Researcher Profile

Researcher Profile

Zhenqiu Liu, PhD

Zhenqiu Liu, PhD

Associate Professor, Department of Public Health Sciences
Division of Biostatistics and Bioinformatics
Scientific Program:Next-Generation Therapies
zxl391@psu.edu

Research Interests

  • Neoplasms
  • Genes
  • Gene Expression
  • Prostatic Neoplasms
  • Biomarkers
  • Messenger RNA
  • Metagenomics
  • Phenotype
  • Non-Small Cell Lung Carcinoma
  • Survival
  • Carrier Proteins
  • Lung Neoplasms

Recent Publications

2021

Grimley, PM, Liu, Z, Darcy, KM, Hueman, MT, Wang, H, Sheng, L, Henson, DE & Chen, D 2021, 'A prognostic system for epithelial ovarian carcinomas using machine learning', Acta Obstetricia et Gynecologica Scandinavica, vol. 100, no. 8, pp. 1511-1519. https://doi.org/10.1111/aogs.14137
Liu, C, Billet, S, Choudhury, D, Cheng, R, Haldar, S, Fernandez, A, Biondi, S, Liu, Z, Zhou, H & Bhowmick, NA 2021, 'Bone marrow mesenchymal stem cells interact with head and neck squamous cell carcinoma cells to promote cancer progression and drug resistance', Neoplasia (United States), vol. 23, no. 1, pp. 118-128. https://doi.org/10.1016/j.neo.2020.11.012
Liu, Z 2021, 'Clustering single-cell rna-seq data with regularized gaussian graphical model', Genes, vol. 12, no. 2, 311, pp. 1-12. https://doi.org/10.3390/genes12020311
Liu, Z, Spiegelman, V & Wang, H-G 2021, 'Distinct noncoding RNAs and RNA binding proteins associated with high-risk pediatric and adult acute myeloid leukemias detected by regulatory network analysis', Cancer Reports. https://doi.org/10.1002/cnr2.1592
Hueman, M, Wang, H, Liu, Z, Henson, D, Nguyen, C, Park, D, Sheng, L & Chen, D 2021, 'Expanding TNM for lung cancer through machine learning', Thoracic Cancer, vol. 12, no. 9, pp. 1423-1430. https://doi.org/10.1111/1759-7714.13926
Liu, X, Tian, G & Liu, Z 2021, 'Identification of novel genes for triple-negative breast cancer with semiparametric gene-based analysis', Journal of Applied Statistics. https://doi.org/10.1080/02664763.2021.1973387
Yang, CQ, Wang, H, Liu, Z, Hueman, MT, Bhaskaran, A, Henson, DE, Sheng, L & Chen, D 2021, 'Integrating additional factors into the TNM staging for cutaneous melanoma by machine learning', PloS one, vol. 16, no. 9 September, e0257949. https://doi.org/10.1371/journal.pone.0257949

2020

Kawaguchi, ES, Suchard, MA, Liu, Z & Li, G 2020, 'A surrogate ℓ0 sparse Cox's regression with applications to sparse high-dimensional massive sample size time-to-event data', Statistics in Medicine, vol. 39, no. 6, pp. 675-686. https://doi.org/10.1002/sim.8438
Sun, L, Jiang, L, Grant, CN, Wang, HG, Gragnoli, C, Liu, Z & Wu, R 2020, 'Computational identification of gene networks as a biomarker of neuroblastoma risk', Cancers, vol. 12, no. 8, 2086, pp. 1-17. https://doi.org/10.3390/cancers12082086
Liu, Z, Grant, CN, Sun, L, Miller, BA, Spiegelman, VS & Wang, HG 2020, 'Expression patterns of immune genes reveal heterogeneous subtypes of high-risk neuroblastoma', Cancers, vol. 12, no. 7, 1739, pp. 1-16. https://doi.org/10.3390/cancers12071739
Gebru, MT, Atkinson, JM, Young, MM, Zhang, L, Tang, Z, Liu, Z, Lu, P, Dower, CM, Chen, L, Annageldiyev, C, Sharma, A, Kawasawa, YI, Zhao, Z, Miller, BA, Claxton, DF & Wang, HG 2020, 'Glucocorticoids enhance the antileukemic activity of FLT3 inhibitors in FLT3-mutant acute myeloid leukemia', Blood, vol. 136, no. 9, pp. 1067-1079. https://doi.org/10.1182/blood.2019003124
Rice, SJ, Liu, X, Hyland, V, Liu, Z & Belani, CP 2020, 'Mutations in genes connected with the TCF7L2 transcription factor are associated with a poor prognosis in non-small cell lung cancer', Lung Cancer, vol. 141, pp. 97-100. https://doi.org/10.1016/j.lungcan.2020.01.015
Placencio-Hickok, VR, Madhav, A, Kim, S, Duong, F, Angara, B, Liu, Z & Bhowmick, NA 2020, 'Soluble CD105 is prognostic of disease recurrence in prostate cancer patients', Endocrine-Related Cancer, vol. 27, no. 1, pp. 1-9. https://doi.org/10.1530/ERC-19-0370
Liu, Z 2020, 'Visualizing single-cell rna-seq data with semisupervised principal component analysis', International journal of molecular sciences, vol. 21, no. 16, 5797, pp. 1-12. https://doi.org/10.3390/ijms21165797

