Chong Wu, PhD

Peer-Reviewed Articles

1. Xie Z, Zhang W, Wang J, Wu C. Winner’s Curse Free Robust Mendelian Randomization with Summary Data. Journal of the American Statistical Association, 2026. e-Pub 2026.
2. Zhang Y, Xie F, Yang S, Wu C. Meta-Router: Bridging gold-standard and preference-based evaluations in large language model routing. ICLR 2026. e-Pub 2026.
3. Montalban-Bravo G, Wu C, Rodriguez-Sevilla JJ, Wei Y, Chien KS, Bouligny I, Kanagal-Shamanna R, Li Z, Natu A, Gurney M, Bazinet A, Hammond D, Bataller A, Borthakur G, Short NJ, DiNardo CD, Kadia TM, Ravandi F, Daver N, Pemmaraju N, Jabbour E, Issa GC, Wang SA, Patel KP, Tang G, Medeiros L, Lasho TL, Finke CM, Al-Kali A, Csizmar CM, Alkhateeb H, Gangat N, Mangaonkar AA, Roman-Bravo D, Arenillas L, Tefferi A, Kantarjian HM, Garcia-Manero G, Calvo X, Patnaik MM, Loghavi S. Incorporation of genomic determinants improves diagnostic accuracy of oligomonocytic chronic myelomonocytic leukemia. Blood Cancer Discovery, 2026. e-Pub 2026. PMID: 41587375.
4. Li Q, Song Q, Chen Z, Choi J, Moreno V, Ping J, Wen W, Li C, Shu X, Yan J, Shu X, Cai Q, Long J, Huyghe JR, Pai R, Gruber SB, Yang Y, Casey G, Wang X, Toriola AT, Li L, Singh B, Lau KS, Zhou L, Zhang Z, Wu C, Peters U, Zheng W, Long Q, Yin Z, Guo X. Large-scale integration of omics and electronic health records to identify potential risk protein biomarkers and therapeutic drugs for cancer prevention. The American Journal of Human Genetics 113(1), 2026. e-Pub 2026.
5. Zhong H, Zhu J, Liu S, Wu C, Wang L, Whelton SP, Marshall CH, Blaha MJ, Durda P, Guo X, Johnson CW, Lin HJ, Taylor KD, Tracy RP, Yarden RI, Manichaikul AW, Rich SS, Rotter JI, Deo R, Dubin RF, Ganz P, Wu L. Proteome-wide association study of prostate cancer risk across populations. Nature Communications, 2025. e-Pub 2025. PMID: 41353205.
6. Feng H, Wu L, Zhao B, Huff C, Zhang J, Wu J, Lin L, Wei P, Wu C. Benchmarking DNA foundation models for genomic and genetic tasks. Nature Communications, 2025. e-Pub 2025. PMID: 41315262.
7. Anand, Vivek, Oderinde B, Siddiqui M, Tyagi A, Borgman J, Wu C, Andreeff M, Battula LV. Targeting GD2 with naxitamab overcomes GD3 synthase-driven immune suppression in triple-negative breast cancer. NPJ Breast Cancer 11(1), 2025. e-Pub 2025. PMID: 41188249.
8. Li S, Wu C, Zhang Z, Xiao M, Murad MH, Lin L. Lifecycles of Cochrane Systematic Reviews (2003–2024): A Bibliographic Study. Cochrane Evidence Synthesis and Methods 3(5):e70043, 2025. e-Pub 2025. PMID: 40838186.
9. Zhong H, Zhu J, Liu S, Zhou D, Long Q, Wu C, Zhao B, Cheng C, Yang Y, Wu Q, Wu Y, Li C, Wang Z, Wu J, Guo X, Zhi D, Deng Y, Wu L. Linking DNA methylation in brain regions to Alzheimer’s disease risk: a Mendelian randomization study. Human Molecular Genetics, 2025. e-Pub 2025. PMID: 40267236.
10. Sun Y, Zhu J, Zhong H, Zhang Z, Wang F, Nakamura A, Liu Y, Liu J, Yu J, Zeng G, Lin X, Zhou D, Wu C, Wang L, Deng Y, Wu L. Transcriptome‐wide association study identified novel blood tissue gene biomarkers for prostate cancer risk. The Prostate 85:567-579, 2025. e-Pub 2025. PMID: 39878408.
