• 4780 Citations
  • 40 Scopus h-Index
19952020

Research output per year

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Research Output

Accurate patient-specific machine learning models of glioblastoma invasion using transfer learning

Hu, L. S., Yoon, H., Eschbacher, J. M., Baxter, L. C., Dueck, A. C., Nespodzany, A., Smith, K. A., Nakaji, P., Xu, Y., Wang, L., Karis, J. P., Hawkins-Daarud, A. J., Singleton, K. W., Jackson, P. R., Anderies, B. J., Bendok, B. R., Zimmerman, R. S., Quarles, C., Porter-Umphrey, A. B., Mrugala, M. M. & 11 others, Sharma, A., Hoxworth, J. M., Sattur, M. G., Sanai, N., Koulemberis, P. E., Krishna, C., Mitchell, J. R., Wu, T., Tran, N. L., Swanson, K. R. & Li, J., 2019, In : American Journal of Neuroradiology. 40, 3, p. 418-425 8 p.

Research output: Contribution to journalArticle

Open Access
3 Scopus citations

A knowledge based approach for representing and reasoning about signaling networks

Baral, C., Chancellor, K., Tran, N., Tran, N. L., Joy, A. & Berens, M., Dec 1 2004, In : Bioinformatics. 20, SUPPL. 1, p. i15-i22

Research output: Contribution to journalArticle

54 Scopus citations

Altered gene expression in human astrocytoma cells selected for migration: I. Thromboxane synthase

Mcdonough, W., Tran, N., Giese, A., Norman, S. A. & Berens, M. E., May 1998, In : Journal of Neuropathology and Experimental Neurology. 57, 5, p. 449-455 7 p.

Research output: Contribution to journalArticle

Open Access
51 Scopus citations

An integrated approach to identifying clinically relevant targets in pediatric gliomas

McEachron, T. A., Tomboc, P. & Tran, N. L., Jul 1 2013, In : CNS oncology. 2, 4, p. 303-306 4 p.

Research output: Contribution to journalEditorial

1 Scopus citations

A Novel Signaling Complex between TROY and EGFR Mediates Glioblastoma Cell Invasion

Ding, Z., Roos, A., Kloss, J., Dhruv, H., Peng, S., Pirrotte, P., Eschbacher, J. M., Tran, N. & Loftus, J. C., Feb 1 2018, In : Molecular Cancer Research. 16, 2, p. 322-332 11 p.

Research output: Contribution to journalArticle

5 Scopus citations

Author Correction: Combination of ERK and autophagy inhibition as a treatment approach for pancreatic cancer (Nature Medicine, (2019), 25, 4, (628-640), 10.1038/s41591-019-0368-8)

Bryant, K. L., Stalnecker, C. A., Zeitouni, D., Klomp, J. E., Peng, S., Tikunov, A. P., Gunda, V., Pierobon, M., Waters, A. M., George, S. D., Tomar, G., Papke, B., Hobbs, G. A., Yan, L., Hayes, T. K., Diehl, J. N., Goode, G. D., Chaika, N. V., Wang, Y., Zhang, G. F. & 11 others, Witkiewicz, A. K., Knudsen, E. S., Petricoin, E. F., Singh, P. K., Macdonald, J. M., Tran, N. L., Lyssiotis, C. A., Ying, H., Kimmelman, A. C., Cox, A. D. & Der, C. J., Jun 1 2020, In : Nature Medicine. 26, 6, 1 p.

Research output: Contribution to journalComment/debate

Open Access

Cdc42 and the guanine nucleotide exchange factors Ect2 and trio mediate Fn14-induced migration and invasion of glioblastoma cells

Fortin, S. P., Ennis, M. J., Schumacher, C. A., Zylstra-Diegel, C. R., Williams, B. O., Ross, J. T. D., Winkles, J. A., Loftus, J. C., Symons, M. H. & Tran, N. L., Jul 1 2012, In : Molecular Cancer Research. 10, 7, p. 958-968 11 p.