2019

Kakuta, Y, Kawai, Y, Naito, T, Hirano, A, Umeno, J, Fuyuno, Y, Liu, Z, Li, D, Nakano, T, Izumiyama, Y, Ichikawa, R, Okamoto, D, Nagai, H, Matsumoto, S, Yamamoto, K, Yokoyama, N, Chiba, H, Shimoyama, Y, Onodera, M, Moroi, R, Kuroha, M, Kanazawa, Y, Kimura, T, Shiga, H, Endo, K, Negoro, K, Yasuda, J, Esaki, M, Tokunaga, K, Nakamura, M, Matsumoto, T, McGovern, DPB, Nagasaki, M, Kinouchi, Y, Shimosegawa, T & Masamune, A 2019, 'A Genome-wide Association Study Identifying RAP1A as a Novel Susceptibility Gene for Crohn's Disease in Japanese Individuals', Journal of Crohn's and Colitis, vol. 13, no. 5, pp. 648-658. https://doi.org/10.1093/ecco-jcc/jjy197
Elcheva, I, Sneed, M, Frazee, S, Liu, Z, Zhu, J, Wood, T, Hendrickson, S, Oehler, C, Garcia, B & Spiegelman, VS 2019, 'A novel hiPSC-derived system for hematoendothelial and myeloid blood toxicity screens identifies compounds promoting and inhibiting endothelial-to-hematopoietic transition', Toxicology in Vitro, vol. 61, 104622. https://doi.org/10.1016/j.tiv.2019.104622
Chen, C, Jiang, L, Fu, G, Wang, M, Wang, Y, Shen, B, Liu, Z, Wang, Z, Hou, W, Berceli, SA & Wu, R 2019, 'An omnidirectional visualization model of personalized gene regulatory networks', NPJ systems biology and applications, vol. 5. https://doi.org/10.1038/s41540-019-0116-1
Liu, Z, Yee, PP, Wei, Y, Liu, Z, Imamura, Y & Li, W 2019, 'Differential YAP expression in glioma cells induces cell competition and promotes tumorigenesis', Journal of Cell Science, vol. 132, no. 5, jcs225714. https://doi.org/10.1242/jcs.225714
Ghoshal, A, Rodrigues, LC, Gowda, CP, Elcheva, IA, Liu, Z, Abraham, T & Spiegelman, VS 2019, 'Extracellular vesicle-dependent effect of RNA-binding protein IGF2BP1 on melanoma metastasis', Oncogene, vol. 38, no. 21, pp. 4182-4196. https://doi.org/10.1038/s41388-019-0797-3
Yang, YM, Noureddin, M, Liu, C, Ohashi, K, Kim, SY, Ramnath, D, Powell, EE, Sweet, MJ, Roh, YS, Hsin, IF, Deng, N, Liu, Z, Liang, J, Mena, E, Shouhed, D, Schwabe, RF, Jiang, D, Lu, SC, Noble, PW & Seki, E 2019, 'Hyaluronan synthase 2-mediated hyaluronan production mediates Notch1 activation and liver fibrosis', Science Translational Medicine, vol. 11, no. 496, eaat9284. https://doi.org/10.1126/scitranslmed.aat9284
Geng, Y, Liu, X, Liang, J, Habiel, DM, Kulur, V, Coelho, AL, Deng, N, Xie, T, Wang, Y, Liu, N, Huang, G, Kurkciyan, A, Liu, Z, Tang, J, Hogaboam, CM, Jiang, D & Noble, PW 2019, 'PD-L1 on invasive fibroblasts drives fibrosis in a humanized model of idiopathic pulmonary fibrosis', JCI Insight, vol. 4, no. 6, e125326. https://doi.org/10.1172/jci.insight.125326
Elcheva, IA, Wood, T, Chiarolanzio, K, Chim, B, Wong, M, Singh, V, Gowda, CP, Lu, Q, Hafner, M, Dovat, S, Liu, Z, Muljo, SA & Spiegelman, VS 2020, 'RNA-binding protein IGF2BP1 maintains leukemia stem cell properties by regulating HOXB4, MYB, and ALDH1A1', Leukemia, vol. 34, no. 5, pp. 1354-1363. https://doi.org/10.1038/s41375-019-0656-9
Liu, Z, Elashoff, D & Piantadosi, S 2019, 'Sparse support vector machines with L0 approximation for ultra-high dimensional omics data', Artificial Intelligence in Medicine, vol. 96, pp. 134-141. https://doi.org/10.1016/j.artmed.2019.04.004
Yang, JW, Murray, B, Barbier-Torres, L, Liu, T, Liu, Z, Yang, H, Fan, W, Wang, J, Li, Y, Seki, E, Mato, JM & Lu, SC 2019, 'The mitochondrial chaperone Prohibitin 1 negatively regulates interleukin-8 in human liver cancers', Journal of Biological Chemistry, vol. 294, no. 6, pp. 1984-1996. https://doi.org/10.1074/jbc.RA118.004863

