable microbial phenotype analysis via microbial characteristic traits.

Daniel Mechtersheimer, Wenze Ding, Xiangnan Xu, Sanghyun Kim, Carolyn Sue, Yue Cao, Jean Y. H. Yang

Bioinform., 2025

2023

Benchmarking of analytical combinations for COVID-19 outcome prediction using single-cell RNA sequencing data.

Yue Cao, Shila Ghazanfar, Pengyi Yang, Jean Y. H. Yang

Briefings Bioinform., May, 2023

Deep multimodal graph-based network for survival prediction from highly multiplexed images and patient variables.

Xiaohang Fu, Ellis Patrick, Jean Y. H. Yang, David Dagan Feng, Jinman Kim

Comput. Biol. Medicine, March, 2023

scSTAR reveals hidden heterogeneity with a real-virtual cell pair structure across conditions in single-cell RNA sequencing data.

Jie Hao, Jiawei Zou, Jiaqiang Zhang, Ke Chen, Duojiao Wu, Wei Cao, Guoguo Shang, Jean Yee Hwa Yang, KongFatt Wong-Lin, Hourong Sun, Zhen Zhang, Xiangdong Wang, Wantao Chen, Xin Zou

Briefings Bioinform., March, 2023

2022

Scalable workflow for characterization of cell-cell communication in COVID-19 patients.

Yingxin Lin, Lipin Loo, Andy Tran, David M. Lin, Cesar Moreno, Daniel Hesselson, G. Gregory Neely, Jean Y. H. Yang

PLoS Comput. Biol., October, 2022

scFeatures: multi-view representations of single-cell and spatial data for disease outcome prediction.

Yue Cao, Yingxin Lin, Ellis Patrick, Pengyi Yang, Jean Yee Hwa Yang

Bioinform., October, 2022

Cross-Platform Omics Prediction procedure: a statistical machine learning framework for wider implementation of precision medicine.

Kevin Y. X. Wang, Gulietta M. Pupo, Varsha Tembe, Ellis Patrick, Dario Strbenac, Sarah-Jane Schramm, John F. Thompson, Richard A. Scolyer, Samuel Müller, Garth Tarr, Graham J. Mann, Jean Yee Hwa Yang

npj Digit. Medicine, 2022

The health digital twin to tackle cardiovascular disease - a review of an emerging interdisciplinary field.

Genevieve Coorey, Gemma A. Figtree, David F. Fletcher, Victoria J. Snelson, Stephen T. Vernon, David S. Winlaw, Stuart M. Grieve, Alistair Lee McEwan, Jean Yee Hwa Yang, Pierre Qian, Kieran O'Brien, Jessica Orchard, Jinman Kim, Sanjay Patel, Julie Redfern

npj Digit. Medicine, 2022

2021

Uncovering cell identity through differential stability with Cepo.

Hani Jieun Kim, Kevin Y. X. Wang, Carissa Chen, Yingxin Lin, Patrick P. L. Tam, David M. Lin, Jean Y. H. Yang, Pengyi Yang

Nat. Comput. Sci., 2021

A field guide to cultivating computational biology.

Anne E. Carpenter, Casey S. Greene, Piero Carnici, Benilton S. Carvalho, Michiel de Hoon, Stacey D. Finley, Kim-Anh Lê Cao, Jerry S. H. Lee, Luigi Marchionni, Suzanne Sindi, Fabian J. Theis, Gregory P. Way, Jean Y. H. Yang, Elana J. Fertig

CoRR, 2021

2020

Ensemble deep learning in bioinformatics.

Yue Cao, Thomas Andrew Geddes, Jean Yee Hwa Yang, Pengyi Yang

Nat. Mach. Intell., 2020

LC-N2G: a local consistency approach for nutrigenomics data analysis.

Xiangnan Xu, Samantha Solon-Biet, Alistair M. Senior, David Raubenheimer, Stephen J. Simpson, Luigi Fontana, Samuel Müller, Jean Yee Hwa Yang

BMC Bioinform., 2020

CiteFuse enables multi-modal analysis of CITE-seq data.

