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Xing Qiu, Ph.D.


Showing all 74 journal articles & 2 books available

Journal Articles

Sonawane AR, Tian L, Chu CY, Qiu X, Wang L, Holden-Wiltse J, Grier A, Gill SR, Caserta MT, Falsey AR, Topham DJ, Walsh EE, Mariani TJ, Weiss ST, Silverman EK, Glass K, Liu YY. "Microbiome-Transcriptome Interactions Related to Severity of Respiratory Syncytial Virus Infection." Scientific reports.. 2019 Sep 25; 9(1):13824. Epub 2019 Sep 25.

Caserta MT, Yang H, Bandyopadhyay S, Qiu X, Gill SR, Java J, McDavid A, Falsey AR, Topham DJ, Holden-Wiltse J, Scheible K, Pryhuber G. "Measuring the Severity of Respiratory Illness in the First 2 Years of Life in Preterm and Term Infants." The Journal of pediatrics.. 2019 Jul 31; Epub 2019 Jul 31.

Walsh EE, Mariani TJ, Chu C, Grier A, Gill SR, Qiu X, Wang L, Holden-Wiltse J, Corbett A, Thakar J, Benoodt L, McCall MN, Topham DJ, Falsey AR, Caserta MT. "Aims, Study Design, and Enrollment Results From the Assessing Predictors of Infant Respiratory Syncytial Virus Effects and Severity Study." JMIR research protocols. 2019 Jun 6; 8(6):e12907. Epub 2019 Jun 06.

Zhang Y, Bandyopadhyay G, Topham DJ, Falsey AR, Qiu X. "Highly efficient hypothesis testing methods for regression-type tests with correlated observations and heterogeneous variance structure." BMC bioinformatics.. 2019 Apr 15; 20(1):185. Epub 2019 Apr 15.

Wu, L., Qiu, X., Yuan, Y.X., and Wu, H. "Parameter Estimation and Variable Selection for Big systems of High-Dimensional Linear ordinary Differential Equations: A Matrix-Based Approach". Journal of American Statistical Association. 2019; : in press.

Singh, M.; Kotla, S.; Le, N.T.; Ko, K.; Heo, K.S.; Wang, Y.; Fujii, Y.; Vu, H.; McBeath, E.; Thomas, T.; Gi, Y.J.; Tao, Y.; Medina, J.; Taunton, J.; Carson, N.; Dogra, V.; Doyley, M.; Tyrell, A.; Lu, W.; Qiu, X.; Stirpe, N.; Gates, K.; Hurley, C.; Fujiwara, K.; Maggirwar, S.; Schifitto, G.; Abe, J. "Senescent phenotype induced by p90RSK-NRF2 signaling sensitizes monocytes and macrophages to oxidative stress in HIV+ individuals: implications for atherogenesis". Circulation. 2019; : in press.

Grier A, McDavid A, Wang B, Qiu X, Java J, Bandyopadhyay S, Yang H, Holden-Wiltse J, Kessler HA, Gill AL, Huyck H, Falsey AR, Topham DJ, Scheible KM, Caserta MT, Pryhuber GS, Gill SR. "Neonatal gut and respiratory microbiota: coordinated development through time and space." Microbiome.. 2018 Oct 26; 6(1):193. Epub 2018 Oct 26.

Walsh EE, Wang L, Falsey AR, Qiu X, Corbett A, Holden-Wiltse J, Mariani TJ, Topham DJ, Caserta MT. "Virus-Specific Antibody, Viral Load, and Disease Severity in Respiratory Syncytial Virus Infection." The Journal of infectious diseases.. 2018 Jun 20; 218(2):208-217.

Raudenbush B, Frost C, Okafor R, Chen C, Qui X, Mesfin A. "Publication Rate of Podium Presentations From the North American Spine Society Annual Meetings." Global spine journal.. 2018 May 0; 8(3):273-278. Epub 2017 Jun 23.

