Zhi Wei

发表

A hidden spatial-temporal Markov random field model for network-based analysis of time course gene expression data

Hongzhe Li, Zhi Wei, 2008, 0803.3942.

Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease

David C. Wilson, Judy H. Cho, C. Gieger, 2012, Nature.

IBD risk loci are enriched in multigenic regulatory modules encompassing putative causative genes

David C. Wilson, Judy H. Cho, C. Gieger, 2018, Nature Communications.

CNV Analysis Associates AKNAD1 with Type-2 Diabetes in Jordan Subpopulations

J. Glessner, H. Hakonarson, Zhi Wei, 2015, Scientific Reports.

Nonparametric pathway-based regression models for analysis of genomic data.

Hongzhe Li, Zhi Wei, Hongzhe Li, 2007, Biostatistics.

SNVer: a statistical tool for variant calling in analysis of pooled or individual next-generation sequencing data

H. Hakonarson, P. Hu, Zhi Wei, 2011, Nucleic acids research.

Low concordance of multiple variant-calling pipelines: practical implications for exome and genome sequencing

H. Hakonarson, W. Johnson, T. Jiang, 2013, Genome Medicine.

From Disease Association to Risk Assessment: An Optimistic View from Genome-Wide Association Studies on Type 1 Diabetes

Joseph T. Glessner, J. Glessner, H. Hakonarson, 2009, PLoS genetics.

Analysis of shared heritability in common disorders of the brain

Nick C Fox, Dan J Stein, Janice M. Fullerton, 2018, Science.

Application of computational methods in genetic study of inflammatory bowel disease.

H. Hakonarson, Zhi Wei, Jin Li, 2016, World journal of gastroenterology.

Large sample size, wide variant spectrum, and advanced machine-learning technique boost risk prediction for inflammatory bowel disease.

H. Hakonarson, Cecilia Kim, K. Van Steen, 2013, American journal of human genetics.

Ranking causal variants and associated regions in genome-wide association studies by the support vector machine and random forest

Satish Chikkagoudar, Hakon Hakonarson, Usman Roshan, 2011, Nucleic acids research.

Regulation of Janus Kinase 2 by an Inflammatory Bowel Disease Causal Non-coding Single Nucleotide Polymorphism.

H. Hakonarson, S. Grant, J. Bradfield, 2020, Journal of Crohn's & colitis.

Incorporation of Genetic Pathway Information into Analysis of Multivariate Gene Expression Data

Hongzhe Li, Eric F. Rappaport, Zhi Wei, 2008 .

Coexpression network analysis identifies transcriptional modules associated with genomic alterations in neuroblastoma.

Zhi Wei, X. Chang, Liulin Yang, 2017, Biochimica et biophysica acta. Molecular basis of disease.

GWAS of blood cell traits identifies novel associated loci and epistatic interactions in Caucasian and African-American children.

Yiran Guo, Joseph T. Glessner, Hakon Hakonarson, 2013, Human molecular genetics.

Exome sequencing and unrelated findings in the context of complex disease research: ethical and clinical implications.

Ying Liu, Wei Wang, Mark Yandell, 2011, Discovery medicine.

Epistasis Detection using Model Based Multifactor Dimensionality Reduction in Structured Populations

Elena S. Gusareva, H. Hakonarson, K. Van Steen, 2019, bioRxiv.

U‐Statistics‐based Tests for Multiple Genes in Genetic Association Studies

Mingyao Li, T. Rebbeck, Hongzhe Li, 2008, Annals of human genetics.

Dysregulation of synaptogenesis genes antecedes motor neuron pathology in spinal muscular atrophy

Larry N. Singh, G. Dreyfuss, Zhi Wei, 2013, Proceedings of the National Academy of Sciences.

A powerful test for multiple rare variants association studies that incorporates sequencing qualities

Hongzhe Li, Zhi Wei, Hongzhe Li, 2012, Nucleic acids research.

Genes associated with cancer, schizophrenia and type 2 diabetes in the circassian and Chechen populations in Jordan

H. Hakonarson, Zhi Wei, R. Dajani, 2018 .

Genome-wide association study identifies novel type II diabetes risk loci in Jordan subpopulations

H. Hakonarson, Zhi Wei, M. March, 2017, PeerJ.

Hidden Markov models for controlling false discovery rate in genome-wide association analysis.

