Recent Publications

Persistent chromatin alterations and gene expression reprogramming follow widespread DNA damage in glioblastomaModrek, A. S., Chandradoss, K. R., Do, C., Ezhilarasan, R., Sakellaropoulos, T., Karp, J., Ding, Y., Zhang, Z. Y., Quiloan, M. L. G., Graciani, M., Cova, G., Phillips-Cremins, J. E., Sulman, E. P. & Skok, J. A., Dec 2026, In: Nature communications. 17, […]

TaRGET II Data Portal: a multi-omics resource for environmental toxicant studies in miceKuntala, P. K., Miao, B., Purushotham, D., Zhang, B., Li, D. & Wang, T., Dec 2026, In: Nature communications. 17, 1, 6624.Research output: Contribution to journal › Article › peer-review

ToxiTaRGET: a multi-omics database for toxicant-responsive molecular targetsTaRGET II Consortium, Dec 2026, In: Nature communications. 17, 1, 6948.Research output: Contribution to journal › Article › peer-review

Core activation program and selective regional responsiveness of microglia during aging and parabiosisNaz, H., Lu, N., Escoubas, C. C., Sager, L., Xiong, J., Pálovics, R., Yamada, S., Molofsky, A. V., Wyss-Coray, T., Li, Q. & Zhao, G., Sep 22 2026, In: Cell Reports. 45, 9, 117919.Research output: Contribution to journal › Article › peer-review

Uncovering phenotypic expansion in AXIN2-related disorders through precision animal modelingS.ZuchnerStephanIIIUndiagnosed Diseases Network & S.YamamotoShinyaBaylor College of Medicine Center for Precision Medicine Models, Sep 2026, In: Genetics in Medicine. 28, 9, 102648.Research output: Contribution to journal › Article › peer-review

“It didn’t feel like anything unusual because we had already been through so much”: Disability-related research experiences of families with children enrolled in the undiagnosed diseases networkS.ZuchnerStephanIIIUndiagnosed Diseases Network, Sep 2026, In: Genetics in Medicine. 28, 9, 102663.Research output: Contribution to journal › Article › peer-review

Loss of UBIQUITIN-PROTEIN LIGASE 3 (UPL3) impairs cellulose-xylan structural organization in Arabidopsis seed mucilageLi, Z., Xie, M., Sun, J., Li, Q., Yang, B., Yan, N., Wang, W., Yang, Z. & Ding, A., Sep 2026, In: Plant Physiology and Biochemistry. 238, 111711.Research output: Contribution to journal › Article › peer-review

Epigenetic and 3D genome reprogramming during the aging of the human hippocampusZemke, N. R., Lee, S., Mamde, S., Yang, B., Berchtold, N., Garduño, B. M., Indralingam, H. S., Bartosik, W. M., Lau, P. K., Dong, K., Hsu, E., Yang, A., Tani, Y., Chen, C., Zeng, Q., Ajith, V., Tong, L., Seng, C., Li, D. & […]

A global view of human centromere variation and evolutionHuman Genome Structural Variation Consortium & Human Pangenome Reference Consortium, 2026, (Accepted/In press) In: Nature.Research output: Contribution to journal › Article › peer-review

Priming of CD8+ T cells by peripheral dendritic cells exacerbates tau-mediated neurodegenerationHu, H., Lin, P. B. C., Zeng, C., Li, Y., Bosch, M. E., Emmerson, J. T., Sharma, P., Ohara, R. A., Dong, W., Wu, T., Du, S., Gao, W., Jiang, H., Yuan, L., Bao, X., Li, S., Vomund, A. N., Erdmann-Gilmore, P., Gu, Y. […]

Usefulness of a Simple Algorithm to Identify Hypertensive Patients Who Benefit from Intensive Blood Pressure LoweringWang, S., Khera, R., Das, S. R., Vigen, R., Wang, T., Luo, X., Lu, R., Zhan, X., Xiao, G., Vongpatanasin, W. & Xie, Y., Jul 15 2018, In: American Journal of Cardiology. 122, 2, p. 248-254 7 p.Research output: Contribution […]

Main bronchus location is a predictor for metastasis and prognosis in lung adenocarcinoma: A large cohort analysisYang, L., Wang, S., Gerber, D. E., Zhou, Y., Xu, F., Liu, J., Liang, H., Xiao, G., Zhou, Q., Gazdar, A. & Xie, Y., Jun 2018, In: Lung Cancer. 120, p. 22-26 5 p.Research output: Contribution to journal › […]

Microvessel prediction in H&E Stained Pathology Images using fully convolutional neural networksYi, F., Yang, L., Wang, S., Guo, L., Huang, C., Xie, Y. & Xiao, G., Feb 27 2018, In: BMC bioinformatics. 19, 1, 64.Research output: Contribution to journal › Article › peer-review

Evaluation of the 7th and 8th editions of the AJCC/UICC TNM staging systems for lung cancer in a large North American cohortYang, L., Wang, S., Zhou, Y., Lai, S., Xiao, G., Gazdar, A. & Xie, Y., May 24 2017, In: Oncotarget. 8, 40, p. 66784-66795 12 p.Research output: Contribution to journal › Article › peer-review

Comprehensive evaluation of published gene expression prognostic signatures for biomarker-based lung cancer clinical studiesTang, H., Wang, S., Xiao, G., Schiller, J., Papadimitrakopoulou, V., Minna, J., Wistuba, I. I. & Xie, Y., Apr 1 2017, In: Annals of Oncology. 28, 4, p. 733-740 8 p.Research output: Contribution to journal › Review article › peer-review

Comprehensive Computational Pathological Image Analysis Predicts Lung Cancer PrognosisLuo, X., Zang, X., Yang, L., Huang, J., Liang, F., Rodriguez-Canales, J., Wistuba, I. I., Gazdar, A., Xie, Y. & Xiao, G., Mar 1 2017, In: Journal of Thoracic Oncology. 12, 3, p. 501-509 9 p.Research output: Contribution to journal › Article › peer-review

Finding RNA–Protein interaction sites using HMMsWang, T., Yun, J., Xie, Y. & Xiao, G., 2017, Methods in Molecular Biology. Humana Press Inc., p. 177-184 8 p. (Methods in Molecular Biology; vol. 1552).Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritisThe Rheumatoid Arthritis Challenge Consortium, Aug 23 2016, In: Nature communications. 7, 12460.Research output: Contribution to journal › Article › peer-review

Lung cancer survival prediction from pathological images and genetic data – An integration studyZhu, X., Yao, J., Luo, X., Xiao, G., Xie, Y., Gazdar, A. & Huang, J., Jun 15 2016, 2016 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2016 – Proceedings. IEEE Computer Society, p. 1173-1176 4 p. 7493475. (Proceedings […]

Erratum: Prediction of human population responses to toxic compounds by a collaborative competition (Nature Biotechnology (2015) 33 (933-940))Eduati, F., Mangravite, L. M., Wang, T., Tang, H., Bare, J. C., Huang, R., Norman, T., Kellen, M., Menden, M. P., Yang, J., Zhan, X., Zhong, R., Xiao, G., Xia, M., Abdo, N., Kosyk, O., Friend, S., Dearry, […]