Zhang, Y.; Thakar, J.; Topham, D.J.; Falsey, A.R.; Zeng, D.; Qiu, X. "Some equivalence relationships of regularized regressions". Mathematics for Applications. 2018; 7: 3-10.

Chen, G.; Ramírez, J.C.; Deng, N.; Qiu, X.; Wu, C.; Zheng, W.J.; Wu, H. "Restructured GEO: Restructuring Gene Expression Omnibus metadata for genome dynamics analysis". Database. 2018; .

Shannon, I.; White, C.L.; Murphy, A.; Qiu, X.; Treanor, J.J.; and Nayak, J.L. "Differences in the influenza-specific CD4 T cell immunodominance hierarchy and functional potential between children and young adults". Scientific Reports. 2018; .

Abidin AZ, DSouza AM, Nagarajan MB, Wang L, Qiu X, Schifitto G, Wismüller A. "Alteration of brain network topology in HIV-associated neurocognitive disorder: A novel functional connectivity perspective." NeuroImage. Clinical.. 2018 17:768-777. Epub 2017 Dec 07.

Liu Y, Zhang J, Qiu X. "Super-delta: a new differential gene expression analysis procedure with robust data normalization." BMC bioinformatics.. 2017 Dec 21; 18(1):582. Epub 2017 Dec 21.

Grier A, Qiu X, Bandyopadhyay S, Holden-Wiltse J, Kessler HA, Gill AL, Hamilton B, Huyck H, Misra S, Mariani TJ, Ryan RM, Scholer L, Scheible KM, Lee YH, Caserta MT, Pryhuber GS, Gill SR. "Impact of prematurity and nutrition on the developing gut microbiome and preterm infant growth." Microbiome.. 2017 Dec 11; 5(1):158. Epub 2017 Dec 11.

Sanders JO, Qiu X, Lu X, Duren DL, Liu RW, Dang D, Menendez ME, Hans SD, Weber DR, Cooperman DR. "The Uniform Pattern of Growth and Skeletal Maturation during the Human Adolescent Growth Spurt." Scientific reports.. 2017 Dec 1; 7(1):16705. Epub 2017 Dec 01.

Liu X, Mangla R, Tian W, Qiu X, Li D, Walter KA, Ekholm S, Johnson MD. "The preliminary radiogenomics association between MR perfusion imaging parameters and genomic biomarkers, and their predictive performance of overall survival in patients with glioblastoma." Journal of neuro-oncology.. 2017 Dec 0; 135(3):553-560. Epub 2017 Sep 09.

Mariani TJ, Qiu X, Chu CY, Wang L, Thakar J, Holden-Wiltse J, Corbett A, Topham DJ, Falsey AR, Caserta MT, Walsh EE. "Association of Dynamic Changes in the CD4 T-Cell Transcriptome With Disease Severity During Primary Respiratory Syncytial Virus Infection in Young Infants." The Journal of infectious diseases.. 2017 Nov 15; 216(8):1027-1037.

Connor R, Jones LD, Qiu X, Thakar J, Maggirwar SB. "Frontline Science: c-Myc regulates P-selectin glycoprotein ligand-1 expression in monocytes during HIV-1 infection." Journal of leukocyte biology.. 2017 Oct 0; 102(4):953-964. Epub 2017 Jun 29.

Zhuang Y, Qiu X, Wang L, Ma Q, Mapstone M, Luque A, Weber M, Tivarus M, Miller E, Arduino RC, Zhong J, Schifitto G. "Combination antiretroviral therapy improves cognitive performance and functional connectivity in treatment-naïve HIV-infected individuals." Journal of neurovirology.. 2017 Oct 0; 23(5):704-712. Epub 2017 Aug 08.

Zhang Y, Topham DJ, Thakar J, Qiu X. "FUNNEL-GSEA: FUNctioNal ELastic-net regression in time-course gene set enrichment analysis." Bioinformatics.. 2017 Jul 1; 33(13):1944-1952.

