Hongyu Zhao
Orcid: 0000-0003-1195-9607Affiliations:
- Yale University, New Haven, CT, USA
According to our database1,
Hongyu Zhao
authored at least 79 papers
between 2001 and 2023.
Collaborative distances:
Collaborative distances:
Timeline
Legend:
Book In proceedings Article PhD thesis Dataset OtherLinks
Online presence:
On csauthors.net:
Bibliography
2023
HBV-infected hepatocellular carcinoma can be robustly classified into three clinically relevant subgroups by a novel analytical protocol.
Briefings Bioinform., March, 2023
CARE as a wearable derived feature linking circadian amplitude to human cognitive functions.
npj Digit. Medicine, 2023
Comprehensive Analysis of Ubiquitously Expressed Genes in Humans from A Data-driven Perspective.
Genom. Proteom. Bioinform., 2023
MuSe-GNN: Learning Unified Gene Representation From Multimodal Biological Graph Data.
Proceedings of the Advances in Neural Information Processing Systems 36: Annual Conference on Neural Information Processing Systems 2023, 2023
2022
BMC Bioinform., December, 2022
A Manifold Proximal Linear Method for Sparse Spectral Clustering with Application to Single-Cell RNA Sequencing Data Analysis.
INFORMS J. Optim., April, 2022
PLoS Comput. Biol., 2022
BMC Bioinform., 2022
Bioinform., 2022
ResPAN: a powerful batch correction model for scRNA-seq data through residual adversarial networks.
Bioinform., 2022
A Markov random field model-based approach for differentially expressed gene detection from single-cell RNA-seq data.
Briefings Bioinform., 2022
MZINBVA: variational approximation for multilevel zero-inflated negative-binomial models for association analysis in microbiome surveys.
Briefings Bioinform., 2022
A general kernel boosting framework integrating pathways for predictive modeling based on genomic data.
Proceedings of the BCB '22: 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, Northbrook, Illinois, USA, August 7, 2022
2021
J. Comput. Graph. Stat., 2021
Calculating Orthologous Protein-Coding Sequence Set Probability Using the Poisson Process.
J. Comput. Biol., 2021
<i>RePhine</i>: An Integrative Method for Identification of Drug Response-related Transcriptional Regulators.
Genom. Proteom. Bioinform., 2021
A Markov random field model for network-based differential expression analysis of single-cell RNA-seq data.
BMC Bioinform., 2021
Transformation and differential abundance analysis of microbiome data incorporating phylogeny.
Bioinform., 2021
Comparison of methods for estimating genetic correlation between complex traits using GWAS summary statistics.
Briefings Bioinform., 2021
2020
Leveraging effect size distributions to improve polygenic risk scores derived from summary statistics of genome-wide association studies.
PLoS Comput. Biol., 2020
An empirical Bayes approach to normalization and differential abundance testing for microbiome data.
BMC Bioinform., 2020
Predicting viral exposure response from modeling the changes of co-expression networks using time series gene expression data.
BMC Bioinform., 2020
2019
Bioinform., 2019
2018
Pivotal variable detection of the covariance matrix and its application to high-dimensional factor models.
Stat. Comput., 2018
Stat. Comput., 2018
Improving SNP prioritization and pleiotropic architecture estimation by incorporating prior knowledge using graph-GPA.
Bioinform., 2018
2017
Leveraging functional annotations in genetic risk prediction for human complex diseases.
PLoS Comput. Biol., 2017
A comparison of graph- and kernel-based -omics data integration algorithms for classifying complex traits.
BMC Bioinform., 2017
GRAPE: a pathway template method to characterize tissue-specific functionality from gene expression profiles.
BMC Bioinform., 2017
2016
Efficient Drug-Pathway Association Analysis via Integrative Penalized Matrix Decomposition.
IEEE ACM Trans. Comput. Biol. Bioinform., 2016
BMC Bioinform., 2016
BMC Bioinform., 2016
GenoWAP: GWAS signal prioritization through integrated analysis of genomic functional annotation.