Research output: Contribution to journalArticle

59 Scopus citations

Cell migration and invasion assays

Valster, A., Tran, N. L., Nakada, M., Berens, M. E., Chan, A. Y. & Symons, M., Oct 1 2005, In : Methods. 37, 2, p. 208-215 8 p.

Research output: Contribution to journalArticle

219 Scopus citations

Combination of ERK and autophagy inhibition as a treatment approach for pancreatic cancer

Bryant, K. L., Stalnecker, C. A., Zeitouni, D., Klomp, J. E., Peng, S., Tikunov, A. P., Gunda, V., Pierobon, M., Waters, A. M., George, S. D., Tomar, G., Papke, B., Hobbs, G. A., Yan, L., Hayes, T. K., Diehl, J. N., Goode, G. D., Chaika, N. V., Wang, Y., Zhang, G. F. & 11 others, Witkiewicz, A. K., Knudsen, E. S., Petricoin, E. F., Singh, P. K., Macdonald, J. M., Tran, N. L., Lyssiotis, C. A., Ying, H., Kimmelman, A. C., Cox, A. D. & Der, C. J., Apr 1 2019, In : Nature Medicine. 25, 4, p. 628-640 13 p.

Research output: Contribution to journalArticle

76 Scopus citations

Critical role of the FERM domain in Pyk2 stimulated glioma cell migration

Lipinski, C. A., Tran, N. L., Dooley, A., Pang, Y. P., Rohl, C., Kloss, J., Yang, Z., McDonough, W., Craig, D., Berens, M. E. & Loftus, J. C., Oct 27 2006, In : Biochemical and Biophysical Research Communications. 349, 3, p. 939-947 9 p.

Research output: Contribution to journalArticle

20 Scopus citations

Current approaches to the treatment of metastatic brain tumours

Owonikoko, T. K., Arbiser, J., Zelnak, A., Shu, H. K. G., Shim, H., Robin, A. M., Kalkanis, S. N., Whitsett, T. G., Salhia, B., Tran, N. L., Ryken, T., Moore, M. K., Egan, K. M. & Olson, J. J., Apr 25 2014, In : Nature Reviews Clinical Oncology. 11, 4, p. 203-222 20 p.

Research output: Contribution to journalReview article

135 Scopus citations
6 Scopus citations

Decreased nonspecific adhesivity, receptor-targeted therapeutic nanoparticles for primary and metastatic breast cancer

Dancy, J. G., Wadajkar, A. S., Connolly, N. P., Galisteo, R., Ames, H. M., Peng, S., Tran, N. L., Goloubeva, O. G., Woodworth, G. F., Winkles, J. A. & Kim, A. J., 2020, In : Science Advances. 6, 3, eaax3931.

Research output: Contribution to journalArticle

Open Access
3 Scopus citations

Development of human serine protease-based therapeutics targeting Fn14 and identification of Fn14 as a new target overexpressed in TNBC

Zhou, H., Mohamedali, K. A., Gonzalez-Angulo, A. M., Cao, Y., Migliorini, M., Cheung, L. H., LoBello, J., Lei, X., Qi, Y., Hittelman, W. N., Winkles, J. A., Tran, N. L. & Rosenblum, M. G., Nov 1 2014, In : Molecular cancer therapeutics. 13, 11, p. 2688-2705 18 p.

Research output: Contribution to journalArticle

11 Scopus citations

Dichotomy of astrocytoma migration and proliferation

Giese, A., Loo, M. A., Tran, N., Haskett, D., Coons, S. W. & Berens, M. E., Aug 29 1996, In : International Journal of Cancer. 67, 2, p. 275-282 8 p.

Research output: Contribution to journalArticle

255 Scopus citations

Differential expression of the TWEAK receptor Fn14 in IDH1 wild-type and mutant gliomas

Hersh, D. S., Peng, S., Dancy, J. G., Galisteo, R., Eschbacher, J. M., Castellani, R. J., Heath, J. E., Legesse, T., Kim, A. J., Woodworth, G. F., Tran, N. L. & Winkles, J. A., Jun 1 2018, In : Journal of neuro-oncology. 138, 2, p. 241-250 10 p.