Caserta MT, Qiu X, Tesini B, Wang L, Murphy A, Corbett A, Falsey AR, Holden-Wiltse J, Walsh EE. "Development of a Global Respiratory Severity Score for Respiratory Syncytial Virus Infection in Infants." The Journal of infectious diseases.. 2017 Mar 1; 215(5):750-756.

Alam S, Chan C, Qiu X, Shannon I, White CL, Sant AJ, Nayak JL. "Selective pre-priming of HA-specific CD4 T cells restores immunological reactivity to HA on heterosubtypic influenza infection." PloS one.. 2017 12(5):e0176407. Epub 2017 May 11.

Chen I, Kelkar YD, Gu Y, Zhou J, Qiu X, Wu H. "High-dimensional linear state space models for dynamic microbial interaction networks." PloS one.. 2017 12(11):e0187822. Epub 2017 Nov 15.

Maceroli M, Nikkel LE, Mahmood B, Ketz JP, Qiu X, Ciminelli J, Messing S, Elfar JC. "Total Hip Arthroplasty for Femoral Neck Fractures: Improved Outcomes With Higher Hospital Volumes." Journal of orthopaedic trauma.. 2016 Nov 0; 30(11):597-604.

Sun X, Hu F, Wu S, Qiu X, Linel P, Wu H. "Controllability and stability analysis of large transcriptomic dynamic systems for host response to influenza infection in human." Infectious Disease Modelling.. 2016 Oct 0; 1(1):52-70. Epub 2016 Sep 13.

Chu CY, Qiu X, Wang L, Bhattacharya S, Lofthus G, Corbett A, Holden-Wiltse J, Grier A, Tesini B, Gill SR, Falsey AR, Caserta MT, Walsh EE, Mariani TJ. "The Healthy Infant Nasal Transcriptome: A Benchmark Study." Scientific reports.. 2016 Sep 23; 6:33994. Epub 2016 Sep 23.

Liu B, Qiu X, Zhu T, Tian W, Hu R, Ekholm S, Schifitto G, Zhong J. "Improved spatial regression analysis of diffusion tensor imaging for lesion detection during longitudinal progression of multiple sclerosis in individual subjects." Physics in medicine and biology.. 2016 Mar 21; 61(6):2497-513. Epub 2016 Mar 07.

Shen S, Li J, Hilchey S, Shen X, Tu C, Qiu X, Ng A, Ghaemmaghami S, Wu H, ZAnd M, Qu J. "Ion-Current-Based Temporal Proteomic Profiling of Influenza-A-Virus-Infected Mouse Lungs Revealed Underlying Mechanisms of Altered Integrity of the Lung Microvascular Barrier." Journal of proteome research.. 2016 Feb 5; 15(2):540-53. Epub 2016 Jan 08.

Li, H.; Qiu, X. "Moments of Distance from a Vertex to a Random Point within Arbitrary Triangles". Mathematical Problems in Engineering. 2016; : 8371750.

Liu B, Qiu X, Zhu T, Tian W, Hu R, Ekholm S, Schifitto G, Zhong J. "Spatial regression analysis of serial DTI for subject-specific longitudinal changes of neurodegenerative disease." NeuroImage. Clinical.. 2016 11:291-301. Epub 2016 Feb 21.

Barrett ES, Velez M, Qiu X, Chen SR. "Reducing Prenatal Phthalate Exposure Through Maternal Dietary Changes: Results from a Pilot Study." Maternal and child health journal.. 2015 Sep 0; 19(9):1936-42.

Qiu, X.; Wu, S.; Wu, H. "A new information criterion based on Langevin mixture distribution for clustering circular data with application to time course genomic data". Statistica Sinica. 2015; 25: 1459-1476.

Kiebala M, Singh MV, Piepenbrink MS, Qiu X, Kobie JJ, Maggirwar SB. "Platelet Activation in Human Immunodeficiency Virus Type-1 Patients Is Not Altered with Cocaine Abuse." PloS one.. 2015 10(6):e0130061. Epub 2015 Jun 15.

