PEER REVIEWED PUBLICATIONS

1.    Qi Yan, Nianjun Liu, Erick Forno, Glorisa Canino, Juan C. Celedon, Wei Chen. “An integrative association method for omics data based on a modified Fisher’s method with application to childhood asthma”. PLOS Genetics, 2019, https://doi.org/10.1371/journal.pgen.1008142.

2.    M. Ilyas Kamboh*, Kang-Hsien Fan*, Qi Yan*, Joanne C. Beer*, Beth E. Snitz, Xingbin Wang, Chung-Chou H. Chang, F. Yesim Demirci, Eleanor Feingold, Mary Ganguli. “Population-based genome-wide association study of cognitive decline in older adults free of dementia: Identification of a novel locus for the attention domain”. Neurobiology of Aging, 2019, doi: 10.1016/j.neurobiolaging.2019.02.024.

3.    Jordan Mandel, Huabo Wang, Daniel P. Normolle, Wei Chen, Qi Yan, Peter C. Lucas, Panayiotis V. Benos, and Edward V. Prochownik. “Expression patterns of small numbers of transcripts from functionally-related pathways predict survival in multiple cancers”. BMC Cancer, 2019, doi: 10.1186/s12885-019-5851-6.

4.    Kumaravel Rajakumar, Qi Yan, Arshad T. Khalid, Eleanor Feingold, Abbe N. Vallejo, F. Yesim Demirci and M. Ilyas Kamboh. “Gene Expression and Cardiometabolic Phenotypes of Vitamin D-Deficient Overweight and Obese Black Children”. Nutrients, 2019, doi: 10.3390/nu11092016.

5.    Yingda Jiang, Chi-yang Chiu, Qi Yan, Wei Chen, Michael B. Gorin, Yvette P. Conley, M'Hamed Lajmi Lakhal-Chaieb, Richard J. Cook, Christopher I. Amos, Alexander F. Wilson, Joan E. Bailey-Wilson, Francis J. McMahon, Ana I. Vazquez, Ao Yuan, Xiaogang Zhong, Momiao Xiong, Daniel E. Weeks, and Ruzong Fan. “Gene-based Association Testing of Dichotomous Traits with Generalized Linear Mixed Models Using Extended Pedigrees”. 2019, Accepted in JASA.

6.    Erick Forno, Ting Wang, Cancan Qi, Qi Yan, Cheng-Jian Xu, Nadia Boutaoui, Yueh-Ying Han, Daniel Weeks, Yale Jiang, Franziska Rosser, Judith M Vonk, Sharon Brouwer, Edna Acosta-Perez, Angel Colon-Semidey, Maria Alvarez, Glorisa Canino, Gerard H Koppelman, Wei Chen, Juan C Celedon. “DNA methylation in nasal epithelium, atopy, and atopic asthma in children: a genome-wide study”. Lancet Respir Med 2018, doi: 10.1016/S2213-2600(18)30466-1.

7.   Qi Yan, Kwangsik Nho, Jorge L. Del-Aguila, Xingbin Wang, Shannon L. Risacher, Kang-Hsien Fan, Beth E. Snitz, Howard J. Aizenstein, Chester A. Mathis, Oscar L. Lopez, F. Yesim Demirci, Eleanor Feingold, William E. Klunk, Andrew J. Saykin, Carlos Cruchaga, M. Ilyas Kamboh. “Genome-wide association study of brain amyloid deposition as measured by Pittsburgh Compound-B (PiB)-PET imaging”. Accepted in Molecular Psychiatry, 2018, doi: 10.1038/s41380-018-0246-7.

8.    Qi Yan*, Ying Ding*, Yi Liu, Tao Sun, Lars G. Fritsche, Traci Clemons, Rinki Ratnapriya, Michael L. Klein, Richard J. Cook, Yu Liu, Ruzong Fan, Lai Wei, Goncalo R. Abecasis, Anand Swaroop, Emily Y. Chew, AREDS2 research group, Daniel E. Weeks*, Wei Chen*. “Genome-wide Analysis of Disease Progression in Age-related Macular Degeneration”. Human Molecular Genetics, 2018, doi: 10.1093/hmg/ddy002.

9.    Qi Yan, Zhou Fang and Wei Chen. “KMgene: a unified R package for gene-based association analysis for complex traits”. Bioinformatics, 2018, https://doi.org/10.1093/bioinformatics/bty066.

10.    Xiaofeng Wen*, Yu Liu*, Qi Yan*, Minling Liang, Miao Tang, Ran Liu, Jianying Pan, Qiuhui Liu, Tingting Chen, Shixin Guo, Juanran Liang, Lin Lv, Xiaoyan Ding, Chen Zhao, Wei Chen and Lai Wei. “IGFN1 Is Associated with Polypoidal Choroidal Vasculopathy”. *co-first-author. The Journal of Gene Medicine, 2018, doi: 10.1002/jgm.3007.

11.   Zhou Fang, Tianzhou Ma, Gong Tang, Li Zhu, Qi Yan, Ting Wang, Juan C. Celedon, Wei Chen, and George C. Tseng. “Bayesian integrative model for multi-omics data with missingness”. Bioinformatics, 2018, doi:10.1093/bioinformatics/bty775.