11. Gu C, Ghasemi SM, Cai Y, Fahrmann JF, Long JP, Katayama H, Wu C, Vykoukal J, Dennison JB, Hanash S, Do KA, Irajizad E. Grape-Pi: Graph-based neural networks for enhanced protein identification in proteomics pipelines. Bioinformatics Advances 5(1):vbaf095, 2025. e-Pub 2025. PMID: 40406669.
12. Wang Z, Xing X, Mun EY, Wu C, Lin L. The role of double‐zero‐event studies in evidence synthesis: Evaluating robustness using the fragility index. Journal of Evaluation in Clinical Practice 31(1):e14301, 2025. e-Pub 2025. PMID: 39780615.
13. Liu S, Zhu J, Green D, Zhong H, Long Q, Wu C, Wang L, Deng Y, Wu L. Integrating multi-omics data to uncover prostate tissue DNA methylation biomarkers and target genes for prostate cancer risk. Molecular Carcinogenesis 64(1):83-90, 2025. e-Pub 2025. PMID: 39400371.
14. King A, Wu C. Integrative multi-omics approach for improving causal gene identification. Genetic Epidemiology 49(1):e22601, 2025. e-Pub 2025. PMID: 39444114.
15. Yu J, Zhu J, Zhong H, Zhang Z, Liu J, Lin X, Zeng G, Zhang M, Wu C, Deng Y, Sun Y, Wu L. Age-related hearing impairment: Genome and blood methylome data integration reveals candidate epigenetic biomarkers. OMICS: A Journal of Integrative Biology 28(12):620-631, 2024. e-Pub 2024. PMID: 39585213.
16. Liu S, Zhu J, Zhong H, Wu C, Xue H, Darst BF, Guo X, Durda P, Tracy RP, Liu Y, Johnson WC, Taylor KD, Manichaikul AW, Goodarzi MO, Gerszten RE, Clish CB, Chen YI, Highland H, Haiman CA, Gignoux CR, Lange L, Conti DV, Raffield LM, Wilkens L, Marchand LL, North KE, Young KL, Loos RJ, Buyske S, Matise T, Peters U, Kooperberg C, Reiner AP, Yu B, Boerwinkle E, Sun Q, Rooney MR, Echouffo-Tcheugui JB, Daviglus ML, Qi Q, Mancuso N, Li C, Deng Y, Manning A, Meigs JB, Rich SS, Rotter JI, Wu L. Identification of proteins associated with type 2 diabetes risk in diverse racial and ethnic populations. Diabetologia 67(12):2754-2770, 2024. e-Pub 2024. PMID: 39349773.
17. Zhao C, Su KJ, Wu C, Cao X, Sha Q, Li W, Luo Z, Qing T, Qiu C, Zhao LJ, Liu A, Jiang L, Zhang X, Shen H, Zhou W, Deng HW. Multi-scale variational autoencoder for imputation of missing values in untargeted metabolomics using whole-genome sequencing data. Computers in Biology and Medicine 179, 2024. e-Pub 2024. PMID: 38955127.
18. Liu Y, Meng XH, Wu C, Su KJ, Liu A, Tian Q, Zhao LJ, Qiu C, Luo Z, Gonzalez-Ramirez MI, Shen H, Xiao HM, Deng HW. Variability in performance of genetic-enhanced DXA-BMD prediction models across diverse ethnic and geographic populations: A risk prediction study. PLoS Medicine 21(8):e1004451, 2024. e-Pub 2024. PMID: 39213443.
19. Lin W, Ji J, Su KJ, Qiu C, Tian Q, Zhao LJ, Luo Z, Wu C, Shen H, Deng HW. omicsMIC: a comprehensive benchmarking platform for robust comparison of imputation methods in mass spectrometry-based omics data. NAR Genomics and Bioinformatics 6(2):lqae071, 2024. e-Pub 2024. PMID: 38881578.
20. Meng Z, Wang J, Lin L, Wu C. Sensitivity analysis with iterative outlier detection for systematic reviews and meta-analyses. Statistics in Medicine 43(8):1549-1563, 2024. e-Pub 2024. PMID: 38318993.