2018

Madhav, A, Andres, A, Duong, F, Mishra, R, Haldar, S, Liu, Z, Angara, B, Gottlieb, R, Zumsteg, ZS & Bhowmick, NA 2018, 'Antagonizing CD105 enhances radiation sensitivity in prostate cancer', Oncogene, vol. 37, no. 32, pp. 4385-4397. https://doi.org/10.1038/s41388-018-0278-0
Dai, L, Chen, K, Sun, Z, Liu, Z & Li, G 2018, 'Broken adaptive ridge regression and its asymptotic properties', Journal of Multivariate Analysis, vol. 168, pp. 334-351. https://doi.org/10.1016/j.jmva.2018.08.007
Kato, M, Placencio-Hickok, VR, Madhav, A, Haldar, S, Tripathi, M, Billet, S, Mishra, R, Smith, B, Rohena-Rivera, K, Agarwal, P, Duong, F, Angara, B, Hickok, D, Liu, Z & Bhowmick, NA 2019, 'Heterogeneous cancer-associated fibroblast population potentiates neuroendocrine differentiation and castrate resistance in a CD105-dependent manner', Oncogene, vol. 38, no. 5, pp. 716-730. https://doi.org/10.1038/s41388-018-0461-3
Liu, T, Yang, H, Fan, W, Tu, J, Li, TWH, Wang, J, Shen, H, Yang, JW, Xiong, T, Steggerda, J, Liu, Z, Noureddin, M, Maldonado, SS, Annamalai, A, Seki, E, Mato, JM & Lu, SC 2018, 'Mechanisms of MAFG Dysregulation in Cholestatic Liver Injury and Development of Liver Cancer', Gastroenterology, vol. 155, no. 2, pp. 557-571.e14. https://doi.org/10.1053/j.gastro.2018.04.032
Liu, Z & Lin, S 2018, Sparse Treatment-Effect Model for Taxon Identification with High-Dimensional Metagenomic Data. in Methods in Molecular Biology. Methods in Molecular Biology, vol. 1849, Humana Press Inc., pp. 309-318. https://doi.org/10.1007/978-1-4939-8728-3_19
Mishra, R, Haldar, S, Placencio, V, Madhav, A, Rohena-Rivera, K, Agarwal, P, Duong, F, Angara, B, Tripathi, M, Liu, Z, Gottlieb, RA, Wagner, S, Posadas, EM & Bhowmick, NA 2018, 'Stromal epigenetic alterations drive metabolic and neuroendocrine prostate cancer reprogramming', Journal of Clinical Investigation, vol. 128, no. 10, pp. 4472-4484. https://doi.org/10.1172/JCI99397

Clinical Trials Search


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Adults (age >= 18 years)