Y. Zhang, W. Liu, and J. Duan, “On the core segmentation algorithms of copy number variations detection tools”, Briefings in Bioinformatics, vol. 25, no. 2, pp. 1–10, 2024.

F. Xu, J. Duan, and W. Liu, “Comparative study of non-convex penalties and related algorithms in compressed sensing”, Digital signal processing, vol. 135, no. 30, pp. 103937, 2023.

J. Duan, Q. Wang, and Y.-P. Wang, “HOPS: A fast algorithm for segmenting piecewise polynomials of arbitrary orders”, IEEE Access, vol. 9, pp. 155977–155987, 2021.  

W. Liu, H. Yan, Q. Wang, N. Hu, N. Liu, F. Xu, and J. Duan, “Smoothing of time-varying graph with the generalized LASSO”, IEEE Access, vol. 9, pp. 162348–162358, 2021.

L. Zhao, H. Liu, X. Yuan, K. Gao, and J. Duan, “Comparative study of whole exome sequencing-based copy number variation detection tools”, BMC Bioinformatics, vol. 21, no. 97, pp. 1–10, 2020.

X. Yuan, M. Gao, J. Bai, and J. Duan, “SVSR: a program to simulate structural variations and generate sequencing reads for multiple platforms”, IEEE/ACM Trans. Comput. Biol. Bioinform., vol. 17, no. 3, pp. 1082–1091, 2020.

X. Yuan, J. Bai, J. Zhang, L. Yang, J. Duan, Y. Li, and M. Gao, “CONDEL: Detecting copy number variation and genotyping deletion zygosity from single tumor samples using sequence data”, IEEE/ACM Trans. Comput. Biol. Bioinform., vol. 17, no. 4, pp. 1141–1153, 2020.  

J. Duan, C. Soussen, D. Brie, J. Idier, Y.-P. Wang, and M. Wan, “A parallelizable framework for segmenting piecewise signals”, IEEE Access, vol. 7, pp. 13217–13229, 2019. 

J. Duan, J. Idier, Y.-P. Wang, and M. Wan, “A joint least squares and least absolute deviation model”, IEEE Signal Processing Letters, vol. 26, no. 4, pp. 543–547, 2019.

J. Duan, H. Zhong, B. Jing, S. Zhang, and M. Wan, “Increasing axial resolution of ultrasonic imaging with a joint sparse representation model”, IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control,  vol. 63, no. 12, pp. 2045–2056, 2016.

J. Duan, C. Soussen, D. Brie, J. Idier, M. Wan, and Y.-P. Wang, “Generalized lasso with under-determined regularization matrices”, Signal Processing, vol. 127, no. 2016, pp. 239–246, 2016.

J. Duan, M. Wan, H.-W. Deng, and Y.-P. Wang, “A sparse model based detection of copy number variations from exome sequencing data”, IEEE Transactions on Biomedical Engineering, vol. 68, no. 3, pp. 496–505, 2016.

C. Soussen, J. Idier, J. Duan, and D. Brie, “Homotopy based algorithms for L0-regularized least-squares”, IEEE Transactions on Signal Processing, vol. 63, no. 13, pp. 3301–3316, 2015.

H. Cao, J. Duan, D. Lin, Y. Y. Shugart, V. Calhoun, and Y.-P. Wang, “Sparse representation based biomarker selection for schizophrenia with integrated analysis of fMRI and SNPs”, NeuroImage, vol. 102, pp. 220–228, 2014.

J. Duan, H.-W. Deng, and Y.-P. Wang, “Common copy number variation detection from multiple sequenced samples”, IEEE Transactions on Biomedical Engineering, vol. 61, no. 3, pp. 928–937, 2014.

H. Cao, J. Duan, D. Lin, V. Calhoun, and Y.-P. Wang, “Integrating fMRI and SNP data for biomarker identification for schizophrenia with a sparse representation based variable selection method”, BMC Medical Genomics, vol. 6, no. S2, pp. 1–8, 2013.

J. Duan, J.-G. Zhang, H.-W. Deng, and Y.-P. Wang, “CNV-TV: A robust method to discover copy number variation from short sequencing reads”, BMC Bioinformatics, vol. 14, no. 150, pp. 1–12, 2013. Featured by Genetic Engineering & Biotechnology News

J. Duan, J.-G. Zhang, H.-W. Deng, and Y.-P. Wang, “Comparative studies of copy number variation detection methods for next generation sequencing technologies”, Plos One, vol. 8, no. 3, pp. e59128, 2013. Featured by Biocompare

J. Duan, C. Soussen, D. Brie, J. Idier, and Y.-P. Wang, “On LARS/homotopy equivalence conditions for over-determined LASSO”, IEEE Signal Processing Letters, vol. 19, no. 12, pp. 894–897, 2012.

P. Polyakov, C. Soussen, J. Duan, J. Duval, D. Brie, and G. Francius, “Automated force volume image processing for biological samples.”, PLoS One, vol. 6, no. 4, pp. e18887, 2011.

C. Soussen, J. Idier, D. Brie, and J. Duan, “From Bernoulli-Gaussian deconvolution to sparse signal restoration”, IEEE Transactions on Signal Processing, vol. 59, no. 10, pp. 4572–4584, 2011.