• 3966 Citations
20072020

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Article
2020

Enhanced CXCR4 expression associates with increased gene body 5-hydroxymethylcytosine modification but not decreased promoter methylation in colorectal cancer

Stuckel, A. J., Zhang, W., Zhang, X., Zeng, S., Dougherty, U., Mustafi, R., Zhang, Q., Perreand, E., Khare, T., Joshi, T., West-Szymanski, D. C., Bissonnette, M. & Khare, S., Mar 2020, In : Cancers. 12, 3, 539.

Research output: Contribution to journalArticle

Open Access
2019

5-Hydroxymethylcytosines in circulating cell-free DNA reveal vascular complications of type 2 diabetes

Yang, Y., Zeng, C., Lu, X., Song, Y., Nie, J., Ran, R., Zhang, Z., He, C., Zhang, W. & Liu, S. M., Jan 1 2019, In : Clinical chemistry. 65, 11, p. 1414-1425 12 p.

Research output: Contribution to journalArticle

1 Scopus citations

Genome-wide mapping of 5-hydroxymethylcytosines in circulating cell-free DNA as a non-invasive approach for early detection of hepatocellular carcinoma

Cai, J., Chen, L., Zhang, Z., Zhang, X., Lu, X., Liu, W., Shi, G., Ge, Y., Gao, P., Yang, Y., Ke, A., Xiao, L., Dong, R., Zhu, Y., Yang, X., Wang, J., Zhu, T., Yang, D., Huang, X., Sui, C. & 15 others, Qiu, S., Shen, F., Sun, H., Zhou, W., Zhou, J., Nie, J., Zeng, C., Stroup, E. K., Zhang, X., Chiu, B. C. H., Lau, W. Y., He, C., Wang, H., Zhang, W. & Fan, J., Dec 1 2019, In : Gut. 68, 12, p. 2195-2205 11 p.

Research output: Contribution to journalArticle

Open Access
22 Scopus citations

Prognostic implications of 5-hydroxymethylcytosines from circulating cell-free DNA in diffuse large B-cell lymphoma

Chiu, B. C. H., Zhang, Z., You, Q., Zeng, C., Stepniak, E., Bracci, P. M., Yu, K., Venkataraman, G., Smith, S. M., He, C. & Zhang, W., Oct 8 2019, In : Blood Advances. 3, 19, p. 2790-2799 10 p.

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

Significant association of eed promoter hypomethylation with colorectal cancer

Ying, X., Pan, R., Zhong, J., Wu, B., Jiang, Y., Ying, J., Zhou, C., Dai, J., Zhao, S., Shen, Y., Zhang, W. & Duan, S., Aug 2019, In : Oncology Letters. 18, 2, p. 1564-1570 7 p.

Research output: Contribution to journalArticle

Open Access
2018

Genome-wide methylomic and transcriptomic analyses identify subtype-specific epigenetic signatures commonly dysregulated in glioma stem cells and glioblastoma

Pangeni, R. P., Zhang, Z., Alvarez, A. A., Wan, X., Sastry, N., Lu, S., Shi, T., Huang, T., Lei, C. X., James, C. D., Kessler, J. A., Brennan, C. W., Nakano, I., Lu, X., Hu, B., Zhang, W. & Cheng, S. Y., Apr 3 2018, In : Epigenetics. 13, 4, p. 432-448 17 p.

Research output: Contribution to journalArticle

12 Scopus citations
2017

5-Hydroxymethylcytosine signatures in circulating cell-free DNA as diagnostic biomarkers for human cancers

Li, W., Zhang, X., Lu, X., You, L., Song, Y., Luo, Z., Zhang, J., Nie, J., Zheng, W., Xu, D., Wang, Y., Dong, Y., Yu, S., Hong, J., Shi, J., Hao, H., Luo, F., Hua, L., Wang, P., Qian, X. & 17 others, Yuan, F., Wei, L., Cui, M., Zhang, T., Liao, Q., Dai, M., Liu, Z., Chen, G., Meckel, K., Adhikari, S., Jia, G., Bissonnette, M. B., Zhang, X., Zhao, Y., Zhang, W., He, C. & Liu, J., Oct 1 2017, In : Cell Research. 27, 10, p. 1243-1257 15 p.

