Works (106)

Updated: May 15th, 2024 04:47

2024 journal article

Control of false discoveries in grouped hypothesis testing for eQTL data

BMC BIOINFORMATICS, 25(1).

By: P. Rudra*, Y. Zhou n, A. Nobel* & F. Wright n

author keywords: eQTL; Grouped hypothesis testing; False discovery rate; Empirical Bayes
Sources: Web Of Science, NC State University Libraries
Added: April 22, 2024

2024 article

Genetic variation in severe cystic fibrosis liver disease is associated with novel mechanisms for disease pathogenesis

Stonebraker, J., Pace, R., Gallins, P., Dang, H., Aksit, M., Faino, A., … Knowles, M. (2024, March 27). HEPATOLOGY, Vol. 3.

By: J. Stonebraker*, R. Pace*, P. Gallins n, H. Dang*, M. Aksit*, A. Faino, W. Gordon*, S. Macparland* ...

author keywords: MAIT cells; whole genome sequencing; GWAS; TWAS; CFLD
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: April 15, 2024

2024 journal article

Hazard and risk characterization of 56 structurally diverse PFAS using a targeted battery of broad coverage assays using six human cell types

TOXICOLOGY, 503.

By: L. Ford*, H. Lin*, H. Tsai*, Y. Zhou n, F. Wright n, A. Sedykh*, R. Shah*, W. Chiu*, I. Rusyn*

author keywords: PFAS; In vitro; Grouping; Risk characterization; Margin of exposure
Sources: Web Of Science, NC State University Libraries
Added: May 7, 2024

2023 review

AI in healthcare: navigating opportunities and challenges in digital communication

[Review of ]. FRONTIERS IN DIGITAL HEALTH, 5.

By: G. Sun n & Y. Zhou n

author keywords: remote; AI solutions; telemedicine; transformative healthcare; chatbot; Trust-AI
TL;DR: This mini-review delves into the role of AI chatbots in digital health, providing a detailed exploration of their applications, benefits, challenges, and future prospects. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: January 16, 2024

2023 journal article

Association of Pseudomonas aeruginosa infection stage with lung function trajectory in children with cystic fibrosis

JOURNAL OF CYSTIC FIBROSIS, 22(5), 857–863.

By: M. Rosenfeld*, A. Faino, P. Qu, F. Onchiri, E. Blue*, J. Collaco*, W. Gordon*, R. Szczesniak* ...

author keywords: Cystic fibrosis; Pseudomonas aeruginosa; Lung function
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: January 16, 2024

2023 journal article

Genetic Modifiers of Cystic Fibrosis Lung Disease Severity

AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE, 207(10), 1324–1333.

By: Y. Zhou*, P. Gallins*, R. Pace*, H. Dang*, M. Aksit, E. Blue*, K. Buckingham*, J. Collaco ...

author keywords: cystic fibrosis; whole-genome sequencing; lung disease severity; GWAS/TWAS; pathway analyses
MeSH headings : Humans; Cystic Fibrosis / genetics; Genome-Wide Association Study / methods; Cystic Fibrosis Transmembrane Conductance Regulator / genetics; Patient Acuity; Lung; Microtubule-Associated Proteins / genetics
TL;DR: This pre- modulator genomic, transcriptomic, and pathway association study of 7,840 pwCF will facilitate mechanistic and post-modulator genetic studies and, development of novel therapeutics for CF lung disease. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: May 16, 2023

2023 journal article

Integrative Chemical-Biological Grouping of Complex High Production Volume Substances from Lower Olefin Manufacturing Streams

TOXICS, 11(7).

By: A. Cordova*, W. Klaren*, L. Ford*, F. Grimm*, E. Baker*, Y. Zhou n, F. Wright n, I. Rusyn*

author keywords: UVCB; petroleum; regulatory risk assessment; read-across; ion mobility spectrometry
UN Sustainable Development Goal Categories
Sources: ORCID, Web Of Science, NC State University Libraries
Added: July 6, 2023

2023 journal article

Leveraging Scheme for Cross-Study Microbiome Machine Learning Prediction and Feature Evaluations

BIOENGINEERING-BASEL, 10(2).

By: K. Song n & Y. Zhou n

author keywords: feature selection; machine learning; microbiome; random forest; support vector machine; logistic regression
TL;DR: This study developed a method for improving the generalizability and interpretability of machine learning models for predicting three different diseases (colorectal cancer, Crohn’s disease, and immunotherapy response) using nine independent microbiome datasets using random forest as the top model. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: ORCID, Web Of Science, NC State University Libraries
Added: February 10, 2023

2023 article

Simultaneous modeling of multivariate heterogeneous responses and heteroskedasticity via a two-stage composite likelihood

Ting, B. W. W., Wright, F. A., & Zhou, Y.-H. (2023, May 22). BIOMETRICAL JOURNAL.

By: B. Ting n, F. Wright n & Y. Zhou n

author keywords: heterogeneity; heteroskedasticity; multivariate statistics; precision medicine; prediction
TL;DR: A previous method for multivariate probit estimation is built upon using a two‐stage composite likelihood that exhibits favorable computational time while retaining attractive parameter estimation properties and has the potential to better leverage genomics data and provide interpretable inference for pleiotropy. (via Semantic Scholar)
Sources: ORCID, Web Of Science
Added: May 23, 2023

2022 journal article

A Double Penalty Model for Ensemble Learning

MATHEMATICS, 10(23).

By: W. Wang* & Y. Zhou n

author keywords: double penalty model; interpretability; partially linear model; separability
TL;DR: By considering ensemble learning for two learning ensemble components as a double penalty model, this work provides a framework to better understand the relative convergence and identifiability of the two components. (via Semantic Scholar)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: December 1, 2022

2022 journal article

A Machine Learning Pipeline for Mortality Prediction in the ICU

International Journal of Digital Health, 2(1).

By: Y. Sun n & Y. Zhou n

TL;DR: This paper proposes a cohort study that builds a pipeline that extracts ICD-9 codes and laboratory tests from public available electronic ICU databases, and improves the in-hospital mortality prediction accuracy using a combination of neural network missing data imputation approach and decision tree based outcome prediction algorithm. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Source: ORCID
Added: May 13, 2022

2022 journal article

A Population-Based Human In Vitro Approach to Quantify Inter-Individual Variability in Responses to Chemical Mixtures

TOXICS, 10(8).

By: L. Ford*, S. Jang*, Z. Chen*, Y. Zhou n, P. Gallins n, F. Wright n, W. Chiu*, I. Rusyn*

author keywords: population-wide; inter-individual variability; toxicodynamics; chemical mixtures; defined mixtures; human health risk assessment; uncertainty factors; genome-wide association study
TL;DR: The data show that population variability of the mixtures is unlikely to exceed that of the most variable component, and that similarity in genome-wide associations among components may be used to accrue additional evidence for grouping of constituents in a mixture for cumulative assessments. (via Semantic Scholar)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: August 2, 2022

2022 journal article

A resource for integrated genomic analysis of the human liver

SCIENTIFIC REPORTS, 12(1).