12.    Kristin M Burkart, Tamar Sofer, Stephanie J. London, Ani Manichaikul, Fernando P Hartwig, Qi Yan, Maria Soler Artigas, Lydiana Avila, Wei Chen, Sonia Davis Thomas, Alejandro A. Diaz, Ian P Hall, Bernardo L Horta, Robert C Kaplan, Cathy C. Laurie, Ana M Menezes, Jean V. Morrison, Elizabeth C Oelsner, Deepa Rastogi, Stephen S Rich, Manuel Soto-Quiros, Adrienne M. Stilp, Martin D Tobin, Louise V Wain, Juan C. Celedon, R. Graham Barr. “A Genome-Wide Association Study in Hispanics/Latinos Identifies Novel Signals for Lung Function”. Am J Respir Cell Mol Biol (AJRCMB), 2018, doi: 10.1164/rccm.201707-1493OC.

13.    Erick Forno, Ting Wang, Qi Yan, John Brehm, Edna Acosta-Perez, Angel Colon-Semidey, Maria Alvarez, Nadia Boutaoui, Michelle M. Cloutier, John F. Alcorn, Glorisa Canino, Wei Chen, Juan C Celedon. “A multi-omics approach to identify genes associated with childhood asthma risk and morbidity”. Am J Respir Cell Mol Biol (AJRCMB), 2017, doi: 10.1165/rcmb.2017-0002OC.

14.    Ying Ding, Yi Liu, Qi Yan, Lars G. Fritsche, Richard J. Cook, Traci Clemons, Rinki Ratnapriya,   Goncalo R. Abecasis, Anand Swaroop, Emily Y. Chew, Daniel E. Weeks, Wei Chen. “Bivariate Analysis of Age-Related Macular Degeneration Progression Using Genetic Risk Scores”. Genetics, 2017, https://doi.org/10.1534/genetics.116.196998.

15.    Qi Yan, John Brehm, Donglei Hu, Erick Forno, Edna Acosta-Perez, Glorisa Canino, Cathy C. Laurie, Michelle M. Cloutier, Benjamin A. Raby, Wei Chen, Adrienne M. Stilp, Tamar Sofer, Matthew P. Conomos, Kenneth Rice, R. Graham Barr, Esteban G. Burchard, Juan C Celedon. “A meta-analysis of genome-wide association studies of asthma in Puerto Ricans”. European Respiratory Journal, 2017, 49:1601505.

16.    Erick Forno, Joanne Sordillo, John Brehm, Wei Chen, Takis Benos, Qi Yan, Lydiana Avila, Manuel Soto-Quiros, Michelle M Cloutier, Angel Colon-Semidey, Maria Alvarez, Edna Acosta-Perez, Scott T Weiss, Augusto A Litonjua, Glorisa Canino, Juan C Celedon. “Genome-wide interaction study of dust mite allergen 1 on lung function in children with asthma”. Journal of Allergy and Clinical Immunology, 2017, doi: 10.1016/j.jaci.2016.12.967.

17.    Maria I Danila, Vincent A Laufer, Richard J Reynolds, Qi Yan, Nianjun Liu, Peter K Gregersen, Annette Lee, Marlena Kern, Carl D Langefeld, Donna K Arnett, and S Louis Bridges, Jr. “Dense Genotyping of Immune-Related Regions Identifies Loci for Rheumatoid Arthritis Risk and Damage in African Americans”. Molecular Medicine, 2017, 23: 177–187.

18.   Lingyun Wang, Di Pan, Qi Yan, Yuhua Song. “Activation mechanisms of αVβ3 integrin by binding to fibronectin: A computational study”. Protein Science, 2017, doi: 10.1002/pro.3163.

19.   Wei Chen, Ting Wang, Maria Pino-Yanes, Erick Forno, Liming Liang, Qi Yan, Donglei Hu, Daniel E. Weeks, Andrea Baccarelli, Edna Acosta-Perez, Celeste Eng, Yueh-Ying Han, Nadia Boutaoui, Catherine Laprise, Gwyneth A. Davies, Julian M. Hopkin, Miriam F. Moffatt, William O.C.M. Cookson, Glorisa Canino, Esteban G. Burchard, Juan C. Celedon. “An epigenome-wide association study of total serum IgE in Hispanic children”. Journal of Allergy and Clinical Immunology, 2017, doi: 10.1016/j.jaci.2016.11.030.

20.   Qi Yan, Rui Chen, James S. Sutcliffe, Edwin H. Cook, Daniel E. Weeks, Bingshan Li, Wei Chen. “The impact of genotype calling errors on family-based studies”. Scientific Reports, doi: 10.1038/srep28323

21.   Qi Yan, Daniel E. Weeks, Hemant K. Tiwari, Nengjun Yi, Kui Zhang, Guimin Gao, Wan-Yu Lin, Xiang-Yang Lou, Wei Chen, and Nianjun Liu. Rare-Variant Kernel Machine Test for Longitudinal Data from Population and Family Samples”. Human Heredity, 80:126-138.