Research output: Contribution to journalArticle

71 Scopus citations
6 Scopus citations

Blood pressure and expression of microRNAs in whole blood

Zhang, Z., Joyce, B. T., Kresovich, J. K., Zheng, Y., Zhong, J., Patel, R., Zhang, W., Liu, L., Dou, C., McCracken, J. P., DõÂaz, A., Motta, V., Sanchez-Guerra, M., Bian, S., Bertazzi, P. A., Schwartz, J., Baccarelli, A. A., Wang, S. & Hou, L., Mar 2017, In : PloS one. 12, 3, e0173550.

Research output: Contribution to journalArticle

6 Scopus citations

Epigenetic contribution of the myosin light chain kinase gene to the risk for acute respiratory distress syndrome

Szilágyi, K. L., Liu, C., Zhang, X., Wang, T., Fortman, J. D., Zhang, W. & Garcia, J. G. N., Feb 1 2017, In : Translational Research. 180, p. 12-21 10 p.

Research output: Contribution to journalArticle

4 Scopus citations

Maternal pre-pregnancy BMI downregulates neonatal cord blood LEP methylation

Kadakia, R., Zheng, Y., Zhang, Z., Zhang, W., Hou, L. & Josefson, J. L., Aug 2017, In : Pediatric Obesity. 12, p. 57-64 8 p.

Research output: Contribution to journalArticle

16 Scopus citations

Prediction of genome-wide DNA methylation in repetitive elements

Zheng, Y., Joyce, B. T., Liu, L., Zhang, Z., Kibbe, W. A., Zhang, W. & Hou, L., Sep 1 2017, In : Nucleic acids research. 45, 15, p. 8697-8711 15 p.

Research output: Contribution to journalArticle

18 Scopus citations

Regularized estimation in sparse high-dimensional multivariate regression, with application to a DNA methylation study

Zhang, H., Zheng, Y., Yoon, G., Zhang, Z., Gao, T., Joyce, B., Zhang, W., Schwartz, J., Vokonas, P., Colicino, E., Baccarelli, A., Hou, L. & Liu, L., Jul 26 2017, In : Statistical Applications in Genetics and Molecular Biology. 16, 3, p. 159-171 13 p.

Research output: Contribution to journalArticle

2 Scopus citations

Traffic-derived particulate matter exposure and histone H3 modification: A repeated measures study

Zheng, Y., Sanchez-Guerra, M., Zhang, Z., Joyce, B. T., Zhong, J., Kresovich, J. K., Liu, L., Zhang, W., Gao, T., Chang, D., Osorio-Yanez, C., Carmona, J. J., Wang, S., McCracken, J. P., Zhang, X., Chervona, Y., Díaz, A., Bertazzi, P. A., Koutrakis, P., Kang, C. M. & 3 others, Schwartz, J., Baccarelli, A. A. & Hou, L., Feb 1 2017, In : Environmental Research. 153, p. 112-119 8 p.

Research output: Contribution to journalArticle

20 Scopus citations

Ultra-high dimensional variable selection with application to normative aging study: DNA methylation and metabolic syndrome

Yoon, G., Zheng, Y., Zhang, Z., Zhang, H., Gao, T., Joyce, B., Zhang, W., Guan, W., Baccarelli, A. A., Jiang, W., Schwartz, J., Vokonas, P. S., Hou, L. & Liu, L., Mar 7 2017, In : BMC bioinformatics. 18, 1, 156.