21. Lyu Y, Wu C, Sun W, Li Z. Regional analysis to delineate intrasample heterogeneity with RegionalST. Bioinformatics 40(4), 2024. e-Pub 2024. PMID: 38579257.
22. Melton HJ, Zhang Z, Wu C. SUMMIT-FA: a new resource for improved transcriptome imputation using functional annotations. Human Molecular Genetics 33(7):624-635, 2024. e-Pub 2024. PMID: 38129112.
23. Zhu J, Liu S, Walker KA, Zhong H, Ghoneim DH, Zhang Z, Surendran P, Fahle S, Butterworth A, Alam MA, Deng HW, Wu C, Wu L. Associations between genetically predicted plasma protein levels and Alzheimer's disease risk: a study using genetic prediction models. Alzheimer's Research & Therapy 16(1):8, 2024. e-Pub 2024. PMID: 38212844.
24. Zhu J, Wu K, Liu S, Masca A, Zhong H, Yang T, Ghoneim DH, Surendran P, Liu T, Yao Q, Liu T, Fahle S, Butterworth A, Alam MA, Vadgama JV, Deng Y, Deng HW, Wu C, Wu Y, Wu L. Proteome-wide association study and functional validation identify novel protein markers for pancreatic ductal adenocarcinoma. Gigascience 13, 2024. e-Pub 2024. PMID: 38608280.
25. Melton HJ, Zhang Z, Deng HW, Wu L, Wu C. MIMOSA: a resource consisting of improved methylome prediction models increases power to identify DNA methylation-phenotype associations. Epigenetics 19(1), 2024. e-Pub 2024. PMID: 38963888.
26. Sun Y, Zhu J, Yang Y, Zhang Z, Zhong H, Zeng G, Zhou D, Nowakowski RS, Long J, Wu C, Wu L. Identification of candidate DNA methylation biomarkers related to Alzheimer's disease risk by integrating genome and blood methylome data. Translational Psychiatry 13(1):387, 2023. e-Pub 2023. PMID: 38092781.
27. Liu D, Bae YE, Zhu J, Zhang Z, Sun Y, Deng Y, Wu C, Wu L. Splicing transcriptome-wide association study to identify splicing events for pancreatic cancer risk. Carcinogenesis 44(10-11):741-747, 2023. e-Pub 2023. PMID: 37769343.
28. Zhong H, Zhu J, Liu S, Ghoneim DH, Surendran P, Liu T, Fahle S, Butterworth A, Ashad Alam M, Deng HW, Yu H, Wu C, Wu L. Identification of blood protein biomarkers associated with prostate cancer risk using genetic prediction models: analysis of over 140,000 subjects. Human Molecular Genetics 32(22):3181-3193, 2023. e-Pub 2023. PMID: 37622920.
29. Wei W, Petersen M, van der Laan MJ, Zheng Z, Wu C, Wang J. Efficient targeted learning of heterogeneous treatment effects for multiple subgroups. Biometrics 79(3):1934-1946, 2023. e-Pub 2023. PMID: 36416173.
30. Sun Y, Bae YE, Zhu J, Zhang Z, Zhong H, Cheng C, Deng Y, Wu C, Wu L. A splicing transcriptome-wide association study identifies candidate altered splicing for prostate cancer risk. OMICS 27(8):372-380, 2023. e-Pub 2023. PMID: 37486714.
31. Sun Y, Bae YE, Zhu J, Zhang Z, Zhong H, Yu J, Wu C, Wu L. A splicing transcriptome-wide association study identifies novel altered splicing for Alzheimer's disease susceptibility. Neurobiology of Disease 184:106209, 2023. e-Pub 2023. PMID: 37354922.
32. Meng Z, Wu C, Lin L. The effect direction should be taken into account when assessing small-study effects. Journal of Evidence-Based Dental Practice 23(1):101830, 2023. e-Pub 2023. PMID: 36914304.
33. Ma X, Wang J, Wu C. Breaking the winner's curse in Mendelian randomization. The Annals of Statistics 51(1):211-232, 2023. e-Pub 2023.