Bioinform., 2016
Predicting synergistic effects between compounds through their structural similarity and effects on transcriptomes.
Bioinform., 2016
2014
BMC Bioinform., 2014
A graph theoretic approach to utilizing protein structure to identify non-random somatic mutations.
BMC Bioinform., 2014
A spatial simulation approach to account for protein structure when identifying non-random somatic mutations.
BMC Bioinform., 2014
2013
IEEE ACM Trans. Comput. Biol. Bioinform., 2013
HapBoost: A Fast Approach to Boosting Haplotype Association Analyses in Genome-Wide Association Studies.
IEEE ACM Trans. Comput. Biol. Bioinform., 2013
BMC Bioinform., 2013
Accounting for non-genetic factors by low-rank representation and sparse regression for eQTL mapping.
Bioinform., 2013
2012
FacPad: Bayesian sparse factor modeling for the inference of pathways responsive to drug treatment.
Bioinform., 2012
Bioinform., 2012
2011
Some theoretical properties of Silverman's method for Smoothed functional principal component analysis.
J. Multivar. Anal., 2011
Reverse Engineering of Gene Regulation Networks with an Application to the DREAM4 <i>in silico</i> Network Challenge.
Proceedings of the Handbook of Statistical Bioinformatics., 2011
2009
Genotyping and inflated type I error rate in genome-wide association case/control studies.
BMC Bioinform., 2009
Effect of false positive and false negative rates on inference of binding target conservation across different conditions and species from ChIP-chip data.
BMC Bioinform., 2009
2008
Is Subcellular Localization Informative for Modeling Protein-Protein Interaction Signal?
J. Electr. Comput. Eng., 2008
BMC Bioinform., 2008
Statistical methods to infer cooperative binding among transcription factors in <i>Saccharomyces cerevisiae</i>.
Bioinform., 2008
2007
Integrating domain knowledge with statistical and data mining methods for high-density genomic SNP disease association analysis.
J. Biomed. Informatics, 2007
A new protocol of analyzing isotope-coded affinity tag data from high-resolution LC-MS spectrometry.
Comput. Biol. Chem., 2007
2006
IEEE ACM Trans. Comput. Biol. Bioinform., 2006
Comput. Biol. Chem., 2006
PSMIX: an R package for population structure inference via maximum likelihood method.
BMC Bioinform., 2006
2005
Case Report: A High Productivity/Low Maintenance Approach to High-performance Computation for Biomedicine: Four Case Studies.
J. Am. Medical Informatics Assoc., 2005
A statistical method to detect chromosomal regions with DNA copy number alterations using SNP-array-based CGH data.
Comput. Biol. Chem., 2005
HAPLORE: a program for haplotype reconstruction in general pedigrees without recombination.
Bioinform., 2005
Inferring protein-protein interactions through high-throughput interaction data from diverse organisms.
Bioinform., 2005
Bioinform., 2005
Bioinform., 2005
Bioinform., 2005
Aligning Peaks Across Multiple Mass Spectrometry Data Sets Using A Scale-Space Based Approach.
Proceedings of the Fourth International IEEE Computer Society Computational Systems Bioinformatics Conference Workshops & Poster Abstracts, 2005
2004
Handling multiple testing while interpreting microarrays with the Gene Ontology Database.
BMC Bioinform., 2004
A computational approach for ordering signal transduction pathway components from genomics and proteomics Data.
BMC Bioinform., 2004
BMC Bioinform., 2004
Bioinform., 2004
2003
PathMAPA: a tool for displaying gene expression and performing statistical tests on metabolic pathways at multiple levels for <i>Arabidopsis</i>.
BMC Bioinform., 2003
Comparison of statistical methods for classification of ovarian cancer using mass spectrometry data.
Bioinform., 2003
2002
Proceedings of the AMIA 2002, 2002
2001
J. Comput. Biol., 2001