Research output: Contribution to journalArticle

2 Scopus citations

Differential role of proline-rich tyrosine kinase 2 and focal adhesion kinase in determining glioblastoma migration and proliferation

Lipinski, C. A., Tran, N. L., Bay, C., Kloss, J., McDonough, W. S., Beaudry, C., Berens, M. E. & Loftus, J. C., Mar 1 2003, In : Molecular Cancer Research. 1, 5, p. 323-332 10 p.

Research output: Contribution to journalArticle

61 Scopus citations

EGFRvIII–Stat5 signaling enhances glioblastoma cell migration and survival

Roos, A., Dhruv, H. D., Peng, S., Inge, L. J., Tuncali, S., Pineda, M., Millard, N., Mayo, Z., Eschbacher, J. M., Loftus, J. C., Winkles, J. A. & Tran, N., Jul 1 2018, In : Molecular Cancer Research. 16, 7, p. 1185-1195 11 p.

Research output: Contribution to journalArticle

6 Scopus citations

Elevated expression of Fn14 in non-small cell lung cancer correlates with activated EGFR and promotes tumor cell migration and invasion

Whitsett, T. G., Cheng, E., Inge, L., Asrani, K., Jameson, N. M., Hostetter, G., Weiss, G. J., Kingsley, C. B., Loftus, J. C., Bremner, R., Tran, N. L. & Winkles, J. A., Jul 1 2012, In : American Journal of Pathology. 181, 1, p. 111-120 10 p.

Research output: Contribution to journalArticle

36 Scopus citations

EphB2/R-ras signaling regulates glioma cell adhesion, growth, and invasion

Nakada, M., Niska, J. A., Tran, N. L., McDonough, W. S. & Berens, M. E., Aug 2005, In : American Journal of Pathology. 167, 2, p. 565-576 12 p.

Research output: Contribution to journalArticle

116 Scopus citations

Evaluation of pre-analytical factors affecting plasma DNA analysis

Markus, H., Contente-Cuomo, T., Farooq, M., Liang, W. S., Borad, M. J., Sivakumar, S., Gollins, S., Tran, N. L., Dhruv, H. D., Berens, M. E., Bryce, A., Sekulic, A., Ribas, A., Trent, J. M., Lorusso, P. M. & Murtaza, M., Dec 1 2018, In : Scientific reports. 8, 1, 7375.

Research output: Contribution to journalArticle

32 Scopus citations

Extended survival of Pyk2 or FAK deficient orthotopic glioma xenografts

Lipinski, C. A., Tran, N. L., Viso, C., Kloss, J., Yang, Z., Berens, M. E. & Loftus, J. C., Jul 24 2008, In : Journal of neuro-oncology. 90, 2, p. 181-189 9 p.

Research output: Contribution to journalArticle

18 Scopus citations

FN14 expression correlates with MET in NSCLC and promotes MET-driven cell invasion

Whitsett, T. G., Fortin Ensign, S. P., Dhruv, H. D., Inge, L. J., Kurywchak, P., Wolf, K. K., LoBello, J., Kingsley, C. B., Allen, J. W., Weiss, G. J. & Tran, N. L., Aug 2014, In : Clinical and Experimental Metastasis. 31, 6, p. 613-623 11 p.

Research output: Contribution to journalArticle

14 Scopus citations

Genomic and phenotypic characterization of a broad panel of patient-derived xenografts reflects the diversity of glioblastoma

Vaubel, R. A., Tian, S., Remonde, D., Schroeder, M. A., Mladek, A. C., Kitange, G. J., Caron, A., Kollmeyer, T. M., Grove, R., Peng, S., Carlson, B. L., Ma, D. J., Sarkar, G., Evers, L., Decker, P. A., Yan, H., Dhruv, H. D., Berens, M. E., Wang, Q., Marin, B. M. & 14 others, Klee, E. W., Califano, A., LaChance, D. H., Eckel-Passow, J. E., Verhaak, R. G., Sulman, E. P., Burns, T. C., Meyer, F. B., O'Neill, B. P., Tran, N. L., Giannini, C., Jenkins, R. B., Parney, I. F. & Sarkaria, J. N., Mar 1 2020, In : Clinical Cancer Research. 26, 5, p. 1094-1104 11 p.