Qiu X, Wu S, Hilchey SP, Thakar J, Liu ZP, Welle SL, Henn AD, Wu H, Zand MS. "Diversity in Compartmental Dynamics of Gene Regulatory Networks: The Immune Response in Primary Influenza A Infection in Mice." PloS one.. 2015 10(9):e0138110. Epub 2015 Sep 28.

Smolock EM, Burke RM, Wang C, Thomas T, Batchu SN, Qiu X, Zettel M, Fujiwara K, Berk BC, Korshunov VA. "Intima modifier locus 2 controls endothelial cell activation and vascular permeability." Physiological genomics.. 2014 Sep 1; 46(17):624-33. Epub 2014 Jul 01.

Heo KS, Cushman HJ, Akaike M, Woo CH, Wang X, Qiu X, Fujiwara K, Abe J. "ERK5 activation in macrophages promotes efferocytosis and inhibits atherosclerosis." Circulation.. 2014 Jul 8; 130(2):180-91. Epub 2014 Apr 28.

Chen, S.R.; Barrett, E.; Velez, M.; Conn, K.; Heinert, S.; Qiu, X. "Using the health belief model to illustrate factors that influence risk assessment during pregnancy and implications for prenatal education about endocrine disruptors". Policy, Futures, and Education. 2014; 12(7): 961-974.

Wu S, Liu ZP, Qiu X, Wu H. "Modeling genome-wide dynamic regulatory network in mouse lungs with influenza infection using high-dimensional ordinary differential equations." PloS one.. 2014 9(5):e95276. Epub 2014 May 06.

Qiu X, Hu R, Wu Z. "Evaluation of bias-variance trade-off for commonly used post-summarizing normalization procedures in large-scale gene expression studies." PloS one.. 2014 9(6):e99380. Epub 2014 Jun 18.

Zhu T, Hu R, Tian W, Ekholm S, Schifitto G, Qiu X, Zhong J. "SPatial REgression Analysis of Diffusion tensor imaging (SPREAD) for longitudinal progression of neurodegenerative disease in individual subjects." Magnetic resonance imaging.. 2013 Dec 0; 31(10):1657-67. Epub 2013 Oct 05.

Qiu X, Wu H, Hu R. "The impact of quantile and rank normalization procedures on the testing power of gene differential expression analysis." BMC bioinformatics.. 2013 Apr 11; 14:124. Epub 2013 Apr 11.

Hu, R.; Qiu, X. "A Geometric Illustration of Differential Gene Association Analysis for Microarray Data". Journal of Unified Statistical Techniques. 2013; 1(1).

Henn AD, Wu S, Qiu X, Ruda M, Stover M, Yang H, Liu Z, Welle SL, Holden-Wiltse J, Wu H, Zand MS. "High-resolution temporal response patterns to influenza vaccine reveal a distinct human plasma cell gene signature." Scientific reports.. 2013 3:2327.

Smolock EM, Korshunov VA, Glazko G, Qiu X, Gerloff J, Berk B. "Ribosomal protein L17, RpL17, is an inhibitor of vascular smooth muscle growth and carotid intima formation." Circulation.. 2012 Nov 13; 126(20):2418-27. Epub 2012 Oct 12.

Liu X, Tian W, Qiu X, Li J, Thomson S, Li L, Wang HZ. "Correlation analysis of quantitative diffusion parameters in ipsilateral cerebral peduncle during Wallerian degeneration with motor function outcome after cerebral ischemic stroke." Journal of neuroimaging : official journal of the American Society of Neuroimaging.. 2012 Jul 0; 22(3):255-60. Epub 2011 Jun 23.

Liu X, Tian W, Li L, Kolar B, Qiu X, Chen F, Dogra VS. "Hyperintensity on diffusion weighted image along ipsilateral cortical spinal tract after cerebral ischemic stroke: a diffusion tensor analysis." European journal of radiology.. 2012 Feb 0; 81(2):292-7. Epub 2011 Jan 17.