Research output: Contribution to journalArticle

3 Scopus citations
2016

A genetic variation associated with plasma erythropoietin and a non-coding transcript of PRKAR1A in sickle cell disease

Zhang, X., Shah, B. N., Zhang, W., Saraf, S. L., Miasnikova, G., Sergueeva, A., Ammosova, T., Niu, X., Nouraie, M., Nekhai, S., Castro, O., Gladwin, M. T., Prchal, J. T., Garcia, J. G. N., Machado, R. F. & Gordeuk, V. R., 2016, In : Human molecular genetics. 25, 20, p. 4601-4609 9 p.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations

Blood Epigenetic Age may Predict Cancer Incidence and Mortality

Zheng, Y., Joyce, B. T., Colicino, E., Liu, L., Zhang, W., Dai, Q., Shrubsole, M. J., Kibbe, W. A., Gao, T., Zhang, Z., Jafari, N., Vokonas, P., Schwartz, J., Baccarelli, A. A. & Hou, L., Mar 1 2016, In : EBioMedicine. 5, p. 68-73 6 p.

Research output: Contribution to journalArticle

65 Scopus citations

DNA methylation of oxidative stress genes and cancer risk in the Normative Aging Study

Gao, T., Joyce, B. T., Liu, L., Zheng, Y., Dai, Q., Zhang, Z., Zhang, W., Shrubsole, M. J., Tao, M. H., Schwartz, J., Baccarelli, A. & Hou, L., 2016, In : American Journal of Cancer Research. 6, 2, p. 553-561 9 p.

Research output: Contribution to journalArticle

9 Scopus citations

Estimating and testing high-dimensional mediation effects in epigenetic studies

Zhang, H., Zheng, Y., Zhang, Z., Gao, T., Joyce, B., Yoon, G., Zhang, W., Schwartz, J., Just, A., Colicino, E., Vokonas, P., Zhao, L., Lv, J., Baccarelli, A., Hou, L. & Liu, L., Oct 15 2016, In : Bioinformatics. 32, 20, p. 3150-3154 5 p.

Research output: Contribution to journalArticle

26 Scopus citations

Evaluation of inter-batch differences in stem-cell derived neurons

Morrison, G., Liu, C., Wing, C., Delaney, S. M., Zhang, W. & Dolan, M. E., Jan 1 2016, In : Stem Cell Research. 16, 1, p. 140-148 9 p.

Research output: Contribution to journalArticle

6 Scopus citations

Expression profiling elucidates a molecular gene signature for pulmonary hypertension in sarcoidosis

Singla, S., Javaid, K., Abbasi, T., Wade, M. S., Machado, R. F., Zhou, T., Casanova, N., Garcia, J. G. N., Zhang, W., Ma, S. F., Noth, I. & Sweiss, N. J., Dec 1 2016, In : Pulmonary Circulation. 6, 4, p. 465-471 7 p.

Research output: Contribution to journalArticle

8 Scopus citations

Genetics and population analysis: Estimating and testing high-dimensional mediation effects in epigenetic studies

Zhang, H., Zheng, Y., Zhang, Z., Gao, T., Joyce, B., Yoon, G., Zhang, W., Schwartz, J., Just, A., Colicino, E., Vokonas, P., Zhao, L., Lv, J., Baccarelli, A., Hou, L. & Liu, L., Oct 15 2016, In : Bioinformatics. 32, 20, p. 1-5 5 p.

Research output: Contribution to journalArticle

Linking short tandem repeat polymorphisms with cytosine modifications in human lymphoblastoid cell lines

Zhang, Z., Zheng, Y., Zhang, X., Liu, C., Joyce, B. T., Kibbe, W. A., Hou, L. & Zhang, W., Feb 1 2016, In : Human Genetics. 135, 2, p. 223-232 10 p.

Research output: Contribution to journalArticle

2 Scopus citations

PAR1 Scaffolds TGFβRII to Downregulate TGF-β Signaling and Activate ESC Differentiation to Endothelial Cells

Gong, H., An, S., Sassmann, A., Liu, M., Mastej, V., Mittal, M., Zhang, W., Hong, Z., Offermanns, S., Rehman, J. & Malik, A. B., Dec 13 2016, In : Stem cell reports. 7, 6, p. 1050-1058 9 p.