Hani Jieun Kim, Yingxin Lin, Thomas Andrew Geddes, Jean Yee Hwa Yang, Pengyi Yang

Bioinform., 2020

2019

Autoencoder-based cluster ensembles for single-cell RNA-seq data analysis.

Thomas Andrew Geddes, Taiyun Kim, Lihao Nan, James G. Burchfield, Jean Yee Hwa Yang, Dacheng Tao, Pengyi Yang

BMC Bioinform., December, 2019

AdaSampling for Positive-Unlabeled and Label Noise Learning With Bioinformatics Applications.

Pengyi Yang, John T. Ormerod, Wei Liu, Chendong Ma, Albert Y. Zomaya, Jean Yee Hwa Yang

IEEE Trans. Cybern., 2019

An Uncertainty Visual Analytics Framework for fMRI Functional Connectivity.

Michael de Ridder, Karsten Klein, Jean Yee Hwa Yang, Pengyi Yang, Jim Lagopoulos, Ian B. Hickie, Max Bennett, Jinman Kim

Neuroinformatics, 2019

scDC: single cell differential composition analysis.

Yue Cao, Yingxin Lin, John T. Ormerod, Pengyi Yang, Jean Yee Hwa Yang, Kitty K. Lo

BMC Bioinform., 2019

bcGST - an interactive bias-correction method to identify over-represented gene-sets in boutique arrays.

Kevin Y. X. Wang, Alexander M. Menzies, Ines P. Silva, James S. Wilmott, Yibing Yan, Matthew Wongchenko, Richard F. Kefford, Richard A. Scolyer, Georgina V. Long, Garth Tarr, Samuel Müller, Jean Yee Hwa Yang

Bioinform., 2019

DCARS: differential correlation across ranked samples.

Shila Ghazanfar, Dario Strbenac, John T. Ormerod, Jean Yee Hwa Yang, Ellis Patrick

Bioinform., 2019

Impact of similarity metrics on single-cell RNA-seq data clustering.

Taiyun Kim, Irene Rui Chen, Yingxin Lin, Andy Yi-Yang Wang, Jean Yee Hwa Yang, Pengyi Yang

Briefings Bioinform., 2019

Challenges for Brain Data Analysis in VR Environments.

Sabrina Jaeger, Karsten Klein, Lucas Joos, Johannes Zagermann, Michael de Ridder, Jinman Kim, Jean Yee Hwa Yang, Ulrike Pfeil, Harald Reiterer, Falk Schreiber

Proceedings of the IEEE Pacific Visualization Symposium, 2019

2018

Diagonal Discriminant Analysis with Feature Selection for High Dimensional Data.

Sarah Elizabeth Romanes, John Thomas Ormerod, Jean Yee Hwa Yang

CoRR, 2018

2017

Integrative analysis identifies co-dependent gene expression regulation of BRG1 and CHD7 at distal regulatory sites in embryonic stem cells.

Pengyi Yang, Andrew J. Oldfield, Taiyun Kim, Andrian Yang, Jean Yee Hwa Yang, Joshua Wing Kei Ho

Bioinform., 2017

Positive unlabeled learning via wrapper-based adaptive sampling.

Pengyi Yang, Wei Liu, Jean Yee Hwa Yang

Proceedings of the Twenty-Sixth International Joint Conference on Artificial Intelligence, 2017

2016

Characterizing mutation-expression network relationships in multiple cancers.

Shila Ghazanfar, Jean Yee Hwa Yang

Comput. Biol. Chem., 2016

Integrated single cell data analysis reveals cell specific networks and novel coactivation markers.

Shila Ghazanfar, Adam J. Bisogni, John T. Ormerod, David M. Lin, Jean Yee Hwa Yang

BMC Syst. Biol., 2016

Positive-unlabeled ensemble learning for kinase substrate prediction from dynamic phosphoproteomics data.

Pengyi Yang, Sean J. Humphrey, David E. James, Yee Hwa Yang, Raja Jothi

Bioinform., 2016

2015

Knowledge-Based Analysis for Detecting Key Signaling Events from Time-Series Phosphoproteomics Data.