34. Guo X, Wei W, Liu M, Cai T, Wu C, Wang J. Assessing the most vulnerable subgroup to Type II diabetes associated with statin usage: Evidence from electronic health record data. Journal of the American Statistical Association 118(543):1488-1499, 2023. e-Pub 2023. PMID: 38223220.
35. King A, Wu L, Deng HW, Shen H, Wu C. Polygenic risk score improves the accuracy of a clinical risk score for coronary artery disease. BMC Medicine 20(1):385, 2022. e-Pub 2022. PMID: 36336692.
36. Zhang Z, Bae YE, Bradley JR, Wu L, Wu C. SUMMIT: An integrative approach for better transcriptomic data imputation improves causal gene identification. Nature Communications 13(1):6336, 2022. e-Pub 2022. PMID: 36284135.
37. Liu D, Zhu J, Zhou D, Nikas EG, Mitanis NT, Sun Y, Wu C, Mancuso N, Cox NJ, Wang L, Freedland SJ, Haiman CA, Gamazon ER, Nikas JB, Wu L. A transcriptome-wide association study identifies novel candidate susceptibility genes for prostate cancer risk. International Journal of Cancer 150(1):80-90, 2022. e-Pub 2022. PMID: 34520569.
38. Song M, Greenbaum J, Luttrell J, Zhou W, Wu C, Luo Z, Qiu C, Zhao LJ, Su KJ, Tian Q, Shen H, Hong H, Gong P, Shi X, Deng HW, Zhang C. An autoencoder-based deep learning method for genotype imputation. Frontiers in Artificial Intelligence 5:1028978, 2022. e-Pub 2022. PMID: 36406474.
39. Sun Y, Zhou D, Rahman MR, Zhu J, Ghoneim D, Cox NJ, Beach TG, Wu C, Gamazon ER, Wu L. A transcriptome-wide association study identifies novel blood-based gene biomarker candidates for Alzheimer's disease risk. Human Molecular Genetics 31(2):289-299, 2021. e-Pub 2021. PMID: 34387340.
40. Bae YE, Wu L, Wu C. InTACT: An adaptive and powerful framework for joint-tissue transcriptome-wide association studies. Genetic Epidemiology 45(8):848-859, 2021. e-Pub 2021. PMID: 34255882.
41. Wu C, Zhu J, King A, Tong X, Lu Q, Park JY, Wang L, Gao G, Deng HW, Yang Y, Knudsen KE, Rebbeck TR, Long J, Zheng W, Pan W, Conti DV, Haiman CA, Wu L. Novel strategy for disease risk prediction incorporating predicted gene expression and DNA methylation data: a multi-phased study of prostate cancer. Cancer Communications 41(12):1387-1397, 2021. e-Pub 2021. PMID: 34520132.
42. Yu G, Sun K, Xu C, Shi XH, Wu C, Xie T, Meng RQ, Meng XH, Wang KS, Xiao HM, Deng HW. Accurate recognition of colorectal cancer with semi-supervised deep learning on pathological images. Nature Communications 12(1):6311, 2021. e-Pub 2021. PMID: 34728629.
43. Wu L, Zhu J, Liu D, Sun Y, Wu C. An integrative multiomics analysis identifies putative causal genes for COVID-19 severity. Genetics in Medicine 23(11):2076-2086, 2021. e-Pub 2021. PMID: 34183789.
44. Sun Y, Zhu J, Zhou D, Canchi S, Wu C, Cox NJ, Rissman RA, Gamazon ER, Wu L. A transcriptome-wide association study of Alzheimer's disease using prediction models of relevant tissues identifies novel candidate susceptibility genes. Genome Medicine 13(1):141, 2021. e-Pub 2021. PMID: 34470669.
45. Wu C, Bradley J, Li Y, Wu L, Deng HW. A gene-level methylome-wide association analysis identifies novel Alzheimer's disease genes. Bioinformatics 37(14):1933-1940, 2021. e-Pub 2021. PMID: 33523132.