Research output: Contribution to journalArticle

9 Scopus citations

Particulate air pollution exposure and expression of viral and human MicroRNAs in blood: The beijing truck driver air pollution study

Hou, L., Barupal, J., Zhang, W., Zheng, Y., Liu, L., Zhang, X., Dou, C., McCracken, J. P., Díaz, A., Motta, V., Sanchez-Guerra, M., Wolf, K. R., Bertazzi, P. A., Schwartz, J. D., Wang, S. & Baccarelli, A. A., Mar 2016, In : Environmental health perspectives. 124, 3, p. 344-350 7 p.

Research output: Contribution to journalArticle

19 Scopus citations

Prospective changes in global DNA methylation and cancer incidence and mortality

Joyce, B. T., Gao, T., Zheng, Y., Liu, L., Zhang, W., Dai, Q., Shrubsole, M. J., Hibler, E. A., Cristofanilli, M., Zhang, H., Yang, H., Vokonas, P., Cantone, L., Schwartz, J., Baccarelli, A. & Hou, L., Aug 9 2016, In : British Journal of Cancer. 115, 4, p. 465-472 8 p.

Research output: Contribution to journalArticle

20 Scopus citations
2 Scopus citations

Transcript isoform variation associated with cytosine modification in human lymphoblastoid cell lines

Zhang, X. & Zhang, W., Jun 2016, In : Genetics. 203, 2, p. 985-995 11 p.

Research output: Contribution to journalArticle

2 Scopus citations
2015

Activation of type II cells into regenerative stem cell antigen-1+ cells during alveolar repair

Liu, Y., Kumar, V. S., Zhang, W., Rehman, J. & Malik, A. B., Jul 1 2015, In : American journal of respiratory cell and molecular biology. 53, 1, p. 113-124 12 p.

Research output: Contribution to journalArticle

15 Scopus citations

Blood Telomere Length Attrition and Cancer Development in the Normative Aging Study Cohort

Hou, L., Joyce, B. T., Gao, T., Liu, L., Zheng, Y., Penedo, F. J., Liu, S., Zhang, W., Bergan, R., Dai, Q., Vokonas, P., Hoxha, M., Schwartz, J. & Baccarelli, A., Jun 1 2015, In : EBioMedicine. 2, 6, p. 591-596 6 p.

Research output: Contribution to journalArticle

41 Scopus citations

Characterization of CpG sites that escape methylation on the inactive human X-chromosome

Moen, E. L., Litwin, E., Arnovitz, S., Zhang, X., Zhang, W., Dolan, M. E. & Godley, L. A., 2015, In : Epigenetics. 10, 9, p. 810-818 9 p.

Research output: Contribution to journalArticle

7 Scopus citations

Characterization of genome-wide H3K27ac profiles reveals a distinct PM2.5-associated histone modification signature

Liu, C., Xu, J., Chen, Y., Guo, X., Zheng, Y., Wang, Q., Chen, Y., Ni, Y., Zhu, Y., Joyce, B. T., Baccarelli, A., Deng, F., Zhang, W. & Hou, L., Aug 15 2015, In : Environmental Health: A Global Access Science Source. 14, 1, 65.

Research output: Contribution to journalArticle

17 Scopus citations

Effects of particulate matter exposure on blood 5-hydroxymethylation: Results from the Beijing truck driver air pollution study

Sanchez-Guerra, M., Zheng, Y., Osorio-Yanez, C., Zhong, J., Chervona, Y., Wang, S., Chang, D., McCracken, J. P., Díaz, A., Bertazzi, P. A., Koutrakis, P., Kang, C. M., Zhang, X., Zhang, W., Byun, H. M., Schwartz, J., Hou, L. & Baccarelli, A. A., Jan 1 2015, In : Epigenetics. 10, 7, p. 633-642 10 p.