Zhi Wei, 2012, Methods in molecular biology.

Understanding the genetic and epigenetic basis of common variable immunodeficiency disorder through omics approaches.

H. Hakonarson, Zhi Wei, Y. Li, 2016, Biochimica et biophysica acta.

Performance of model-based multifactor dimensionality reduction methods for epistasis detection by controlling population structure

Elena S. Gusareva, H. Hakonarson, Zhi Wei, 2020, BioData Mining.

Inflammatory Bowel Disease : Global view Application of computational methods in genetic study of inflammatory bowel disease

H. Hakonarson, Zhi Wei, Jin Li, 2016 .

Multiple Epistasis Interactions Within MHC Are Associated With Ulcerative Colitis

H. Hakonarson, K. Van Steen, Zhi Wei, 2019, Front. Genet..

Identification of Novel Loci Shared by Juvenile Idiopathic Arthritis Subtypes Through Integrative Genetic Analysis

J. Glessner, H. Hakonarson, B. Lie, 2022, Arthritis & rheumatology.

Integrative Genetics Analysis of Juvenile Idiopathic Arthritis Identifies Novel Loci

John J. Connolly, Joseph T. Glessner, Debra K. Shivers, 2020, medRxiv.

Meta-analysis of shared genetic architecture across ten pediatric autoimmune diseases

Constantin Polychronakos, Yiran Guo, Dong Li, 2016 .

Genetic determinants of common epilepsies: a meta-analysis of genome-wide association studies

Michael R. Johnson, I. Scheffer, D. Goldstein, 2014, The Lancet Neurology.

Genetics of Inflammatory Bowel Diseases

H. Hakonarson, Zhi Wei, S. Baldassano, 2013 .

A change-point model for identifying 3′UTR switching by next-generation RNA sequencing

Hongzhe Li, Zhi Wei, Wei Wang, 2014, Bioinform..

Minor introns are embedded molecular switches regulated by highly unstable U6atac snRNA

G. Dreyfuss, Zhi Wei, K. Dittmar, 2013, eLife.

Common variants in MMP20 at 11q22.2 predispose to 11q deletion and neuroblastoma risk

Joseph T. Glessner, J. Glessner, H. Hakonarson, 2017, Nature Communications.

High density mapping of the MHC identifies a shared role for HLA-DRB1*01:03 in inflammatory bowel diseases and heterozygous advantage in ulcerative colitis

Hailiang Huang, Stephan Ripke, Andre Franke, 2014, Nature Genetics.

Tissue-Specific Differential Expression of Novel Genes and Long Intergenic Noncoding RNAs in Humans With Extreme Response to Evoked Endotoxemia

Mingyao Li, M. Reilly, Yuhuang Li, 2018, Circulation. Genomic and precision medicine.

Materials for : Host-microbe interactions shape genetic risk for inflammatory bowel disease

Judy H. Cho, C. Gieger, M. Daly, 2012 .

The Long Noncoding RNA Landscape in Amygdala Tissues from Schizophrenia Patients

H. Hakonarson, R. Gur, Tian Tian, 2018, EBioMedicine.

Genome-wide association study of the age of onset of type 1 diabetes reveals HTATIP2 as a novel T cell regulator

H. Hakonarson, C. Polychronakos, J. Bradfield, 2023, Frontiers in Immunology.

Clustering of single-cell multi-omics data with a multimodal deep learning method

H. Hakonarson, Tian Tian, Zhi Wei, 2022, Nature communications.

An omnibus test for differential distribution analysis of microbiome sequencing data

Jun Chen, Zhi Wei, Yue Yu, 2018, Bioinform..

Pathway signatures derived from on-treatment tumor specimens predict response to anti-PD1 blockade in metastatic melanoma

R. Sullivan, K. Flaherty, Dennie T. Frederick, 2021, Nature Communications.

Genome-wide mega-analysis identifies 16 loci and highlights diverse biological mechanisms in the common epilepsies

Christian Gieger, Norman Delanty, Ellen Campbell, 2018, Nature Communications.

DeepCNV: a deep learning approach for authenticating copy number variations

Xiurui Hou, Jie Zhang, Peter Krawitz, 2021, Briefings Bioinform..

Copy Number Variations in CTNNA3 and RBFOX1 Associate with Pediatric Food Allergy

Joseph T. Glessner, Frank D. Mentch, Hakon Hakonarson, 2015, The Journal of Immunology.