Pengyi Yang, Xiaofeng Zheng, Vivek Jayaswal, Guang Hu, Jean Yee Hwa Yang, Raja Jothi

PLoS Comput. Biol., 2015

ClassifyR: an R package for performance assessment of classification with applications to transcriptomics.

Dario Strbenac, Graham J. Mann, John T. Ormerod, Jean Yee Hwa Yang

Bioinform., 2015

Inferring data-specific micro-RNA function through the joint ranking of micro-RNA and pathways from matched micro-RNA and gene expression data.

Ellis Patrick, Michael J. Buckley, Samuel Müller, David M. Lin, Jean Yee Hwa Yang

Bioinform., 2015

2014

Network-based biomarkers enhance classical approaches to prognostic gene expression signatures.

Rebecca L. Barter, Sarah-Jane Schramm, Graham J. Mann, Yee Hwa Yang

BMC Syst. Biol., 2014

Direction pathway analysis of large-scale proteomics data reveals novel features of the insulin action pathway.

Pengyi Yang, Ellis Patrick, Shi-Xiong Tan, Daniel J. Fazakerley, James G. Burchfield, Christopher Gribben, Matthew J. Prior, David E. James, Yee Hwa Yang

Bioinform., 2014

2013

Improved moderation for gene-wise variance estimation in RNA-Seq via the exploitation of external information.

Ellis Patrick, Michael J. Buckley, David M. Lin, Yee Hwa Yang

BMC Genom., 2013

Estimation of data-specific constitutive exons with RNA-Seq data.

Ellis Patrick, Michael J. Buckley, Yee Hwa Yang

BMC Bioinform., 2013

Latin square dataset for evaluating the accuracy of mass spectrometry-based protein identification and quantification.

Penghao Wang, Jean Yee Hwa Yang, Mark Raftery, Ling Zhong, Susan R. Wilson

Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

2012

Improving X!Tandem on Peptide Identification from Mass Spectrometry by Self-Boosted Percolator.

Pengyi Yang, Jie Ma, Penghao Wang, Yunping Zhu, Bing Bing Zhou, Jean Yee Hwa Yang

IEEE ACM Trans. Comput. Biol. Bioinform., 2012

OCAP: an open comprehensive analysis pipeline for iTRAQ.

Penghao Wang, Pengyi Yang, Jean Yee Hwa Yang

Bioinform., 2012

2011

Two-Step Cross-Entropy Feature Selection for Microarrays - Power Through Complementarity.

Tim Peters, David W. Bulger, To-ha Loi, Jean Yee Hwa Yang, David Ma

IEEE ACM Trans. Comput. Biol. Bioinform., 2011

Gene-gene interaction filtering with ensemble of filters.

Pengyi Yang, Joshua Wing Kei Ho, Jean Yee Hwa Yang, Bing Bing Zhou

BMC Bioinform., 2011

2010

Comparison study of microarray meta-analysis methods.

Anna Campain, Yee Hwa Yang

BMC Bioinform., 2010

A dynamic wavelet-based algorithm for pre-processing tandem mass spectrometry data.

Penghao Wang, Pengyi Yang, Jonathan Arthur, Jean Yee Hwa Yang

Bioinform., 2010

2007

A multi-array multi-SNP genotyping algorithm for Affymetrix SNP microarrays.

Yuanyuan Xiao, Mark R. Segal, Yee Hwa Yang, Ru-Fang Yeh

Bioinform., 2007

2005

Analysis of a Splice Array Experiment Elucidates Roles of Chromatin Elongation Factor Spt4-5 in Splicing.

Yuanyuan Xiao, Yee Hwa Yang, Todd A. Burckin, Lily Shiue, Grant A. Hartzog, Mark R. Segal

PLoS Comput. Biol., 2005

Identifying differentially expressed genes from microarray experiments via statistic synthesis.

Yee Hwa Yang, Yuanyuan Xiao, Mark R. Segal

Bioinform., 2005

2001

Analysis of CDNA Microarray Images.

Yee Hwa Yang, Michael J. Buckley, Terence P. Speed

Briefings Bioinform., 2001