Henn AD, Laski M, Yang H, Welle S, Qiu X, Miao H, Barry CT, Wu H, Zand MS. "Functionally Distinct Subpopulations of CpG-Activated Memory B Cells." Scientific reports.. 2012 2:345. Epub 2012 Mar 30.

Groom L, Muldoon SM, Tang ZZ, Brandom BW, Bayarsaikhan M, Bina S, Lee HS, Qiu X, Sambuughin N, Dirksen RT. "Identical de novo mutation in the type 1 ryanodine receptor gene associated with fatal, stress-induced malignant hyperthermia in two unrelated families." Anesthesiology.. 2011 Nov 0; 115(5):938-45.

Needham M, Hu R, Dwarkadas S, Qiu X. "Hierarchical parallelization of gene differential association analysis." BMC bioinformatics.. 2011 Sep 21; 12:374. Epub 2011 Sep 21.

Hu Y, Bandla S, Godfrey TE, Tan D, Luketich JD, Pennathur A, Qiu X, Hicks DG, Peters JH, Zhou Z. "HER2 amplification, overexpression and score criteria in esophageal adenocarcinoma." Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc.. 2011 Jul 0; 24(7):899-907. Epub 2011 Apr 01.

Zhu T, Hu R, Qiu X, Taylor M, Tso Y, Yiannoutsos C, Navia B, Mori S, Ekholm S, Schifitto G, Zhong J. "Quantification of accuracy and precision of multi-center DTI measurements: a diffusion phantom and human brain study." NeuroImage.. 2011 Jun 1; 56(3):1398-411. Epub 2011 Feb 18.

Sanders JO, Howell J, Qiu X. "Comparison of the Paley method using chronological age with use of skeletal maturity for predicting mature limb length in children." The Journal of bone and joint surgery. American volume.. 2011 Jun 1; 93(11):1051-6.

Liu X, Tian W, Kolar B, Yeaney GA, Qiu X, Johnson MD, Ekholm S. "MR diffusion tensor and perfusion-weighted imaging in preoperative grading of supratentorial nonenhancing gliomas." Neuro-oncology.. 2011 Apr 0; 13(4):447-55. Epub 2011 Feb 04.

Polomsky M, Hu R, Sepesi B, O'Connor M, Qui X, Raymond DP, Litle VR, Jones CE, Watson TJ, Peters JH. "A population-based analysis of emergent vs. elective hospital admissions for an intrathoracic stomach." Surgical endoscopy.. 2010 Jun 0; 24(6):1250-5. Epub 2009 Dec 24.

Sepesi B, Watson TJ, Zhou D, Polomsky M, Litle VR, Jones CE, Raymond DP, Hu R, Qiu X, Peters JH. "Are endoscopic therapies appropriate for superficial submucosal esophageal adenocarcinoma? An analysis of esophagectomy specimens." Journal of the American College of Surgeons.. 2010 Apr 0; 210(4):418-27.

Hu R, Qiu X, Glazko G. "A new gene selection procedure based on the covariance distance." Bioinformatics.. 2010 Feb 1; 26(3):348-54. Epub 2009 Dec 08.

Will RE, Stokes IA, Qiu X, Walker MR, Sanders JO. "Cobb angle progression in adolescent scoliosis begins at the intervertebral disc." Spine.. 2009 Dec 1; 34(25):2782-6.

Sepesi B, Raymond DP, Polomsky M, Watson TJ, Litle VR, Jones CE, Hu R, Qiu X, Peters JH. "Does the value of PET-CT extend beyond pretreatment staging? An analysis of survival in surgical patients with esophageal cancer." Journal of gastrointestinal surgery : official journal of the Society for Surgery of the Alimentary Tract.. 2009 Dec 0; 13(12):2121-7. Epub 2009 Oct 01.

Nott SL, Huang Y, Li X, Fluharty BR, Qiu X, Welshons WV, Yeh S, Muyan M. "Genomic responses from the estrogen-responsive element-dependent signaling pathway mediated by estrogen receptor alpha are required to elicit cellular alterations." The Journal of biological chemistry.. 2009 May 29; 284(22):15277-88. Epub 2009 Mar 24.