46. Wang KS, Yu G, Xu C, Meng XH, Zhou J, Zheng C, Deng Z, Shang L, Liu R, Su S, Zhou X, Li Q, Li J, Wang J, Ma K, Qi J, Hu Z, Tang P, Deng J, Qiu X, Li BY, Shen WD, Quan RP, Yang JT, Huang LY, Xiao Y, Yang ZC, Li Z, Wang SC, Ren H, Liang C, Guo W, Li Y, Xiao H, Gu Y, Yun JP, Huang D, Song Z, Fan X, Chen L, Yan X, Li Z, Huang ZC, Huang J, Luttrell J, Zhang CY, Zhou W, Zhang K, Yi C, Wu C, Shen H, Wang YP, Xiao HM, Deng HW. Accurate diagnosis of colorectal cancer based on histopathology images using artificial intelligence. BMC Medicine 19(1):76, 2021. e-Pub 2021. PMID: 33752648.
47. He Y, Xu G, Wu C, Pan W. Asymptotically independent U-statistics in high-dimensional testing. Annals of Statistics 49(1):154-181, 2021. e-Pub 2021. PMID: 34857975.
48. Zhu J, Wu C, Wu L. Associations Between Genetically Predicted Protein Levels and COVID-19 Severity. Journal of Infectious Diseases 223(1):19-22, 2021. e-Pub 2021. PMID: 33083826.
49. Wu C, Wu L, Wang J, Lin L, Li Y, Lu Q, Deng HW. Systematic identification of risk factors and drug repurposing options for Alzheimer's disease. Alzheimer's Dement 7(1):e12148, 2021. e-Pub 2021. PMID: 33718584.
50. Liu D, Zhou D, Sun Y, Zhu J, Ghoneim D, Wu C, Yao Q, Gamazon ER, Cox NJ, Wu L. A transcriptome-wide association study identifies candidate susceptibility genes for pancreatic cancer risk. Cancer Research 80(20):4346-4354, 2020. e-Pub 2020. PMID: 32907841.
51. Xue H, Wu C, Pan W. Leveraging existing GWAS summary data to improve power for a new GWAS. Genetic Epidemiology 44(7):717-732, 2020. e-Pub 2020. PMID: 32677173.
52. Wu L, Yang Y, Guo X, Shu XO, Cai Q, Shu X, Li B, Tao R, Wu C, Nikas JB, Sun Y, Zhu J, Roobol MJ, Giles GG, Brenner H, John EM, Clements J, Grindedal EM, Park JY, Stanford JL, Kote-Jarai Z, Haiman CA, Eeles RA, Zheng W, Long J. An integrative multi-omics analysis to identify candidate DNA methylation biomarkers related to prostate cancer risk. Nature Communications 11(1):3905, 2020. e-Pub 2020. PMID: 32764609.
53. Wu C. Multi-trait genome-wide analyses of the brain imaging phenotypes in UK biobank. Genetics 215(4):947-958, 2020. e-Pub 2020. PMID: 32540950.
54. Zhu J, Shu X, Guo X, Liu D, Bao J, Milne RL, Giles GG, Wu C, Du M, White E, Risch HA, Malats N, Duell EJ, Goodman PJ, Li D, Bracci P, Katzke V, Neale RE, Gallinger S, Van Den Eeden SK, Arslan AA, Canzian F, Kooperberg C, Beane Freeman LE, Scelo G, Visvanathan K, Haiman CA, Le Marchand L, Yu H, Petersen GM, Stolzenberg-Solomon R, Klein AP, Cai Q, Long J, Shu XO, Zheng W, Wu L. Associations between genetically predicted blood protein biomarkers and pancreatic cancer risk. Cancer Epidemiology Biomarkers & Prevention 29(7):1501-1508, 2020. e-Pub 2020. PMID: 32439797.
55. Yang T, Wu C, Wei P, Pan W. Integrating DNA sequencing and transcriptomic data for association analyses of low-frequency variants and lipid traits. Human Molecular Genetics 29(3):515-526, 2020. e-Pub 2020. PMID: 31919517.
56. Wu C, Pan W. A powerful fine-mapping method for transcriptome-wide association studies. Human Genetics 139(2):199-213, 2020. e-Pub 2020. PMID: 31844974.
57. Yang T, Kim J, Wu C, Ma Y, Wei P, Pan W. An adaptive test for meta-analysis of rare variant association studies. Genetic Epidemiology 44(1):104-116, 2020. e-Pub 2020. PMID: 31830326.