MeSH headings : Bayes Theorem; Genome-Wide Association Study / methods; Genomics; Humans; Liver; Polymorphism, Single Nucleotide; Quantitative Trait Loci
TL;DR: This study generated whole-transcriptome RNA-Seq from genotyped liver samples and used existing data from the GTEx Project and previous liver eQTL studies to create an enhanced transcriptomic sequence resource in the human liver, finding that MHC genes, and especially class II genes, are enriched for liver-specific eZTL patterns. (via Semantic Scholar)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: September 8, 2022

2022 journal article

Accounting for population structure in genetic studies of cystic fibrosis

HUMAN GENETICS AND GENOMICS ADVANCES, 3(3).

By: H. Kingston*, A. Stilp*, W. Gordon*, J. Broome*, S. Gogarten*, H. Ling*, J. Barnard*, S. Dugan-Perez* ...

TL;DR: The results suggest that PC adjustment can adequately prevent spurious associations between genetic variants and CF-related traits and are therefore effective tools to control for population structure even when population structure is confounded with disease severity and a common pathogenic variant. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: June 27, 2022

2022 journal article

C3NA: correlation and consensus-based cross-taxonomy network analysis for compositional microbial data

BMC BIOINFORMATICS, 23(1).

By: K. Song n & Y. Zhou n

author keywords: Co-occurrence network analysis; Microbiome; R package; Consensus clustering; Module preservation analysis
MeSH headings : Phylogeny; Consensus
TL;DR: C3NA is presented, a user-friendly R package for investigating compositional microbial sequencing data to identify and compare co-occurrence patterns across different taxonomic levels and discovered clusters of study and disease-dependent taxa that overlap with known functional taxa studied by other discovery studies and differential abundance analyses. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: November 21, 2022

2022 journal article

Comparing encounter-based and annualized chronic pseudomonas infection definitions in cystic fibrosis

JOURNAL OF CYSTIC FIBROSIS, 21(1), 40–44.

By: M. Rosenfeld*, A. Faino, F. Onchiri, M. Aksit*, S. Blackman*, E. Blue*, J. Collaco*, W. Gordon* ...

author keywords: cystic fibrosis; Pseudomonas aeruginosa; chronic infection; definitions
MeSH headings : Child; Child, Preschool; Chronic Disease; Cohort Studies; Cystic Fibrosis / microbiology; Humans; Infant; Pseudomonas Infections / diagnosis; Pseudomonas aeruginosa; Registries; Terminology as Topic; Time Factors
TL;DR: An annualized chronic Pa definition requiring at least 1 Pa+ culture in 3 of 4 consecutive years ("Green 3/4") resulted in chronic Pa metrics similar to established encounter-based modified Leeds criteria definitions, including a similar age at and proportion who fulfilled chronic Pa criteria, and a similar proportion with sustained Pa infection after meeting the Chronic Pa definition. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: March 28, 2022

2022 journal article

Complete CFTR gene sequencing in 5,058 individuals with cystic fibrosis informs variant-specific treatment

JOURNAL OF CYSTIC FIBROSIS, 21(1), 463–470.

By: K. Raraigh*, M. Aksit*, K. Hetrick*, R. Pace*, H. Ling*, W. O'Neal*, E. Blue*, Y. Zhou n ...

author keywords: Whole genome sequencing; CFTR; Modulator therapy; Variant identification; Variant annotation
MeSH headings : Alleles; Cohort Studies; Cystic Fibrosis / diagnosis; Cystic Fibrosis / genetics; Cystic Fibrosis Transmembrane Conductance Regulator / genetics; Genotype; Humans; Mutation
TL;DR: Complete CFTR gene sequencing in 5,058 individuals with CF identified at least one DNA variant in 99.6% of the cohort that is targetable by current molecular or emerging gene-based therapeutic technologies. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries
Added: July 5, 2022

2022 article

Fast Multivariate Probit Estimation via a Two-Stage Composite Likelihood

Ting, B., Wright, F., & Zhou, Y.-H. (2022, February 15). STATISTICS IN BIOSCIENCES, Vol. 2.

By: B. Ting n, F. Wright n & Y. Zhou n

author keywords: Composite; Likelihood; Multivariate; Probit; Two-stage; Two-step
TL;DR: This work proposes a fast method for multivariate probit estimation via a two-stage composite likelihood, and notes that the approach sets the stage for extensions beyond the purely binary setting. (via Semantic Scholar)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: February 15, 2022

2022 journal article

Improve the Colorectal Cancer Diagnosis Using Gut Microbiome Data

FRONTIERS IN MOLECULAR BIOSCIENCES, 9.

By: Y. Zhou n & G. Sun

author keywords: machine learning; prediction; feature engineering; colorectal cancer; mediation analysis; 16S rRNA
TL;DR: A machine learning method for gut microbiome data to assist in diagnosing colorectal cancer, which shows an 8.7% higher prediction accuracy and 13% higher area under the receiver operator characteristic curve than other published work. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: September 6, 2022

2022 journal article

Leveraging TOPMed imputation server and constructing a cohort-specific imputation reference panel to enhance genotype imputation among cystic fibrosis patients

HUMAN GENETICS AND GENOMICS ADVANCES, 3(2).

By: Q. Sun*, W. Liu*, J. Rosen*, L. Huang*, R. Pace*, H. Dang*, P. Gallins n, E. Blue* ...

TL;DR: It is demonstrated that despite having ∼3% the sample size of TOPMed, the CFGP reference panel can still outperform TOPMed when imputing some CF disease-causing variants, likely due to allele and haplotype differences between CF patients and general populations. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: May 10, 2022

2022 journal article

MagicalRsq: Machine-learning-based genotype imputation quality calibration

AMERICAN JOURNAL OF HUMAN GENETICS, 109(11), 1986–1997.

By: Q. Sun*, Y. Yang*, J. Rosen*, M. Jiang*, J. Chen*, W. Liu*, J. Wen*, L. Raffield* ...

MeSH headings : Humans; Genome-Wide Association Study / methods; Polymorphism, Single Nucleotide / genetics; Calibration; Genotype; Machine Learning
TL;DR: MagicalRsq is proposed, a machine-learning-based method that integrates variant-level imputation and population genetics statistics, to provide a better calibrated imputation quality metric and will benefit downstream analysis by better distinguishing well-imputed variants from those poorly imputed. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: January 17, 2023

2022 journal article

Pleiotropic modifiers of age-related diabetes and neonatal intestinal obstruction in cystic fibrosis

AMERICAN JOURNAL OF HUMAN GENETICS, 109(10), 1894–1908.

By: M. Aksit*, H. Ling*, R. Pace*, K. Raraigh*, F. Onchiri, A. Faino, K. Pagel*, E. Pugh* ...

MeSH headings : Cystic Fibrosis / complications; Cystic Fibrosis / genetics; Cystic Fibrosis Transmembrane Conductance Regulator / genetics; Diabetes Mellitus / genetics; Genome-Wide Association Study; Humans; Infant, Newborn; Infant, Newborn, Diseases; Intestinal Obstruction / complications; Intestinal Obstruction / genetics
TL;DR: Different loci modify risk of CFRD and MI; however, a subset exhibit pleiotropic effects indicating etiologic and mechanistic overlap between these two otherwise distinct complications of CF. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: November 21, 2022

2021 journal article

Eigenvector-based sparse canonical correlation analysis: Fast computation for estimation of multiple canonical vectors

JOURNAL OF MULTIVARIATE ANALYSIS, 185.

By: W. Wang* & Y. Zhou n

author keywords: GTEx; High-dimensional data analysis; Multivariate regression; Sparse canonical correlation analysis
TL;DR: This work provides an explicit link between sparse multiple regression with sparse canonical correlation analysis, and an efficient algorithm that can estimate multiple canonical pairs simultaneously rather than sequentially, and naturally allows parallel computing. (via Semantic Scholar)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: June 19, 2021

2021 journal article

ImputEHR: A Visualization Tool of Imputation for the Prediction of Biomedical Data

FRONTIERS IN GENETICS, 12.

By: Y. Zhou n & E. Saghapour n

author keywords: electronic health records; imputation; gradient boosting; prediction; decision trees
TL;DR: A new graphical tool, ImputEHR, is created that allows implementation of a range of simple and sophisticated data imputation approaches and enables data exploration for informed decision-making, as well as implementing machine learning prediction tools for response data selected by the user. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 2, 2021

2021 journal article

Potential Human Health Hazard of Post-Hurricane Harvey Sediments in Galveston Bay and Houston Ship Channel: A Case Study of Using In Vitro Bioactivity Data to Inform Risk Management Decisions

INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH, 18(24).

author keywords: new approach methods (NAMs); environmental mixtures; disaster research
MeSH headings : Bays; Cyclonic Storms; Disasters; Environmental Monitoring; Geologic Sediments; Humans; Polycyclic Aromatic Hydrocarbons / analysis; Risk Management; Water Pollutants, Chemical / analysis; Water Pollutants, Chemical / toxicity
TL;DR: It is found that in vitro bioactivity can be used as a comprehensive indicator of potential hazards and is an example of a new approach method (NAM) to inform risk management decisions on site cleanup. (via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action (OpenAlex)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: December 20, 2021

2021 journal article

Relationships between constituents of energy drinks and beating parameters in human induced pluripotent stem cell (iPSC)-Derived cardiomyocytes

FOOD AND CHEMICAL TOXICOLOGY, 149.

By: Y. Luo*, Z. Chen*, A. Blanchette*, Y. Zhou n, F. Wright n, E. Baker n, W. Chiu*, I. Rusyn*

author keywords: Cardiovascular; Heart rate; QT interval; Theophylline; Adenine; Azelate
MeSH headings : Calcium / metabolism; Cell Differentiation; Cell Survival / drug effects; Drug-Related Side Effects and Adverse Reactions; Energy Drinks / analysis; Heart Diseases / chemically induced; Humans; Induced Pluripotent Stem Cells / drug effects; Myocytes, Cardiac / drug effects; Risk Assessment
TL;DR: It was found that some of the energy drinks elicited adverse effects on the cardiomyocytes with the most common being an increase in the beat rate, while QT prolongation was also observed at the lowest concentrations. (via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy (OpenAlex)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: February 4, 2021

2021 personal communication

The COVID-19 Pandemic Vulnerability Index (PVI) Dashboard: Monitoring County-Level Vulnerability Using Visualization, Statistical Modeling, and Machine Learning

Marvel, S. W., House, J. S., Wheeler, M., Song, K., Zhou, Y.-H., Wright, F. A., … Reif, D. M. (2021, January).

MeSH headings : COVID-19 / epidemiology; Data Visualization; Health Status Indicators; Humans; Machine Learning; Models, Statistical; Vulnerable Populations
Sources: Web Of Science, NC State University Libraries, ORCID
Added: March 22, 2021

2020 journal article

A New Liver Expression Quantitative Trait Locus Map From 1,183 Individuals Provides Evidence for Novel Expression Quantitative Trait Loci of Drug Response, Metabolic, and Sex-Biased Phenotypes

CLINICAL PHARMACOLOGY & THERAPEUTICS, 107(6), 1383–1393.

By: A. Etheridge*, P. Gallins n, D. Jima n, K. Broadaway*, M. Ratain*, E. Schuetz*, E. Schadt*, A. Schroder* ...

MeSH headings : Adolescent; Adult; Aged; Aged, 80 and over; Antineoplastic Agents / adverse effects; Antineoplastic Agents / pharmacology; Child; Child, Preschool; Female; Gene Expression Regulation / genetics; Genetic Variation; Genome-Wide Association Study; Genotype; Humans; Hypolipidemic Agents / pharmacology; Infant; Liver / metabolism; Male; Middle Aged; Phenotype; Proprotein Convertase 9 / genetics; Quantitative Trait Loci / genetics; Receptors, G-Protein-Coupled / genetics; Sex Factors; Young Adult
TL;DR: Translational relevance of these results is evidenced by linking DPYD eQTLs to differences in safety of chemotherapy, linking the sex‐biased regulation of PCSK9 expression to anti‐lipid therapy, and identifying the G‐protein coupled receptor GPR180 as a novel drug target for hypertriglyceridemia. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: February 10, 2020

2020 journal article

Exploring the Limits of Combined Image/'omics Analysis for Non-cancer Histological Phenotypes

FRONTIERS IN GENETICS, 11.

By: P. Gallins n, E. Saghapour n & Y. Zhou n

author keywords: imaging; genomics; pathology; prediction; integration; histology; machine learning; embedding
TL;DR: This study surveys the evidence for genomic association and prediction of histology, and uses the results to test the limits of prediction accuracy using machine learning methods applied to the imaging data, genomics data, and their combination. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: November 24, 2020

2020 journal article

Systematic Comparisons for Composition Profiles, Taxonomic Levels, and Machine Learning Methods for Microbiome-Based Disease Prediction

FRONTIERS IN MOLECULAR BIOSCIENCES, 7.

By: K. Song n, F. Wright n & Y. Zhou n

author keywords: phenotype prediction; machine learning method; k-mers; operational taxonomic unit (OTU); amplicon sequence variant (ASV); phylogenetic analysis
TL;DR: The use of short k-mers, which have computational advantages and conceptual simplicity, is shown to be effective as a source for microbiome-based prediction, among machine-learning approaches, and tree-based methods show consistent, though modest, advantages in prediction accuracy. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: January 19, 2021

2019 review

A Review and Tutorial of Machine Learning Methods for Microbiome Host Trait Prediction

[Review of ]. FRONTIERS IN GENETICS, 10.

By: Y. Zhou n & P. Gallins n

author keywords: disease; phenotype; modeling; machine learning; prediction
TL;DR: The most commonly used machine learning methods are explored, and their prediction accuracy as applied to microbiome host trait prediction is evaluated. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: July 15, 2019

2019 journal article

A note on cyclic shift permutation testing for large eigenvalues

Stat, 8(1).

By: Y. Zhou n

author keywords: eigendecomposition; Marcenko-Pastur; Tracy-Widom
Source: ORCID
Added: December 18, 2019

2019 article

Marker-Trait Complete Analysis

Zhou, Y.-H., Gallins, P., & Wright, F. (2019, November 9). (Vol. 11). Vol. 11.

By: Y. Zhou*, P. Gallins* & F. Wright n

TL;DR: MTCA uses the conditional inference implicit in permutation as a motivational frame-work, but provides an option for fast screening with two novel tools: a multivariate-normal approximation for the max statistic, and the concept of eigenvalue-conditional moments for the sum statistic. (via Semantic Scholar)
Source: ORCID
Added: November 10, 2019

2019 journal article

Set‐based differential covariance testing for genomics

Stat, 8(1).

By: Y. Zhou n

author keywords: asymptotics; covariance testing; permutation
TL;DR: A simple uniform framework to test association of covariance matrices with an experimental variable, whether discrete or continuous, and a new “connectivity” statistic that is sensitive to the changes in overall covariance magnitude is described. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: ORCID
Added: October 7, 2019

2018 journal article

A common allele in FGF21 associated with sugar intake is associated with body shape, lower total body-fat percentage, and higher blood pressure

Cell Reports, 23(2), 327–336.

By: T. Frayling, R. Beaumont, S. Jones, H. Yaghootkar, M. Tuke, K. Ruth, F. Casanova, B. West ...

Source: NC State University Libraries
Added: August 6, 2018

2018 journal article

A common allele in FGF21 associated with sugar intake is associated with body shape, lower total body-fat percentage, and higher blood pressure

Cell Reports, 23(2), 327–336.

By: T. Frayling, R. Beaumont, S. Jones, H. Yaghootkar, M. Tuke, K. Ruth, F. Casanova, B. West ...

Source: ORCID
Added: October 7, 2019

2018 journal article

A survey of high dimension low sample size asymptotics

AUSTRALIAN & NEW ZEALAND JOURNAL OF STATISTICS, 60(1), 4–19.

By: M. Aoshima*, D. Shen*, H. Shen*, K. Yata*, Y. Zhou n & J. Marron*

author keywords: canonical correlations; classification; geometric representation; hypothesis testing; principal component analysis
TL;DR: A survey of one of those areas, initiated by a seminal paper in 2005, on high dimension low sample size asymptotics, which contains deep and insightful concepts which are frequently surprising and counter‐intuitive, yet have mathematical underpinnings which tend to be direct and not difficult to prove. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2018 journal article

A zero-inflated beta-binomial model for microbiome data analysis

STAT, 7(1).

By: T. Hu n, P. Gallins n & Y. Zhou n

author keywords: count data; penalized generalized linear model; zero-inflated beta-binomial modelling
TL;DR: A zero‐inflated beta‐binomial is introduced to model the distribution of microbiome count data and to determine association with a continuous or categorical phenotype of interest and has higher power than competing methods to detect taxa associated with phenotype. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID, NC State University Libraries, NC State University Libraries
Added: August 6, 2018

2018 journal article

Airway mucosal host defense is key to genomic regulation of cystic fibrosis lung disease severity

American Journal of Respiratory and Critical Care Medicine, 197(1), 79–93.

By: D. Polineni, H. Dang, P. Gallins, L. Jones, R. Pace, J. Stonebraker, L. Commander, J. Krenicky ...

Source: NC State University Libraries
Added: August 6, 2018

2018 journal article

Airway mucosal host defense is key to genomic regulation of cystic fibrosis lung disease severity

American Journal of Respiratory and Critical Care Medicine, 197(1), 79–93.

By: D. Polineni, H. Dang, P. Gallins, L. Jones, R. Pace, J. Stonebraker, L. Commander, J. Krenicky ...

Source: ORCID
Added: October 7, 2019

2018 journal article

Computation of ancestry scores with mixed families and unrelated individuals

BIOMETRICS, 74(1), 155–164.

By: Y. Zhou n, J. Marron* & F. Wright n

author keywords: Genetic association; Population stratification; Principal components
MeSH headings : Cystic Fibrosis / genetics; Family; Genome; Genotype; Humans; Models, Genetic; Pedigree; Principal Component Analysis
TL;DR: Two main novel strategies are considered: matrix substitution based on decomposition of a target family‐orthogonalized covariance matrix, and using family‐averaged data to obtain loadings using the family‐average method, which shows superior performance. (via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2018 journal article

Eigenvalue Significance Testing for Genetic Association

Biometrics.

By: Y. Zhou n, J. Marron & F. Wright n

author keywords: Eigenvalue testing; Population stratification
MeSH headings : Computer Simulation; Cystic Fibrosis / genetics; Data Interpretation, Statistical; Genetic Association Studies / methods; Genomics / methods; Genotype; Humans; Models, Genetic; Models, Statistical
TL;DR: A novel block permutation approach is introduced, designed to produce an appropriate null eigen value distribution by eliminating long‐range genomic correlation while preserving local correlation, and a fast approach based on eigenvalue distribution modeling is proposed. (via Semantic Scholar)
Source: ORCID
Added: October 7, 2019

2018 journal article

Estimation of cis-eQTL effect sizes using a log of linear model

BIOMETRICS, 74(2), 616–625.

By: J. Palowitch*, A. Shabalin*, Y. Zhou n, A. Nobel* & F. Wright n

author keywords: eQTL analyses; EQTL effect size; Multiple testing; Nonlinear regression
MeSH headings : Algorithms; Alleles; Gene Expression; Humans; Linear Models; Quantitative Trait Loci; Statistics as Topic
TL;DR: A new, log‐of‐linear model for eQTL action is proposed, termed ACME, that captures allelic contributions to cis‐acting eZTLs in an additive fashion, yielding effect size estimates that correspond to a biologically coherent model of cis‐eQTLs. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID, NC State University Libraries
Added: October 16, 2018

2017 journal article

A Pipeline for High-Throughput Concentration Response Modeling of Gene Expression for Toxicogenomics

Frontiers in Genetics, 8, 168.

By: J. House, F. Grimm, D. Jima, Y. Zhou, I. Rusyn & F. Wright

Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2017 journal article

A Two-Stage Hidden Markov Model Design for Biomarker Detection, with Application to Microbiome Research

Statistics in Biosciences, 10(1), 41–58.

By: Y. Zhou n, P. Brooks* & X. Wang

author keywords: Biomarker; False discovery rates; Hidden Markov model; Metagenomics; Metatranscriptomics; PCR
TL;DR: This paper studies an efficient HMM–FDR-based two-stage design, using a simple integrated analysis procedure across the stages, and proposes a power analysis method that shows excellent performance when compared to available methods. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: January 25, 2020

2017 journal article

A procedure to detect general association based on concentration of ranks

Stat, 6(1), 88–101.

By: P. Rudra, Y. Zhou & F. Wright

Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2017 journal article

Changes in vaginal community state types reflect major shifts in the microbiome

Microbial Ecology in Health and Disease, 28(1), 1303265.

By: J. Brooks*, G. Buck*, G. Chen*, L. Diao*, D. Edwards*, J. Fettweis*, S. Huzurbazar*, A. Rakitin ...

TL;DR: The results show that the CST concept is useful for studying microbiome dynamics, with healthy subjects persist in a CST for two to three weeks or more on average, while those with evidence of dysbiosis tend to change more often. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Source: Crossref
Added: February 5, 2020

2017 journal article

Changes in vaginal community state types reflect major shifts in the microbiome

Microbial Ecology in Health and Disease, 28(1), 1303265.

By: J. Brooks, G. Buck, G. Chen, L. Diao, D. Edwards, J. Fettweis, S. Huzurbazar, A. Rakitin ...

Source: ORCID
Added: October 7, 2019

2017 journal article

Dynamic landscape and regulation of RNA editing in mammals

Nature, 550(7675), 249–254.

By: M. Tan*, Q. Li*, R. Shanmugam*, R. Piskol*, J. Kohler*, A. Young*, K. Liu*, R. Zhang* ...

MeSH headings : Adenosine Deaminase / genetics; Adenosine Deaminase / metabolism; Animals; Female; Genotype; HEK293 Cells; Humans; Male; Mice; Muscles / metabolism; Nuclear Proteins / metabolism; Organ Specificity / genetics; Primates / genetics; Proteolysis; RNA Editing / genetics; RNA-Binding Proteins / genetics; RNA-Binding Proteins / metabolism; Spatio-Temporal Analysis; Species Specificity; Transcriptome / genetics
TL;DR: This work curated an extensive set of ADAR1 and ADAR2 targets and showed that many editing sites display distinct tissue-specific regulation by the ADAR enzymes in vivo, suggesting stronger cis-directed regulation of RNA editing for most sites, although the small set of conserved coding sites is under stronger trans-regulation. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: January 25, 2020

2017 journal article

Editor's Highlight: Comparative Dose-Response Analysis of Liver and Kidney Transcriptomic Effects of Trichloroethylene and Tetrachloroethylene in B6C3F1 Mouse

TOXICOLOGICAL SCIENCES, 160(1), 95–110.

By: Y. Zhou n, J. Cichocki*, V. Soldatow*, E. Scholl n, P. Gallins n, D. Jima n, H. Yoo*, W. Chiu*, F. Wright n, I. Rusyn*

author keywords: volatile organic compounds; agents; toxicogenomics; methods; dose-response; risk assessment; kidney; systems toxicology; liver; systems toxicology
MeSH headings : Animals; Dose-Response Relationship, Drug; Environmental Pollutants / toxicity; Gene Expression Profiling / methods; Gene Expression Regulation; Gene Regulatory Networks; Kidney / drug effects; Kidney / metabolism; Liver / drug effects; Liver / metabolism; Male; Mice; Risk Assessment; Sequence Analysis, RNA; Tetrachloroethylene / toxicity; Transcriptome; Trichloroethylene / toxicity
TL;DR: D dose-response modeling of the transcriptomic data was performed and the resulting points of departure (PODs) were compared to those for apical endpoints derived from long-term studies with these chemicals in rats, mice, and humans, converting to human equivalent doses using tissue-specific dosimetry models. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

Genetic effects on gene expression across human tissues

Nature, 550(7675), 204–213.

By: F. Aguet, A. Brown*, S. Castel, J. Davis, Y. He*, B. Jo, P. Mohammadi, Y. Park ...

MeSH headings : Alleles; Chromosomes, Human / genetics; Disease / genetics; Female; Gene Expression Profiling; Gene Expression Regulation / genetics; Genetic Variation; Genome, Human / genetics; Genotype; Humans; Male; Organ Specificity / genetics; Quantitative Trait Loci / genetics
TL;DR: It is found that local genetic variation affects gene expression levels for the majority of genes, and inter-chromosomal genetic effects for 93 genes and 112 loci are identified, enabling a mechanistic interpretation of gene regulation and the genetic basis of disease. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: December 19, 2020

2017 journal article

The impact of rare variation on gene expression across tissues

Nature, 550(7675), 239–243.

By: X. Li*, Y. Kim*, E. Tsang*, J. Davis*, F. Damani*, C. Chiang*, G. Hess*, Z. Zappala* ...

MeSH headings : Bayes Theorem; Female; Gene Expression Profiling; Genetic Variation / genetics; Genome, Human / genetics; Genomics; Genotype; Humans; Male; Models, Genetic; Organ Specificity / genetics; Sequence Analysis, RNA
TL;DR: It is demonstrated that rare variants contribute to large gene expression changes across tissues and provide an integrative method for interpretation of rare variants in individual genomes. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: January 25, 2020

2016 journal article

Estimation of interpretable eQTL effect sizes using a log of linear model

ArXiv Preprint ArXiv:1605.08799.

By: J. Palowitch, A. Shabalin, Y. Zhou, A. Nobel & F. Wright

Source: ORCID
Added: October 7, 2019

2016 journal article

Genomic characterization of metformin hepatic response

PLoS Genetics, 12(11), e1006449.

By: M. Luizon, W. Eckalbar, Y. Wang, S. Jones, R. Smith, M. Laurance, L. Lin, P. Gallins ...

Source: ORCID
Added: October 7, 2019

2016 journal article

Homologous recombination and translesion DNA synthesis play critical roles on tolerating DNA damage caused by trace levels of hexavalent chromium

PLoS One, 11(12).

By: X. Tian, K. Patel, J. Ridpath, Y. Chen, Y. Zhou, D. Neo, J. Clement, M. Takata ...

Source: NC State University Libraries
Added: August 6, 2018

2016 journal article

Homologous recombination and translesion DNA synthesis play critical roles on tolerating DNA damage caused by trace levels of hexavalent chromium

PloS One, 11(12), e0167503.

By: X. Tian, K. Patel, J. Ridpath, Y. Chen, Y. Zhou, D. Neo, J. Clement, M. Takata ...

Source: ORCID
Added: October 7, 2019

2016 journal article

Pathway Analysis for RNA-Seq Data Using a Score-Based Approach

BIOMETRICS, 72(1), 165–174.

By: Y. Zhou n

author keywords: Linear model; Pathway analysis; RNA-seq; Statistical genetics
MeSH headings : Algorithms; Animals; Data Interpretation, Statistical; Data Mining / methods; Databases, Nucleic Acid; Female; High-Throughput Nucleotide Sequencing / methods; Male; Protein Interaction Mapping / methods; Rats; Sequence Analysis, RNA / methods; Sex Factors; Signal Transduction / genetics; Species Specificity; Transcription Factors / genetics
TL;DR: Transitions to RNA‐Seq data are described to improve power for linear associations with outcome and flexibly handle normalization factors and it is demonstrated that the approach provides appropriate type I error control without actual permutation and is powerful under many settings in comparison to competing approaches. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 conference paper

Poster: risk-based attack surface approximation

Symposium and Bootcamp on the Science of Security, 121–123.

By: C. Theisen & L. Williams

Source: NC State University Libraries
Added: August 6, 2018

2016 journal article

The projack: a resampling approach to correct for ranking bias in high-throughput studies

Biostatistics (Oxford, England), 17(1), 54–64.

By: Y. Zhou & F. Wright

Source: NC State University Libraries
Added: August 6, 2018

2016 journal article

Visualization of robust L1PCA

Stat, 5(1), 173–184.

By: Y. Zhou n & J. Marron*

author keywords: L1-norm; outlier; PCA; robustness
TL;DR: The visual L1 principal component analysis (VL1PCA) is not only robust to outliers but also gives a meaningful population stratification for data even in the presence of special family structure, when other methods fail. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Crossref, ORCID
Added: October 7, 2019

2015 journal article

Effect of predicted protein-truncating genetic variants on the human transcriptome

Science, 348(6235), 666–669.

By: M. Rivas, M. Pirinen, D. Conrad, M. Lek, E. Tsang, K. Karczewski, J. Maller, K. Kukurba ...

Source: ORCID
Added: October 7, 2019

2015 journal article

Epigenome-wide association study (EWAS) of BMI, BMI change and waist circumference in African American adults identifies multiple replicated loci

Human Molecular Genetics, 24(15), 4464–4479.

By: E. Demerath, W. Guan, M. Grove, S. Aslibekyan, M. Mendelson, Y. Zhou, A. Hedman, J. Sandling ...

Source: NC State University Libraries
Added: August 6, 2018

2015 journal article

Epigenome-wide association study (EWAS) of BMI, BMI change and waist circumference in African American adults identifies multiple replicated loci

Human Molecular Genetics, 24(15), 4464–4479.

By: E. Demerath, W. Guan, M. Grove, S. Aslibekyan, M. Mendelson, Y. Zhou, Å. Hedman, J. Sandling ...

Source: ORCID
Added: October 7, 2019

2015 journal article

Gene Expression in Transformed Lymphocytes Reveals Variation in Endomembrane and HLA Pathways Modifying Cystic Fibrosis Pulmonary Phenotypes

The American Journal of Human Genetics, 96(2), 318–328.

By: W. O’Neal*, P. Gallins*, R. Pace*, H. Dang*, W. Wolf*, L. Jones*, X. Guo*, Y. Zhou n ...

MeSH headings : Cystic Fibrosis / genetics; Cystic Fibrosis / pathology; Endoplasmic Reticulum Stress / genetics; Gene Expression Profiling; Genes, MHC Class I / genetics; Genetic Variation; Humans; Linear Models; Phenotype; Receptors, Lysophosphatidic Acid / genetics; Sequence Deletion / genetics
TL;DR: Gene expression provided a powerful tool to identify unrecognized heritable variation, complementing ongoing GWASs in this rare disease and enriched for heritable genetic variation and expression quantitative traits. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: August 6, 2018

2015 journal article

Gene expression in transformed lymphocytes reveals variation in endomembrane and HLA pathways modifying cystic fibrosis pulmonary phenotypes

The American Journal of Human Genetics, 96(2), 318–328.

By: W. O’Neal, P. Gallins, R. Pace, H. Dang, W. Wolf, L. Jones, X. Guo, Y. Zhou ...

Source: ORCID
Added: October 7, 2019

2015 journal article

Genome-wide association meta-analysis identifies five modifier loci of lung disease severity in cystic fibrosis

Nature Communications, 6(1).

By: H. Corvol*, S. Blackman*, P. Boëlle*, P. Gallins*, R. Pace*, J. Stonebraker*, F. Accurso*, A. Clement* ...

MeSH headings : Adolescent; Adult; Amino Acid Transport Systems; Amino Acid Transport Systems, Neutral / genetics; Child; Cystic Fibrosis / genetics; Cystic Fibrosis / metabolism; Cystic Fibrosis / pathology; Female; Genome-Wide Association Study; Humans; Lung / metabolism; Lung / pathology; Male; Middle Aged; Mucin-4 / genetics; Mucins / genetics; Severity of Illness Index; Transcription Factors / genetics; Young Adult
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Source: Crossref
Added: February 5, 2020

2015 journal article

Genome-wide association meta-analysis identifies five modifier loci of lung disease severity in cystic fibrosis

Nature Communications, 6.

By: H. Corvol, S. Blackman, P. Boelle, P. Gallins, R. Pace, J. Stonebraker, F. Accurso, A. Clement ...

Source: NC State University Libraries
Added: August 6, 2018

2015 journal article

Genome-wide association meta-analysis identifies five modifier loci of lung disease severity in cystic fibrosis

Nature Communications, 6, 8382.

By: H. Corvol, S. Blackman, P. Boëlle, P. Gallins, R. Pace, J. Stonebraker, F. Accurso, A. Clement ...

Source: ORCID
Added: October 7, 2019

2015 journal article

High dimension low sample size asymptotics of robust PCA

ELECTRONIC JOURNAL OF STATISTICS, 9(1), 204–218.

By: Y. Zhou n & J. Marron*

author keywords: Outlier; robustness; spherical PCA; spike model
TL;DR: The study of the effects of outliers for high dimension and low sample size data, using asymptotics to show that the robust method of spherical principal components is consistent with the population eigenvector for the spike model, even in the presence of contamination. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2015 journal article

High dimension low sample size asymptotics of robust PCA

Electronic Journal of Statistics, 9(1), 204–218.

By: Y. Zhou, J. Marron & others

Source: ORCID
Added: October 7, 2019

2015 journal article

Hypothesis testing at the extremes: fast and robust association for high-throughput data

BIOSTATISTICS, 16(3), 611–625.

By: Y. Zhou n & F. Wright n

author keywords: Density approximation; Exact testing; Permutation
MeSH headings : Biostatistics; Breast Neoplasms / genetics; Computer Simulation; Cystic Fibrosis / genetics; Databases, Nucleic Acid / statistics & numerical data; Female; High-Throughput Nucleotide Sequencing / statistics & numerical data; High-Throughput Screening Assays / statistics & numerical data; Humans; Likelihood Functions; Linear Models; Polymorphism, Single Nucleotide; Sample Size; Software
TL;DR: An approximation to exact association tests of trend that is accurate and fast enough for standard use in high-throughput settings, and can easily provide standard two-sided or doubled [Formula: see text]-values is presented. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Identification of Novel Gene Targets and Putative Regulators of Arsenic-Associated DNA Methylation in Human Urothelial Cells and Bladder Cancer

Chemical Research in Toxicology, 28(6), 1144–1155.

By: J. Rager*, S. Tilley*, S. Tulenko*, L. Smeester*, P. Ray*, A. Yosim*, J. Currier*, M. Ishida* ...

MeSH headings : Adult; Aged; Arsenic / metabolism; Arsenic / toxicity; Cell Transformation, Neoplastic / chemically induced; DNA Methylation / drug effects; DNA Methylation / genetics; Female; Humans; Middle Aged; Urinary Bladder Neoplasms / chemically induced; Urinary Bladder Neoplasms / genetics; Urinary Bladder Neoplasms / pathology; Urothelium / cytology; Urothelium / drug effects; Young Adult
TL;DR: Both the arsenic- and cancer-associated genes are enriched for the binding sites of common transcription factors known to play roles in carcinogenesis, demonstrating a novel potential mechanistic link between iAs exposure and bladder cancer. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Source: Crossref
Added: February 5, 2020

2015 journal article

Identification of novel gene targets and putative regulators of arsenic-associated DNA methylation in human urothelial cells and bladder cancer

Chemical Research in Toxicology, 28(6), 1144–1155.

By: J. Rager, S. Tilley, S. Tulenko, L. Smeester, P. Ray, A. Yosim, J. Currier, M. Ishida ...

Source: NC State University Libraries
Added: August 6, 2018

2015 journal article

Identification of novel gene targets and putative regulators of arsenic-associated DNA methylation in human urothelial cells and bladder cancer

Chemical Research in Toxicology, 28(6), 1144–1155.

Yi-Hui Zhou

Source: ORCID
Added: October 7, 2019

2015 journal article

Metabolomic evaluation of neutrophilic airway inflammation in cystic fibrosis

Chest, 148(2), 507–515.

Yi-Hui Zhou

Source: ORCID
Added: October 7, 2019

2015 journal article

PathwaySeq: Pathway analysis for RNA-Seq data using a score-based approach

Dim (Data. Test), 1(1000), 448.

By: Y. Zhou

Source: ORCID
Added: October 7, 2019

2015 journal article

Population-Based in Vitro Hazard and Concentration-Response Assessment of Chemicals: The 1000 Genomes High-Throughput Screening Study

ENVIRONMENTAL HEALTH PERSPECTIVES, 123(5), 458–466.

By: N. Abdo*, M. Xia*, C. Brown*, O. Kosyk*, R. Huang*, S. Sakamuru*, Y. Zhou n, J. Jack* ...

MeSH headings : Cell Line, Tumor; Genome-Wide Association Study / methods; Genotype; Humans; Risk Assessment; Toxicity Tests / methods
TL;DR: This experimental approach fills critical gaps unaddressed by recent large-scale toxicity testing programs, providing quantitative, experimentally based estimates of human toxicodynamic variability, and also testable hypotheses about mechanisms contributing to interindividual variation. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2015 journal article

Population-based in vitro hazard and concentration--response assessment of chemicals: the 1000 genomes high-throughput screening study

Environmental Health Perspectives, 123(5), 458.

By: N. Abdo, M. Xia, C. Brown, O. Kosyk, R. Huang, S. Sakamuru, Y. Zhou, J. Jack ...

Source: ORCID
Added: October 7, 2019

2015 journal article

The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans

Science, 348(6235), 648–660.

By: K. Ardlie, D. DeLuca, A. Segre, T. Sullivan, T. Young, E. Gelfand, C. Trowbridge, J. Maller ...

Source: NC State University Libraries
Added: August 6, 2018

2015 journal article

The projack: a resampling approach to correct for ranking bias in high-throughput studies

Biostatistics, 17(1), 54–64.

By: Y. Zhou & F. Wright

Source: ORCID
Added: October 7, 2019

2014 journal article

Cadmium exposure and the epigenome: Exposure-associated patterns of DNA methylation in leukocytes from mother-baby pairs

Epigenetics, 9(2), 212–221.

By: A. Sanders, L. Smeester, D. Rojas, T. DeBussycher, M. Wu, F. Wright, Y. Zhou, J. Laine ...

Source: ORCID
Added: October 7, 2019

2014 journal article

Heritability and genomics of gene expression in peripheral blood

Nature Genetics, 46(5), 430–437.

By: F. Wright n, P. Sullivan*, A. Brooks*, F. Zou*, W. Sun*, K. Xia*, V. Madar*, R. Jansen* ...

MeSH headings : Blood / metabolism; Gene Expression Profiling; Gene Expression Regulation / genetics; Genotype; Humans; Inheritance Patterns / genetics; Likelihood Functions; Netherlands; Polymorphism, Single Nucleotide / genetics; Quantitative Trait Loci / genetics
TL;DR: Gen expression profiles in 2,752 twins were assessed, using a classic twin design, to quantify expression heritability and quantitative trait loci (eQTLs) in peripheral blood, providing a new resource toward understanding the genetic control of transcription. (via Semantic Scholar)
UN Sustainable Development Goal Categories
1. No Poverty (OpenAlex)
Source: Crossref
Added: February 5, 2020

2014 journal article

Heritability and genomics of gene expression in peripheral blood

Nature Genetics, 46(5), 430–437.

By: F. Wright, P. Sullivan, A. Brooks, F. Zou, W. Sun, K. Xia, V. Madar, R. Jansen ...

Source: NC State University Libraries
Added: August 6, 2018

2014 journal article

Heritability and genomics of gene expression in peripheral blood

Nature Genetics, 46(5), 430.

By: F. Wright, P. Sullivan, A. Brooks, F. Zou, W. Sun, K. Xia, V. Madar, R. Jansen ...

Source: ORCID
Added: October 7, 2019

2014 journal article

Physiologically Based Pharmacokinetic (PBPK) Modeling of Interstrain Variability in Trichloroethylene Metabolism in the Mouse

ENVIRONMENTAL HEALTH PERSPECTIVES, 122(5), 456–463.

By: W. Chiu*, J. Campbell*, H. Clewell*, Y. Zhou n, F. Wright n, K. Guyton*, I. Rusyn*

MeSH headings : Animals; Bayes Theorem; Dichloroacetic Acid / metabolism; Humans; Male; Mice; Trichloroethylene / metabolism; Trichloroethylene / pharmacokinetics
TL;DR: When extrapolated to lower doses more relevant to environmental exposures, mouse population-derived variability estimates for TCE metabolism closely matched population variability estimates previously derived from human toxicokinetic studies with TCE, highlighting the utility of mouse interstrain metabolism studies for addressing toxicokinetics variability. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2014 journal article

Physiologically based pharmacokinetic (PBPK) modeling of interstrain variability in trichloroethylene metabolism in the mouse

Environmental Health Perspectives, 122(5), 456.

Yi-Hui Zhou

Source: ORCID
Added: October 7, 2019

2014 journal article

RNA-Seq pathway analysis

By: Y. Zhou & H. Dang

Source: ORCID
Added: October 7, 2019

2013 journal article

Empirical pathway analysis, without permutation

Biostatistics, (doi:10.1093/biostatistics/kxt004), 1–13.

By: Y. Zhou, W. Barry & F. Wright

Source: ORCID
Added: October 7, 2019

2013 chapter

Metabolomic Evaluation Of Cystic Fibrosis Airways Disease

In A26. PEDIATRIC CYSTIC FIBROSIS (pp. A1165–A1165). American Thoracic Society.

By: C. Esther, Y. Zhou, F. Wright & R. Boucher

Source: ORCID
Added: October 7, 2019

2013 journal article

Single Nucleotide Polymorphism (SNP) Detection and Genotype Calling from Massively Parallel Sequencing (MPS) Data

Statistics in Biosciences, 5(1), 3–25.

By: Y. Li*, W. Chen*, E. Liu* & Y. Zhou*

author keywords: Massively parallel sequencing; Next-generationsequencing; SNP detection; Genotype calling; Linkage disequilibrium (LD)
TL;DR: A review of statistical methods proposed in the past five years to detect SNPs and call genotypes at the detected polymorphic sites from the sequencing data, and discusses emerging issues and future directions related to SNP detection and genotype calling from MPS data. (via Semantic Scholar)
Source: Crossref
Added: December 21, 2020

2013 journal article

Skill-assessments of statistical and Ensemble Kalman Filter data assimilative analyses using surface and deep observations in the Gulf of Mexico

Frontiers of Earth Science, 7(3), 271–281.

By: Z. Sun*, L. Oey* & Y. Zhou*

author keywords: data assimilation; deep observation; Gulf of Mexico
UN Sustainable Development Goal Categories
14. Life Below Water (OpenAlex)
Sources: Crossref, ORCID
Added: October 7, 2019

2013 journal article

Space-time clustering and the permutation moments of quadratic forms

Stat, 2(1), 292–302.

author keywords: exact testing; resampling; statistical computing
TL;DR: The extension of this work to quadratic forms greatly expands the utility of density approximations for these problems, including for high-dimensional applications, where the statistics must be extreme in order to exceed stringent testing thresholds. (via Semantic Scholar)
UN Sustainable Development Goal Categories
1. No Poverty (OpenAlex)
Sources: Crossref, ORCID
Added: October 7, 2019

2013 journal article

Stochastic comparisons in a price-quantity setting firm with uncertain demand and emergency procurement

Journal of Systems Science and Systems Engineering, 22(4), 401–420.

By: M. Xu*, X. Xu* & Y. Zhou*

author keywords: Price-dependent newsvendor; stochastic comparison; demand uncertainty; pricing; emergency supply option
Source: Crossref
Added: February 5, 2020

2013 journal article

Stochastic comparisons in a price-quantity setting firm with uncertain demand and emergency procurement

Journal of Systems Science and Systems Engineering, 22(4), 401–420.

By: M. Xu, X. Xu & Y. Zhou

Source: ORCID
Added: October 7, 2019

2012 journal article

Quantitative high-throughput screening for chemical toxicity in a population-based in vitro model

Toxicological Sciences.

By: E. Lock, N. Abdo, R. Huang, M. Xia, O. Kosyk, S. O’Shea, Y. Zhou, A. Sedykh ...

Source: ORCID
Added: October 7, 2019

2012 journal article

Simple and accurate trend tests using a permutation approximation

By: Y. Zhou & F. Wright

Source: ORCID
Added: October 7, 2019

2012 journal article

Single Nucleotide Polymorphism (SNP) Detection and Genotype Calling from Massively Parallel Sequencing (MPS) Data

Statistics in Biosciences, 1–23.

By: Y. Li, W. Chen, E. Liu & Y. Zhou

Source: ORCID
Added: October 7, 2019

2012 journal article

Supplementary material for: Empirical Pathway Analysis, Without Permutation

By: Y. Zhou, W. Barry, F. Wright & C. Hill

Source: ORCID
Added: October 7, 2019

2011 journal article

A powerful and flexible approach to the analysis of RNA sequence count data

Bioinformatics, 27(19), 2672–2678.

By: Y. Zhou, K. Xia & F. Wright

Source: ORCID
Added: October 7, 2019

2011 journal article

seeQTL: a searchable database for human eQTLs

Bioinformatics, 28(3), 451–452.

By: K. Xia, A. Shabalin, S. Huang, V. Madar, Y. Zhou, W. Wang, F. Zou, W. Sun, P. Sullivan, F. Wright

Source: ORCID
Added: October 7, 2019

2009 journal article

On the finiteness of the cone spectrum of certain linear transformations on Euclidean Jordan algebras

Linear Algebra and Its Applications, 431(5-7), 772–782.

By: Y. Zhou* & M. Gowda*

author keywords: Euclidean Jordan algebra; Symmetric cone; Cone spectrum; Z-transformation; Quadratic representation
Sources: Crossref, ORCID
Added: October 7, 2019

journal article

Medical Center, New York, NY 10032, USA. 18Wellcome Trust Centre for Human Genetics Research, Nuffield Department of Clinical Medicine, University of Oxford, Oxford OX3 7BN, UK. 19Department of Computer Science, Stanford University, Stanford, CA 94305, USA. 20Department of Computer Science, Johns

Yi-Hui Zhou

Source: ORCID
Added: October 7, 2019

journal article

Significant Chlorinated Paraffin Concentrations Together with Traditional and Emerging Pollutants in Wildlife from a Yangtze River Delta Area Site

Yin, G., Zhou, Y., Asplund, L., Athanassiadis, I., Wideqvist, U., Qiu, Y., … Bergman, Å.

By: G. Yin, Y. Zhou, L. Asplund, I. Athanassiadis, U. Wideqvist, Y. Qiu, Z. Zhu, J. Zhao, Å. Bergman

Source: ORCID
Added: October 7, 2019

journal article

Supplemental Material Physiologically Based Pharmacokinetic (PBPK) Modeling of Interstrain Variability in Trichloroethylene Metabolism in the Mouse

Yi-Hui Zhou

Source: ORCID
Added: October 7, 2019

journal article

Supplementary Appendix to: Hypothesis testing at the extremes: fast and robust association for high-throughput data

Zhou, Y.-H., & Wright, F. A.

By: Y. Zhou & F. Wright

Source: ORCID
Added: October 7, 2019

journal article

on July 8, 2015

DeLuca, D. S., Segrè, A. V., Sullivan, T. J., Young, T. R., Gelfand, E. T., Trowbridge, C. A., … others.

By: D. DeLuca, A. Segrè, T. Sullivan, T. Young, E. Gelfand, C. Trowbridge, J. Maller, T. Tukiainen ...

Source: ORCID
Added: October 7, 2019

Employment

Updated: January 21st, 2023 09:08

2018 - present

North Carolina State University Raleigh, North Carolina, US
Associate Professor Biological Sciences

2018 - present

NC State University Bioinformatics Research Center Raleigh, NC, US
Associate Director

Education

Updated: August 31st, 2018 19:20

2007 - 2011

University of North Carolina at Chapel Hill Chapel Hill, NC, US
PhD Biostatitsics

Funding History

Funding history based on the linked ORCID record. Updated: January 3rd, 2024 13:54

grant September 1, 2022 - August 31, 2025
A tiered hybrid experimental-computational strategy for rapid risk assessment of complex environmental mixtures using novel analytical and toxicological methods
Environmental Protection Agency
grant June 16, 2015 - April 30, 2018
Permutation Approximations for Next Generation Association
National Human Genome Research Institute
grant June 1, 2015 - May 31, 2019
A Pipeline for in vitro-to-in vivo Extrapolation, Population Modeling,& Prioritization
Environmental Protection Agency

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