22.   Qi Yan, Daniel E. Weeks, Juan C. Celedon, Hemant K. Tiwari, Bingshan Li, Xiaojing Wang, Wan-Yu Lin, Wei Chen, and Nianjun Liu. “Associating Multivariate Quantitative Phenotypes with Genetic Variants in Family Samples with a Novel Kernel Machine Regression Method”. Genetics, 2015 Dec;201(4):1329-39. 

23.   Ruzong Fan∗, Yifan Wang∗, Qi Yan∗, Ying Ding, Daniel E. Weeks, Zhaohui Lu, Haobo Ren, Richard J. Cook, Momiao Xiong, Anand Swaroop, Emily Y. Chew, and Wei Chen. “Gene-Based Association Analysis for Censored Traits Via Fixed Effect Functional Regressions”. Genetic Epidemiology, 2016 Feb;40(2):133-43.

24.   John M. Brehm, Sze-Man Tse, Damien C. Croteau-Chonka, Erick Forno, Augusto A. Litonjua, Benjamin A. Raby, Wei Chen, Qi Yan, Nadia Boutaoui, Edna Acosta-Perez, Lydiana Avila, Scott T. Weiss, Manuel Soto-Quiros, Michelle M. Cloutier, Donglei Hu, Maria Pino-Yanes, Sally E. Wenzel, Melissa Spear, Jay K. Kolls, Esteban G. Burchard, Glorisa Canino, and Juan C. Celedon. “A Genome-wide Association Study of Post-Bronchodilator Lung Function in Children with Asthma”. AJRCCM, 2015, 192(5):634-7.

25.   Nita A. Limdi, Todd M. Brown, Qi Yan, Jonathan L. Thigpen, Aditi Shendre, Nianjun Liu, Charles E. Hill, Donna K. Arnett, T. Mark Beasley. “Race influences warfarin dose changes associated with genetic factors”. Blood. 2015 May 29. pii: blood-2015-02-627042.

26.   Qi Yan, Hemant K. Tiwari, Nengjun Yi, Guimin Gao, Wan-Yu Lin, Xiang-Yang Lou, and Nianjun Liu. “Sequence Kernel Association Test for Dichotomous Traits in Family Sample under Generalized Linear Mixed Model”. Human Heredity, 79(2):60-68.

27.   Wei Chen, John M. Brehm, Ani Manichaikul, Michael H. Cho, Nadia Boutaoui, Qi Yan, Kristin M. Burkart, Paul L. Enright, Jerome I. Rotter, Hans Petersen, Shuguan Leng, Ma’en Obeidat, Yohan Bosse, Corry-Anke Brandsma, Ke Hao, Stephen S. Rich, Rhea Powell, Lydiana Avila, Manuel Soto-Quiros, Edwin K. Silverman, Yohannes Tesfaigzi, R Graham Barr, Juan C. Celedon. “A Genome-Wide Association Study of Chronic Obstructive Pulmonary Disease in Hispanics”. Annals of ATS, 12(3):340-8.

28.   Qi Yan, Hemant K. Tiwari, Nengjun Yi, Wan-Yu Lin, Guimin Gao, Xiang-Yang Lou, Xiangqin Cui, and Nianjun Liu. “Kernel Machine Testing Coupled with Rank Truncation Method for Genetic Pathway Analysis”. Genetic Epidemiology, 2014, 38:447-456.

29.   Sadeep Shrestha, Qi Yan, Greg Joseph, Donna K Arnett Jeremy J Martinson, Lawrence A Kingsley. “Replication of RYR3 gene polymorphism association with cIMT among HIV-infected Caucasians”. AIDS, 2012, Vol 26 No 12

30.   Robert Makowsky, Qi Yan, Howard W Wiener, Brahim Aissani, Richard A Kaslow, Hemant K Tiwari, Sadeep Shretha. “The Utility of Mitochondrial and Y Chromosome Phylogenetic Data to Improve Correction for Population Stratification”. Frontiers in Genetics, 2012, 3: 301.

31.   Qi Yan, Jay McDonald, Tong Zhou, Yuhua Song. “Structural Insight for the Roles of Fas Death Domain Binding to FADD and Oligomerization Degree of the Fas - FADD complex in the Death Inducing Signaling Complex Formation: A Computational Study”. Protein, 2012 Oct 8. doi: 10.1002/prot.24193.

32.   Di Pan, Qi Yan, Yabing Chen, Jay M McDonald, Yuhua Song. “Trifluoperazine regulation of calmodulin binding to Fas: A computational study”. Protein, 2011, 79:2543-2556

33.   Qi Yan, Joanne E. Murphy-Ullrich, Yuhua Song. “Molecular and Structural Insight for the Role of Key Residues of Thrombospondin-1 and Calreticulin in Thrombospondin-1- Calreticulin Binding”. Biochemistry, 2011, 50(4), pp566-573

34.   Qi Yan, Joanne E. Murphy-Ullrich, Yuhua Song. “Structural Insight for the Role of Thrombospondin-1 Binding to Calreticulin in Calreticulin-Induced Focal Adhesion Disassembly”. Biochemistry, 2010, 49 (17), pp3685-3694