Hu R, Qiu X, Glazko G, Klebanov L, Yakovlev A. "Detecting intergene correlation changes in microarray analysis: a new approach to gene selection." BMC bioinformatics.. 2009 Jan 15; 10:20. Epub 2009 Jan 15.

Li X, Nott SL, Huang Y, Hilf R, Bambara RA, Qiu X, Yakovlev A, Welle S, Muyan M. "Gene expression profiling reveals that the regulation of estrogen-responsive element-independent genes by 17 beta-estradiol-estrogen receptor beta is uncoupled from the induction of phenotypic changes in cell models." Journal of molecular endocrinology.. 2008 May 0; 40(5):211-29.

Klebanov L, Qiu X, Yakovlev A. "Testing differential expression in nonoverlapping gene pairs: a new perspective for the empirical Bayes method." Journal of bioinformatics and computational biology.. 2008 Apr 0; 6(2):301-16.

Wuertzer CA, Sullivan MA, Qiu X, Federoff HJ. "CNS delivery of vectored prion-specific single-chain antibodies delays disease onset." Molecular therapy : the journal of the American Society of Gene Therapy.. 2008 Mar 0; 16(3):481-6. Epub 2008 Jan 08.

Qiu, X. "Discussion of: Treelets - An adaptive multi-scale basis for sparse unordered data". Annals of Applied Statistics. 2008; 2(2): 484-488.

Qiu X, Yakovlev A. "Comments on probabilistic models behind the concept of false discovery rate." Journal of bioinformatics and computational biology.. 2007 Aug 0; 5(4):963-75.

Klebanov L, Qiu X, Welle S, Yakovlev A. "Statistical methods and microarray data." Nature biotechnology.. 2007 Jan 0; 25(1):25-6; author reply 26-7.

Gordon, A.; Glazko, G.; Qiu, X.; Yakovlev, A. "Control of the mean number of false discoveries, Bonferroni and stability of multiple testing". The Annals of Applied Statistics. 2007; 1(1): 179-190.

Qiu X, Yakovlev A. "Some comments on instability of false discovery rate estimation." Journal of bioinformatics and computational biology.. 2006 Oct 0; 4(5):1057-68.

Almudevar A, Klebanov LB, Qiu X, Salzman P, Yakovlev AY. "Utility of correlation measures in analysis of gene expression." NeuroRx : the journal of the American Society for Experimental NeuroTherapeutics.. 2006 Jul 0; 3(3):384-95.

Qiu X, Xiao Y, Gordon A, Yakovlev A. "Assessing stability of gene selection in microarray data analysis." BMC bioinformatics.. 2006 Feb 1; 7:50. Epub 2006 Feb 01.

Qiu X, Brooks AI, Klebanov L, Yakovlev N. "The effects of normalization on the correlation structure of microarray data." BMC bioinformatics.. 2005 May 16; 6:120. Epub 2005 May 16.

Qiu X, Klebanov L, Yakovlev A. "Correlation between gene expression levels and limitations of the empirical bayes methodology for finding differentially expressed genes." Statistical applications in genetics and molecular biology. 2005 4:Article34. Epub 2005 Nov 22.

Qiu, X.; Hong, Y.; Shen, Y. "An Improvement on the concentration-compactness principle". Mathematicae Applicatae Sinica. 2001; 17: 60-67.

Books & Chapters

Chapter Title: High-Dimensional Ordinary Differential Equation Models for Reconstructing Genome-Wide Dynamic Regulatory Networks
Book Title: Topics in Applied Statistics
Author List: Wu, S.; Liu, Z. P.; Qiu, X.; Wu, H.
Published By: Springer2013 in New York

Chapter Title: Gene selection with the delta-sequence method
Book Title: Statistical Methods for Microarray Data Analysis
Author List: Xing Qiu and Lev Klebanov
Published By: Humana Press2012