58. Wu C, Xu G, Shen X, Pan W. A regularization-based adaptive test for high-dimensional generalized linear models. Journal of Machine Learning Research 21:128, 2020. e-Pub 2020. PMID: 32802002.
59. Wu C, Pan W. Integration of methylation QTL and enhancer-target gene maps with schizophrenia GWAS summary results identifies novel genes. Bioinformatics 35(19):3576-3583, 2019. e-Pub 2019. PMID: 30850848.
60. Wu C, Xu G, Pan W. An adaptive test on high dimensional parameters in generalized linear models. Statistica Sinica 29(4):2163-2186, 2019. e-Pub 2019.
61. Park JY, Wu C, Pan W. An adaptive gene-level association test for pedigree data. BMC Genetics 19(Suppl 1):68, 2018. e-Pub 2018. PMID: 30255770.
62. Wu C, Pan W. Integration of enhancer-promoter interactions with GWAS summary results identifies novel schizophrenia-associated genes and pathways. Genetics 209(3):699-709, 2018. e-Pub 2018. PMID: 29728367.
63. Wu C, Pan W. Integrating eQTL data with GWAS summary statistics in pathway based analysis. Genetic Epidemiology 42(3):303-316, 2018. e-Pub 2018. PMID: 29411426.
64. Zhu L, Li Y, Chen YC, Carrera CA, Wu C, Fok A. Comparison between two post-dentin bond strength measurement methods. Scientific Reports 8(1):2350, 2018. e-Pub 2018. PMID: 29403067.
65. Park JY, Wu C, Basu S, McGue M, Pan W. Adaptive SNP-Set Association Testing in Generalized Linear Mixed Models with Application to Family Studies. Behavior Genetics 48(1):55-66, 2018. e-Pub 2018. PMID: 29150721.
66. Wu C, Park JY, Guan W, Pan W. An adaptive gene-based test for methylation data. BMC Proceedings 12(9):60, 2018. e-Pub 2018. PMID: 30275902.
67. Xu Z, Wu C, Wei P, Pan W. A Powerful Framework for Integrating eQTL and GWAS Summary Data. Genetics 207(3):893-902, 2017. e-Pub 2017. PMID: 28893853.
68. Xu Z, Wu C, Pan W, Neuroimaging Initiative AD. Imaging-wide association study: Integrating imaging endophenotypes in GWAS. Neuroimage 159:159-169, 2017. e-Pub 2017. PMID: 28736311.
69. Liu B, Wu C, Shen X, Pan W. A novel and efficient algorithm for de novo discovery of mutated driver pathways. Annals of Applied Statistics 11(3):1481-1512, 2017. e-Pub 2017. PMID: 29479394.
70. Wu C, Chen J, Kim J, Pan W. An adaptive association test for microbiome data. Genome Medicine 8(1):56, 2016. e-Pub 2016. PMID: 27198579.
71. Wu C, Kwon S, Shen X, Pan W. A new algorithm and theory for penalized regression-based clustering. Journal of Machine Learning Research 17(188):1-25, 2016. e-Pub 2016. PMID: 31662706.
72. Wu C, Demerath EW, Pankow JS, Bressler J, Fornage M, Grove ML, Chen W, Guan W. Imputation of missing covariate values in epigenome-wide analysis of DNA methylation data. Epigenetics 11(2):132-139, 2016. e-Pub 2016. PMID: 26890800.
73. Bose M, Wu C, Pankow JS, Demerath EW, Bressler J, Fornage M, Grove ML, Mosley TH, Hicks C, North K, Kao WH, Zhang Y, Boerwinkle E, Guan W. Evaluation of microarray-based DNA methylation measurement using technical replicates: the Atherosclerosis Risk In Communities (ARIC) Study. BMC Bioinformatics 15(1):312, 2014. e-Pub 2014. PMID: 25239148.

Review Articles

1. Song M, Greenbaum J, Luttrell J 4th, Zhou W, Wu C, Shen H, Gong P, Zhang C, Deng HW. A review of integrative imputation for multi-omics datasets. Frontiers in Genetics 11:570255, 2020. e-Pub 2020. PMID: 33193667.

Book Chapters

1. Wu C. Using R for cell-type composition imputation in epigenome-wide association studies. In: Epigenome-Wide Association Studies. Springer Nature, 2022.