Research output: Contribution to journalArticle

42 Scopus citations

Longitudinal study of DNA methylation of inflammatory genes and cancer risk

Joyce, B. T., Gao, T., Liu, L., Zheng, Y., Liu, S., Zhang, W., Penedo, F. J., Dai, Q., Schwartz, J., Baccarelli, A. A. & Hou, L., Oct 1 2015, In : Cancer Epidemiology Biomarkers and Prevention. 24, 10, p. 1531-1538 8 p.

Research output: Contribution to journalArticle

19 Scopus citations

Pathologic mechanical stress and endotoxin exposure increases lung endothelial microparticle shedding

Letsiou, E., Sammani, S., Zhang, W., Zhou, T., Quijada, H., Moreno-Vinasco, L., Dudek, S. M. & Garcia, J. G. N., Jan 1 2015, In : American Journal of Respiratory Cell and Molecular Biology. 52, 2, p. 193-204 12 p.

Research output: Contribution to journalArticle

34 Scopus citations

PRMT1 Is a novel regulator of epithelial-mesenchymal-transition in non-small cell lung cancer

Avasarala, S., Van Scoyk, M., Rathinam, M. K. K., Zerayesus, S., Zhao, X., Zhang, W., Pergande, M. R., Borgia, J. A., DeGregori, J., Port, J. D., Winn, R. A. & Bikkavilli, R. K., May 22 2015, In : Journal of Biological Chemistry. 290, 21, p. 13479-13489 11 p.

Research output: Contribution to journalArticle

58 Scopus citations

RNA expression of genes involved in cytarabine metabolism and transport predicts cytarabine response in acute myeloid leukemia

Abraham, A., Varatharajan, S., Karathedath, S., Philip, C., Lakshmi, K. M., Jayavelu, A. K., Mohanan, E., Janet, N. B., Srivastava, V. M., Shaji, R. V., Zhang, W., Abraham, A., Viswabandya, A., George, B., Chandy, M., Srivastava, A., Mathews, V. & Balasubramanian, P., Jul 1 2015, In : Pharmacogenomics. 16, 8, p. 877-890 14 p.

Research output: Contribution to journalArticle

22 Scopus citations

SCAN database: Facilitating integrative analyses of cytosine modification and expression QTL

Zhang, W., Gamazon, E. R., Zhang, X., Konkashbaev, A., Liu, C., Szilágyi, K. L., Dolan, M. E. & Cox, N. J., 2015, In : Database. 2015

Research output: Contribution to journalArticle

16 Scopus citations
2014

Ancestry-informative markers for African Americans based on the Affymetrix Pan-African genotyping array

Zhang, X., Mu, W., Liu, C. & Zhang, W., 2014, In : PeerJ. 2014, 1, e660.

Research output: Contribution to journalArticle

2 Scopus citations

Blood methylomics in response to arsenic exposure in a low-exposed US population

Liu, X., Zheng, Y., Zhang, W., Zhang, X., Lioyd-Jones, D. M., Baccarelli, A. A., Ning, H., Fornage, M., He, K., Liu, K. & Hou, L., Mar 1 2014, In : Journal of Exposure Science and Environmental Epidemiology. 24, 2, p. 145-149 5 p.

Research output: Contribution to journalArticle

18 Scopus citations

Efficacy results of a 52-week trial of adalimumab in the treatment of refractory sarcoidosis

Sweiss, N. J., Noth, I., Mirsaeidi, M., Zhang, W., Naureckas, E. T., Hogarth, D. K., Strek, M., Caligiuri, P., Machado, R. F., Niewold, T. B., Garcia, J. G. N., Pangan, A. L. & Baughman, R. P., 2014, In : Sarcoidosis Vasculitis and Diffuse Lung Diseases. 31, 1, p. 46-54 9 p.