Research output: Contribution to journalArticle

2 Scopus citations

Germline predisposition and copy number alteration in pre-stage lung adenocarcinomas presenting as ground-glass nodules

Ren, Y., Huang, S., Dai, C., Xie, D., Zheng, L., Xie, H., Zheng, H., She, Y., Zhou, F., Wang, Y., Li, P., Fei, K., Jiang, G., Zhang, Y., Su, B., Alejandro Sweet-Cordero, E., Tran, N. L., Yang, Y., Patel, J. N., Rolfo, C. & 7 others, Rocco, G., Cardona, A. F., Tuzi, A., Suter, M. B., Yang, P., Xu, W. & Chen, C., 2019, In : Frontiers in Oncology. 9, MAR, 288.

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

Glycogene expression alterations associated with pancreatic cancer Epithelial-mesenchymal transition in complementary model systems

Maupin, K. A., Sinha, A., Eugster, E., Miller, J., Ross, J., Paulino, V., Keshamouni, V. G., Tran, N., Berens, M., Webb, C. & Haab, B. B., 2010, In : PloS one. 5, 9, e13002.

Research output: Contribution to journalArticle

69 Scopus citations

Guanine nucleotide exchange factor Dock7 mediates HGF-induced glioblastoma cell invasion via Rac activation

Murray, D. W., Didier, S., Chan, A., Paulino, V., Van Aelst, L., Ruggieri, R., Tran, N. L., Byrne, A. T. & Symons, M., Mar 4 2014, In : British journal of cancer. 110, 5, p. 1307-1315 9 p.

Research output: Contribution to journalArticle

16 Scopus citations
20 Scopus citations

Identification of aurintricarboxylic acid as a selective inhibitor of the TWEAK-Fn14 signaling pathway in glioblastoma cells

Roos, A., Dhruv, H. D., Mathews, I. T., Inge, L. J., Tuncali, S., Hartman, L. K., Chow, D., Millard, N., Yin, H. H., Kloss, J., Loftus, J. C., Winkles, J. A., Berens, M. E. & Tran, N. L., 2017, In : Oncotarget. 8, 7, p. 12234-12246 13 p.

Research output: Contribution to journalArticle

11 Scopus citations

Identification of Fn14/TWEAK receptor as a potential therapeutic target in esophageal adenocarcinoma

Watts, G. S., Tran, N. L., Berens, M. E., Bhattacharyya, A. K., Nelson, M. A., Montgomery, E. A. & Sampliner, R. E., Nov 15 2007, In : International Journal of Cancer. 121, 10, p. 2132-2139 8 p.

Research output: Contribution to journalArticle

48 Scopus citations

Implications of Rho GTPase signaling in glioma cell invasion and tumor progression

Fortin Ensign, S. P., Mathews, I. T., Symons, M. H., Berens, M. E. & Tran, N. L., 2013, In : Frontiers in Oncology. 3 OCT, Article 241.

Research output: Contribution to journalReview article

64 Scopus citations

Increased fibroblast growth factor-inducible 14 expression levels promote glioma cell invasion via Rac1 and nuclear factor-κB and correlate with poor patient outcome

Tran, N. L., McDonough, W. S., Savitch, B. A., Fortin, S. P., Winkles, J. A., Symons, M., Nakada, M., Cunliffe, H. E., Hostetter, G., Hoelzinger, D. B., Rennert, J. L., Michaelson, J. S., Burkly, L. C., Lipinski, C. A., Loftus, J. C., Mariani, L. & Berens, M. E., Oct 1 2006, In : Cancer research. 66, 19, p. 9535-9542 8 p.

Research output: Contribution to journalArticle

139 Scopus citations

Inhibition of phosphatidylinositol 3-kinase by PX-866 suppresses temozolomide-induced autophagy and promotes apoptosis in glioblastoma cells

Harder, B. G., Peng, S., Sereduk, C. P., