Hongyuan Cao

ORCID: 0000-0001-5752-732X
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About
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Research Areas
  • Statistical Methods and Inference
  • Gene expression and cancer classification
  • Statistical Methods and Bayesian Inference
  • Statistical Methods in Clinical Trials
  • Bayesian Methods and Mixture Models
  • Head and Neck Cancer Studies
  • Single-cell and spatial transcriptomics
  • Advanced MRI Techniques and Applications
  • Advanced Causal Inference Techniques
  • Bioinformatics and Genomic Networks
  • Optimal Experimental Design Methods
  • Genetic Associations and Epidemiology
  • Viral gastroenteritis research and epidemiology
  • Statistical Distribution Estimation and Applications
  • Cancer Diagnosis and Treatment
  • Radiomics and Machine Learning in Medical Imaging
  • Voice and Speech Disorders
  • Reliability and Agreement in Measurement
  • Bladder and Urothelial Cancer Treatments
  • Genomic variations and chromosomal abnormalities
  • Eosinophilic Esophagitis
  • Probability and Risk Models
  • Molecular Biology Techniques and Applications
  • Acute Kidney Injury Research
  • Tracheal and airway disorders

Jilin University
2018-2025

Florida State University
2020-2025

Universidad del Noreste
2025

Zigong First People's Hospital
2025

Woodward (United States)
2021-2024

Rongcheng City People's Hospital
2022

Xiangtan University
2021

Gunma University
2021

Shanghai Maritime University
2021

Shaanxi Normal University
2021

Abstract Motivation Millions of protein sequences have been generated by numerous genome and transcriptome sequencing projects. However, experimentally determining the function proteins is still a time consuming, low-throughput, expensive process, leading to large sequence-function gap. Therefore, it important develop computational methods accurately predict fill Even though many developed use as input function, much fewer leverage structures in prediction because there was lack accurate for...

10.1093/bioinformatics/btad208 article EN cc-by Bioinformatics 2023-06-01

Staphyococcus aureus frequently causes recurrent skin and soft-tissue infection (SSTI). In the pediatric population, elevated serum antibody targeting S. α-toxin is correlated with a reduced incidence of SSTI. Using novel model SSTI, we demonstrated that expression during primary increases severity disease. Antagonism by either dominant-negative toxin mutant or small molecule inhibitor receptor ADAM10 reduces reinfection abscess severity. Early neutralization activity SSTI therefore offers...

10.1093/infdis/jiu223 article EN The Journal of Infectious Diseases 2014-04-16

Abstract Motivation Next generation sequencing technologies have enabled the study of human microbiome through direct microbial DNA, resulting in an enormous amount data. One unique characteristic data is phylogenetic tree that relates all bacterial species. Closely related species a tendency to exhibit similar relationship with environment or disease. Thus, incorporating information can potentially improve detection power for microbiome-wide association studies, where hundreds thousands...

10.1093/bioinformatics/btx311 article EN Bioinformatics 2017-05-12

We study the transformed hazards model with time-dependent covariates observed intermittently for censored outcome. Existing work assumes availability of whole trajectory covariates, which is unrealistic. propose combining kernel-weighted log-likelihood and sieve maximum estimation to conduct statistical inference. The method robust easy implement. establish asymptotic properties proposed estimator contribute a rigorous theoretical framework general M-estimators. Numerical studies...

10.1080/01621459.2025.2476781 article EN Journal of the American Statistical Association 2025-03-13

Abstract Purpose: To establish a cohort of high-risk women undergoing intensive surveillance for breast cancer. Experimental Design: We performed dynamic contrast-enhanced MRI every 6 months in conjunction with annual mammography (MG). Eligible participants had cumulative lifetime cancer risk ≥20% and/or tested positive pathogenic mutation known susceptibility gene. Results: Between 2004 and 2016, we prospectively enrolled 295 women, including 157 carriers (75 BRCA1, 61 BRCA2); participants'...

10.1158/1078-0432.ccr-18-0200 article EN Clinical Cancer Research 2018-08-28

BackgroundWe utilized data from the Health Effects of Arsenic Longitudinal Study (HEALS) in Araihazar, Bangladesh, to evaluate association steamed rice consumption with urinary total arsenic concentration and arsenical skin lesions overall study cohort (N=18,470) a subset available metabolite (N=4,517). MethodsGeneral linear models standardized beta coefficients were used estimate associations between metabolites. Logistic regression prevalence odds ratios (ORs) their 95% confidence...

10.1371/journal.pone.0080691 article EN cc-by PLoS ONE 2013-11-15

Highly loaded rotor systems, such as those in aero-engines, exhibit complex vibration behaviors due to the discontinuities bolted structure, which generate friction at connection interfaces. This leads nonlinear dynamics for system. A dynamic model of system is established using finite element theoretical Methods, incorporating connections around entire circumference. The procedure assessing stick-slip states bolts different positions during motion provided. study examines phenomenon...

10.2139/ssrn.5084523 preprint EN 2025-01-01

We study the multiplicative hazards model with intermittently observed longitudinal covariates and time-varying coefficients. For such models, existing ad hoc approach, as last value carried forward, is biased. propose a kernel weighting approach to get an unbiased estimation of nonparametric coefficient function establish asymptotic normality for any fixed time point. Furthermore, we construct simultaneous confidence band examine overall magnitude variation. Simulation studies support our...

10.1080/10485252.2025.2466649 article EN Journal of nonparametric statistics 2025-02-19

<sec><title>BACKGROUND</title>To evaluate currently recommended dosage using the population pharmacokinetics (PK) of bedaquiline (BDQ), clofazimine, cycloserine, linezolid (LZD) and moxifloxacin (MFX) in patients with multidrug-resistant TB (MDR-TB) type II diabetes mellitus (DM).</sec><sec><title>METHODS</title>A prospective multi-centre PK study was conducted China between 2016 2019. Population models were developed nonlinear mixed-effect analyses based on blood samples collected by rich...

10.5588/ijtld.24.0481 article EN The International Journal of Tuberculosis and Lung Disease 2025-03-29

Abstract Data obtained from high throughput experiments often exhibit complex dependencies among features. These arise various sources, including genetic correlation, batch effects, technical replicates, and shared biological pathways. Ignoring these can lead to inflated false discovery rate (FDR), reduced statistical power, biased interpretations. Properly accounting for is crucial accurate detection of signals. We propose a new method called Analysis Correlated Expressions (ACE) compare...

10.1093/genetics/iyaf060 article EN Genetics 2025-03-28

Objectives: To assess the prevalence of psychological symptoms (depression, anxiety) among Chinese medical students and to find possible relationships between social relationships. Methods: A sample 10,140 was investigated with a structured questionnaire, that included Beck Depression Inventory, Anxiety Social Support Rating Scale, Family APGAR Index (adaptability, partnership, growth, affection, resolve). Results: The present study revealed 16.8% suffered from depressive 14.1% anxiety...

10.2190/pm.42.1.c article EN The International Journal of Psychiatry in Medicine 2011-07-01
Richard C. Gerkin Kathrin Ohla Maria G. Veldhuizen Paule V. Joseph Christine E Kelly and 95 more Alyssa J. Bakke Kimberley E. Steele Robert Pellegrino Marta Yanina Pepino Cédric Bouysset Graciela M Soler Veronica Pereda‐Loth Michele Dibattista Keiland W Cooper Ilja Croijmans Antonella Di Pizio Mehmet Hakan Özdener Anna D’Errico Florian Ph. S. Fischmeister María Adelaida Bock Paloma Paloma Domínguez Hüseyin Yanık Sanne Boesveldt Jasper H. B. de Groot Caterina Dinnella Jessica Freiherr Tatiana K. Laktionova Sajidxa Mariño Erminio Monteleone Alexia Nunez-Parra Olagunju Abdulrahman Marina Ritchie Thierry Thomas‐Danguin Julie Walsh‐Messinger Rashid Al Abri Rafieh Alizadeh Emmanuelle Bignon Elena Cantone Maria Paola Cecchini Jingguo Chen María Dolors Guárdia Kara C. Hoover Noam Karni Marta Navarro Alissa A Nolden Patricia Portillo Mazal Nicholas R. Rowan Atiye Sarabi-Jamab Nicholas Archer Ben Chen Elizabeth Di Valerio Emma L. Feeney Johannes Frasnelli Mackenzie E. Hannum Claire Hopkins Hadar Klein Cyril Mignot Carla Mucignat‐Caretta Yuping Ning Elif Öztürk Mei Peng Özlem Saatçi Elizabeth Sell Carol H. Yan Raul Alfaro Cinzia Cecchetto Gérard Coureaud Riley Herriman Jeb M. Justice Pavan Kumar Kaushik Sachiko Koyama Jonathan B. Overdevest Nicola Pirastu Vicente A Ramirez S. Craig Roberts Barry C. Smith Hongyuan Cao Hong Wang Patrick Balungwe Marius Baguma Maria G. Veldhuizen Michael C. Farruggia Antonella Di Pizio Mehmet Hakan Özdener Alexander Wieck Fjældstad Cailu Lin Mari Sandell Preet Bano Singh V. Evelyn Brindha Shannon B. Olsson Luís R. Saraiva Gaurav Ahuja Mohammed K Alwashahi Surabhi Bhutani Anna D’Errico Marco Aurélio Fornazieri Jérôme Golebiowski Liang‐Dar Hwang Lina Öztürk Eugeni Roura

COVID-19 has heterogeneous manifestations, though one of the most common symptoms is a sudden loss smell (anosmia or hyposmia). We investigated whether olfactory reliable predictor COVID-19. This preregistered, cross-sectional study used crowdsourced questionnaire in 23 languages to assess individuals self-reporting recent respiratory illness. quantified changes chemosensory abilities during course illness using 0-100 visual analog scales (VAS) for participants reporting positive (C19+;...

10.1101/2020.07.22.20157263 preprint EN cc-by-nc medRxiv (Cold Spring Harbor Laboratory) 2020-07-26

Millions of protein sequences have been generated by numerous genome and transcriptome sequencing projects. However, experimentally determining the function proteins is still a time consuming, low-throughput, expensive process, leading to large sequence-function gap. Therefore, it important develop computational methods accurately predict fill Even though many developed use as input function, much fewer leverage structures in prediction because there was lack accurate for most until...

10.1101/2023.01.17.524477 preprint EN cc-by-nd bioRxiv (Cold Spring Harbor Laboratory) 2023-01-20

In single hypothesis testing, power is a nondecreasing function of Type I error rate; hence it desirable to test at the nominal level exactly achieve optimal power. The puzzle arises from fact that for multiple testing under false discovery rate paradigm, such monotonic relationship may not hold. particular, exact control lead less powerful procedure if statistic fails fulfil monotone likelihood ratio condition. this article, we identify different scenarios wherein condition and give caveats...

10.1093/biomet/ast001 article EN Biometrika 2013-03-26

Regression analysis of censored failure observations via the proportional hazards model permits time-varying covariates which are observed at death times. In practice, such longitudinal typically sparse and only measured infrequent irregularly spaced follow-up Full likelihood analyses joint models for survival data impose stringent modelling assumptions difficult to verify in practice complicated both inferentially computationally. this article, a simple kernel weighted score function is...

10.1080/01621459.2014.957289 article EN Journal of the American Statistical Association 2014-09-25

Journal Article Changepoint estimation: another look at multiple testing problems Get access Hongyuan Cao, Cao Department of Statistics, University Missouri-Columbia, Columbia, Missouri 65211, U.S.A. caohong@missouri.edu Search for other works by this author on: Oxford Academic Google Scholar Wei Biao Wu Chicago, Illinois 60637, U.S.A., wbwu@uchicago.edu Biometrika, Volume 102, Issue 4, December 2015, Pages 974–980, https://doi.org/10.1093/biomet/asv031 Published: 24 July 2015 history...

10.1093/biomet/asv031 article EN Biometrika 2015-07-24

BACKGROUND Although black patients experience worse outcomes after treatment for squamous cell carcinoma of the head and neck (HNSCC), these conclusions were based on populations in which blacks comprised a minority patients. The objective current study was to determine impact race with HNSCC who received radiotherapy at an institution majority METHODS In this retrospective cohort study, authors reviewed 366 236 white had nonmetastatic they between 1990 2012. primary outcome measures...

10.1002/cncr.28417 article EN Cancer 2013-10-10

In clinical studies, it is often of interest to see the diagnostic agreement among clinicians on certain symptoms. Previous work has focused between two under different conditions or multiple one condition. Few have discussed study with a design where examine same group patients conditions. this paper, we use intraclass kappa statistic for assessing nominal scale such design. We derive an explicit variance formula difference correlated statistics and conduct hypothesis testing equality...

10.1002/bimj.201500029 article EN Biometrical Journal 2016-02-18

Background: Although the pentavalent rotavirus vaccine was highly efficacious against diarrhea in clinical trials, effectiveness of under field conditions developing world is unclear. In October 2006, Nicaragua became first nation to implement universal infant immunization with vaccine. To assess effect program, we examined incidence episodes between 2003 and 2009 among children state León, Nicaragua. Methods: We extracted data on from health ministry records. used scaled Poisson regression...

10.1097/inf.0b013e3181f87ffe article EN The Pediatric Infectious Disease Journal 2010-09-25
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