Selected Publications

Dr. Eve Armstrong

• Armstrong, E., Runge, M. & Gerardin, J. Identifying the measurements required to estimate rates of COVID-19 transmission, infection, and detection, using variational data assimilation. Infect Dis Model 6, (2021).

• Rrapaj, E., Patwardhan, A. V., Armstrong, E. & Fuller, G. M. Inference of neutrino flavor evolution through data assimilation and neural differential equations. Physical Review D 103, (2021).

• Armstrong, E. Statistical data assimilation for estimating electrophysiology simultaneously with connectivity within a biological neuronal network. Phys Rev E 101, (2020).

Dr. Yusui Chen

• W. Shi, Q. Ding and Y. Chen, "Non-Markovian open quantum dynamics in squeezed environments: Coherent-state unraveling," Phys. Rev. A 108, 012206 (2023)

• D. Dolgitzer, D. Zeng, and Y. Chen, "Dynamical quantum phase transitions in the spin-boson model," Optics Express 29, 15, 23988 (2021)

• R. Carballeira, D. Dolgitzer, P. Zhao, D. Zeng and Y. Chen, "Stochastic Schrödinger equation derivation of non-Markovian two-time correlation functions," Sci. Rep. 11, 11828 (2021)

• Y. Chen, Q. Ding, W. Shi, J. Jing and T. Yu, "Exact entanglement dynamics mediated by leaky optical cavities," J. Phys. B: At. Mol. Opt. Phys. 53 125501 (2020)

Dr. Jerry Cheng

• Zhao, T. et al. Robust Continuous Authentication Using Cardiac Biometrics From Wrist-Worn Wearables. IEEE Internet Things J 9, (2022).

• Shenoy, S. A. et al. A novel and accurate full-length HTT mouse model for Huntington’s disease. Elife 11, (2022).

• Liu, J. et al. Tracking vital signs during sleep leveraging off-the-shelf WiFi. in Proceedings of the International Symposium on Mobile Ad Hoc Networking and Computing (MobiHoc) vols 2015-June (2015).

Dr. Claude Gagna

• Gagna, C., Elkoulily, L., Zaman, A. & Lambert, W. 461 Identification of Z-DNA, G4-DNA and B-DNA in epidermis: Spatial genomic organization of different DNA structures (Genomesorganizomics). Journal of Investigative Dermatology 142, (2022).

• Gagna, C. E. et al. Novel B-DNA dermatophyte assay for demonstration of canonical DNA in dermatophytes: Histopathologic characterization by artificial intelligence. Clin Dermatol (2024) doi:10.1016/j.clindermatol.2023.12.018.

• Gagna CE, et al. Binding properties of bovine ocular lens zeta-crystallin to right-handed B-DNA, left-handed Z-DNA, and single-stranded DNA. Cell Biol Int. 1998;22(3):217-25. doi: 10.1006/cbir.1998.0243. PMID: 9974216.

Dr. Michael Hadjiargyrou

• Salichos, L., Thayvalle, S., Kloen, P., Hadjiargyrou, M. (2024) Human nonunion tissues display differential gene expression in comparison to physiological fracture callus. Bone. 183:117091.

• Hadjiargyrou, M., Salichos, L., Kloen, P. (2023) Identification of the miRNAome in human fracture callus and nonunion tissues J Orthop Translat. 39:13-123.

• Hadjiargyrou, M., Zhi, J., Komatsu, D.E. (2016) Identification of the microRNA transcriptome during the early phases of mammalian fracture repair. Bone 87:78–88.

Dr. Xueqing Huang

• Xueqing Huang and Nirwan Ansari. "Content Caching and Distribution at Wireless Mobile Edge," IEEE Transactions on Cloud Computing, vol. 10, no. 3, pp. 1688–1700, 1 July–Sept. 2022.

• Xueqing Huang, Nirwan Ansari, Siqi Huang, and Wenjia Li, "Dynamic Bayesian Network Based Security Analysis for Physical Layer Key Extraction," IEEE Open Journal of the Communications Society (Invited Paper), vol. 3, pp. 379–390, 2022.

• Siqi Huang, Xueqing Huang, and Nirwan Ansari, "Budget-aware Video Crowdsourcing at the Cloud-enhanced Mobile Edge," IEEE Transactions on Network and Service Management, vol. 18, no. 2, pp. 2123–2137, June 2021.

• Mengmeng Zhu, Xueqing Huang, Hoang Pham, "A Random Field Environment-Based Multidimensional Time Dependent Resilience Modeling of Complex Systems," IEEE Transactions on Computational Social Systems, vol. 8, no. 6, pp. 1427–1437, Dec. 2021.

• Ehsan Kamel, Shaya Sheikh, Xueqing Huang, "Data-driven predictive models for residential building energy use based on the segregation of heating and cooling days," Elsevier Editorial System for Energy, Volume 206, 2020.