Research output: Contribution to journalArticle

48 Scopus citations

Endothelial nitric oxide synthase dimerization is regulated by heat shock protein 90 rather than by phosphorylation

Chen, W., Xiao, H., Rizzo, A. N., Zhang, W., Mai, Y. & Ye, M., Aug 25 2014, In : PloS one. 9, 8, e105479.

Research output: Contribution to journalArticle

23 Scopus citations

GADD45a promoter regulation by a functional genetic variant associated with acute lung injury

Mitra, S., Wade, M. S., Sun, X., Moldobaeva, N., Flores, C., Shwu-Fan, M., Zhang, W., Garcia, J. G. N. & Jacobson, J. R., Jun 18 2014, In : PloS one. 9, 6, e100169.

Research output: Contribution to journalArticle

8 Scopus citations

Genetic variation is the major determinant of individual differences in leukocyte endothelial adhesion

Grassi, M. A., Rao, V., Winkler, K. P., Zhang, W., Bogaard, J. D., Chen, S., LaCroix, B., Lenkala, D., Rehman, J., Malik, A. B., Cox, N. J. & Huang, R. S., Feb 10 2014, In : PloS one. 9, 2, e87883.

Research output: Contribution to journalArticle

3 Scopus citations
2 Scopus citations

Hypoxic response contributes to altered gene expression and precapillary pulmonary hypertension in patients with sickle cell disease

Zhang, X., Zhang, W., Ma, S. F., Desai, A. A., Saraf, S., Miasniakova, G., Sergueeva, A., Ammosova, T., Xu, M., Nekhai, S., Abbasi, T., Casanova, N. G., Steinberg, M. H., Baldwin, C. T., Sebastiani, P., Prchal, J. T., Kittles, R., Garcia, J. G. N., MacHado, R. F. & Gordeuk, V. R., Apr 22 2014, In : Circulation. 129, 16, p. 1650-1658 9 p.

Research output: Contribution to journalArticle

22 Scopus citations

Iron deficiency modifies gene expression variation induced by augmented hypoxia sensing

Zhang, X., Zhang, W., Ma, S. F., Miasniakova, G., Sergueeva, A., Ammosova, T., Xu, M., Nekhai, S., Nourai, M., Wade, M. S., Prchal, J. T., Garcia, J. G. N., Machado, R. F. & Gordeuk, V. R., Jan 2014, In : Blood Cells, Molecules, and Diseases. 52, 1, p. 35-45 11 p.

Research output: Contribution to journalArticle

12 Scopus citations

Linking the genetic architecture of cytosine modifications with human complex traits

Zhang, X., Moen, E. L., Liu, C., Mu, W., Gamazon, E. R., Delaney, S. M., Wing, C., Godley, L. A., Dolan, M. E. & Zhang, W., Nov 15 2014, In : Human molecular genetics. 23, 22, p. 5893-5905 13 p.

Research output: Contribution to journalArticle

24 Scopus citations

PGS: A tool for association study of high-dimensional microRNA expression data with repeated measures

Zheng, Y., Fei, Z., Zhang, W., Starren, J. B., Liu, L., Baccarelli, A. A., Li, Y. & Hou, L., Apr 2 2014, In : Bioinformatics. 30, 19, p. 2802-2807 6 p.

Research output: Contribution to journalArticle

5 Scopus citations

The mitochondrial cardiolipin remodeling enzyme lysocardiolipin acyltransferase is a novel target in pulmonary fibrosis

Huang, L. S., Mathew, B., Li, H., Zhao, Y., Ma, S. F., Noth, I., Reddy, S. P., Harijith, A., Usatyuk, P. V., Berdyshev, E. V., Kaminski, N., Zhou, T., Zhang, W., Zhang, Y., Rehman, J., Kotha, S. R., Gurney, T. O., Parinandi, N. L., Lussier, Y. A., Garcia, J. G. N. & 1 others, Natarajan, V., Jun 1 2014, In : American journal of respiratory and critical care medicine. 189, 11, p. 1402-1415 14 p.

Research output: Contribution to journalArticle

27 Scopus citations