Genetic sharing and heritability of paediatric age of onset autoimmune diseases

Hongzhe Li, Constantin Polychronakos, Yiran Guo, 2015, Nature Communications.

Genetic Variation in PADI6-PADI4 on 1p36.13 Is Associated with Common Forms of Human Generalized Epilepsy

H. Hakonarson, S. Grant, M. Sperling, 2021, Genes.

Machine learning derived risk prediction of anorexia nervosa

Yiran Guo, Brendan J. Keating, Hakon Hakonarson, 2015, BMC Medical Genomics.

Next generation sequencing has lower sequence coverage and poorer SNP-detection capability in the regulatory regions

Tak-Wah Lam, Zhi Wei, T. Lam, 2011, Scientific reports.

Target Genes of Autism Risk Loci in Brain Frontal Cortex

H. Hakonarson, Zhi Wei, P. Sleiman, 2019, Front. Genet..

Genome-wide association study for acute otitis media in children identifies FNDC1 as disease contributing gene

A. Uitterlinden, H. Hakonarson, F. Rivadeneira, 2016, Nature Communications.

Genome-Wide Association Study Identifies African-Specific Susceptibility Loci in African Americans With Inflammatory Bowel Disease.

Judy H. Cho, David T. Okou, Claire L. Simpson, 2017, Gastroenterology.

Erratum: A genome-wide association study of anorexia nervosa suggests a risk locus implicated in dysregulated leptin signaling

H. Hakonarson, Cecilia Kim, Yiran Guo, 2017, Scientific Reports.

A genome-wide association study of anorexia nervosa suggests a risk locus implicated in dysregulated leptin signaling

John J. Connolly, I. Ntalla, E. Zeggini, 2017, Scientific Reports.

Rare variants at 16p11.2 are associated with common variable immunodeficiency.

Joseph T. Glessner, J. Glessner, H. Hakonarson, 2015, The Journal of allergy and clinical immunology.

Pathway-based Genome-wide Association Studies Reveal the Association Between Growth Factor Activity and Inflammatory Bowel Disease

H. Hakonarson, Cecilia Kim, R. Baldassano, 2016, Inflammatory bowel diseases.

Transcriptome Profiling of Human Ulcerative Colitis Mucosa Reveals Altered Expression of Pathways Enriched in Genetic Susceptibility Loci

H. Hakonarson, S. Grant, R. Baldassano, 2014, PloS one.

A Markov random field model for network-based analysis of genomic data

Hongzhe Li, Zhi Wei, Hongzhe Li, 2007, Bioinform..

Weighted Gene Co-Expression Network Analysis Reveals Dysregulation of Mitochondrial Oxidative Phosphorylation in Eating Disorders

Zhi Wei, X. Chang, T. Turki, 2018, Genes.

Association of genetic variants with macronutrient intake in Circassian and Chechan populations in relation to diabetes

H. Hakonarson, Zhi Wei, R. Tayyem, 2018, Meta Gene.

Toward more accurate variant calling for “personal genomes”

W. Johnson, T. Jiang, Zhi Wei, 2013 .

Using common genetic variants to find drugs for common epilepsies

David F. Smith, C. Gieger, I. Scheffer, 2021, Brain Communications.

Candidate gene analyses for acute pain and morphine analgesia after pediatric day surgery: African American versus European Caucasian ancestry and dose prediction limits

H. Hakonarson, Zhi Wei, Jin Li, 2018, The Pharmacogenomics Journal.

Variants in CXCR4 associate with juvenile idiopathic arthritis susceptibility

Joseph T. Glessner, Debra K. Shivers, J. Glessner, 2016, BMC Medical Genetics.

An empirical Bayes testing procedure for detecting variants in analysis of next generation sequencing data

Zhi Wei, Wei Wang, Zhigen Zhao, 2013, 1401.2278.

GAME: detecting cis-regulatory elements using a genetic algorithm

Zhi Wei, Shane T. Jensen, Zhi Wei, 2006, Bioinform..

Epistasis Detection in Genome-Wide Screening for Complex Human Diseases in Structured Populations

Elena S. Gusareva, H. Hakonarson, Zhi Wei, 2019, Systems Medicine.

Rare copy number variants in over 100,000 European ancestry subjects reveal multiple disease associations

Joseph T. Glessner, Bradley P. Coe, B. Coe, 2020, Nature Communications.