Dr. Wiliam Letsou

• Wang, F. et al. Genome-Wide Analysis of Rare Haplotypes Associated with Breast Cancer Risk. Cancer Res 83, (2023).

• Yasui, Y. et al. Inference on the Genetic Architecture of Breast Cancer Risk. Cancer Epidemiology Biomarkers and Prevention 32, (2023).

• Letsou, W., Wang, F., Moon, W., Im, C., Sapkota, Y., Robison, L. L. & Yasui, Y. Potential misrepresentation of inherited breast cancer risk by common germline alleles (2022)..

• Letsou, W. & Cai, L. Noncommutative biology: sequential regulation of complex networks. PLoS Comput Biol 12, e1005089 (2016).

Dr. Leonidas Salichos

• Salichos, L. & Rokas, A. Inferring ancient divergences requires genes with strong phylogenetic signals. Nature (2013) doi:10.1038/nature12130.

• Salichos, L., Meyerson, W., Warrell, J. & Gerstein, M. Estimating growth patterns and driver effects in tumor evolution from individual samples. Nat Commun (2020) doi:10.1038/s41467-020-14407-9.

• Salichos, L., Warrell, J., Cevasco, H., Chung, A. & Gerstein, M. Genetic determination of regional connectivity in modelling the spread of COVID-19 outbreak for more efficient mitigation strategies. Sci Rep 13, (2023).

Dr. Baole Wen

• B. Wen, Z. Ding, G. P. Chini, R. R. Kerswell. Heat transport in Rayleigh-Bénard convection with linear marginality. Phil. Trans. R. Soc. A 380, 20210039.

• B. Wen, D. Goluskin, C. Doering. 2022 Steady Rayleigh-Bénard convection between no-slip boundaries. J. Fluid Mech. 933, R4.

• B. Wen, Z. Shi, K. Jessen, M. Hesse, T. Tsotsis. 2021 Convective carbon dioxide dissolution in a closed porous medium at high-pressure real-gas conditions. Adv. Water Resour. 154, 103950.

• B. Wen, D. Goluskin, M. LeDuc, G. P. Chini, C. Doering. 2020 Steady Rayleigh-Bénard convection between stress-free boundaries. J. Fluid Mech. 905, R4.

Dr. Dong Zhang

• Xiaolei Pan, William C. Drosopoulos, Louisa Sethi, Carl L. Schildkraut, and Dong Zhang FANCM, BRCA1, and BLM cooperatively resolve the replication stress at the ALT telomeres. Proc Natl Acad Sci U S A., 2017 Jul 18; 114 (29):E5940-E5949. doi: 10.1073/pnas.1708065114. Epub 2017 Jul 3. (Journal Impact Factor-2014: 9.809);

• Zou J, Zhang DL, Qin G, Chen XM, Wang H, and Zhang D. BRCA1 and FancJ cooperatively promote interstrand crosslinker induced centrosome amplification through the activation of polo-like kinase 1. Cell Cycle 2014 Dec 1;1(23): 3685-97; PMID: 25483079.

• Tian T, Sharma S, Zou JQ, Lin SY, Wang B, Rezvani K, Wang H, Parvin JD, Ludwig T, Canman CE, and Zhang D. BRCA1 promotes the ubiquitination of PCNA and recruitment of translesion polymerases in response to replication blockade. Proc Natl Acad Sci U S A., 2013 110:33, 13558-13563; PMID: 23901102.

• Zhang D, Zaugg K, Mak TW, Elledge SJ. A role for the deubiquitinating enzyme usp28 in control of the DNA-damage response. Cell. 2006; 126:529-542; PMID: 16901786.

Dr. Yingtao (Jerry) Zhao

• Sohyun Moon, Ying-Tao Zhao. Convergent biological pathways underlying the Kallmann syndrome-linked genes Hs6st1 and Fgfr1. Human Molecular Genetics, 2022.

• Sohyun Moon, Ying-Tao Zhao. Recursive splicing is a rare event in the mouse brain. PLOS ONE, 2022.

• Ying-Tao Zhao, Deborah Y Kwon, Brian S Johnson, Maria Fasolino, Janine M Lamonica, Yoon Jung Kim, Boxuan Simen Zhao, Chuan He, Golnaz Vahedi, Tae Hoon Kim, Zhaolan Zhou. Long genes linked to autism spectrum disorders harbor broad enhancer-like chromatin domains. Genome Research, 2018.

• Brian S Johnson*, Ying-Tao Zhao*, Maria Fasolino*, Janine M Lamonica, Yoon Jung Kim, George Georgakilas, Kathleen H Wood, Daniel Bu, Yue Cui, Darren Goffin, Golnaz Vahedi, Tae Hoon Kim, Zhaolan Zhou. Biotin tagging of MeCP2 in mice reveals contextual insights into the Rett syndrome transcriptome. Nature Medicine, 2017.