ST-Trader: A Spatial-Temporal Deep Neural Network for Modeling Stock Market Movement

Xiurui Hou, Cheng Zhong, Zhi Wei, 2021, IEEE/CAA Journal of Automatica Sinica.

Rare copy number variants in over 100,000 European ancestry subjects reveal multiple disease associations

B. Coe, E. Eichler, J. Glessner, 2020, Nature Communications.

Machine learning derived risk prediction of anorexia nervosa

H. Hakonarson, Yiran Guo, Zhi Wei, 2015, BMC Medical Genomics.

Multiple testing in genome-wide association studies via hidden Markov models

Kai Wang, Zhi Wei, Hakon Hakonarson, 2009, Bioinform..

Common variants in MMP20 at 11q22.2 predispose to 11q deletion and neuroblastoma risk

Joseph T. Glessner, J. Glessner, H. Hakonarson, 2017, Nature Communications.

MONTAGE: a new tool for high-throughput detection of mosaic copy number variation

Joseph T. Glessner, J. Glessner, H. Hakonarson, 2021, BMC genomics.

Genome-Wide Association Study of Serum Minerals Levels in Children of Different Ethnic Background

H. Hakonarson, Cecilia Kim, Yiran Guo, 2015, PloS one.

Genome-wide association study reveals two loci for serum magnesium concentrations in European-American children

Joseph T. Glessner, J. Glessner, H. Hakonarson, 2015, Scientific Reports.

Network-Based Empirical Bayes Methods for Linear Models with Applications to Genomic Data

Hongzhe Li, Zhi Wei, Caiyan Li, 2010, Journal of biopharmaceutical statistics.

A Network-constrained Empirical Bayes Method for Analysis of Genomic Data

Zhi Wei, Hongzhe Li, Caiyan Li, 2008 .

Gene Network Analysis in a Pediatric Cohort Identifies Novel Lung Function Genes

H. Hakonarson, Cecilia Kim, R. Chiavacci, 2012, PloS one.

Collapsing singletons may boost signal for associating rare variants in sequencing study

Zhi Wei, Wei Wang, 2014, BMC Proceedings.

Whole blood genome-wide gene expression profile in males after prolonged wakefulness and sleep recovery.

D. Y. Sunaga, Zhi Wei, S. Tufik, 2012, Physiological genomics.

Rare variants at 16p11.2 are associated with common variable immunodeficiency.

J. Glessner, H. Hakonarson, Cecilia Kim, 2015, The Journal of allergy and clinical immunology.

Targeted resequencing identifies defective variants of decoy receptor 3 in pediatric-onset inflammatory bowel disease

H. Hakonarson, Cecilia Kim, S. Grant, 2013, Genes and Immunity.

Whole blood genome-wide gene expression profile in males after prolonged wakefulness and sleep recovery.

D. Y. Sunaga, Zhi Wei, R. Pellegrino, 2012, Physiological genomics.

Network-Based Empirical Bayes Methods for Linear Models with Applications to Genomic Data

Hongzhe Li, Caiyan Li, Zhi Wei, 2010, Journal of biopharmaceutical statistics.

Meta-analysis of shared genetic architecture across ten pediatric autoimmune diseases

John J. Connolly, J. Glessner, H. Hakonarson, 2015, Nature Medicine.

Genome-Wide Association Study of Serum Minerals Levels in Children of Different Ethnic Background

H. Hakonarson, Cecilia Kim, Yiran Guo, 2015, PloS one.

Infection and inflammation stimulate expansion of a CD74 + Paneth cell subset to regulate disease progression

Wei Vivian Li, Zhi Wei, G. Bhagat, 2023, The EMBO journal.

Bioinformatics Original Paper Game: Detecting Cis-regulatory Elements Using a Genetic Algorithm

Zhi Wei, S. T. Jensen, X. S. Liu, 2022 .

A Markov random field model for network-based analysis of genomic data

Hongzhe Li, Zhi Wei, 2007, Bioinform..

Meta-analysis of shared genetic architecture across ten pediatric autoimmune diseases

J. Glessner, H. Hakonarson, Cecilia Kim, 2015, Nature Medicine.

Meta-analysis of shared genetic architecture across ten pediatric autoimmune diseases

John J. Connolly, J. Glessner, H. Hakonarson, 2015, Nature Medicine.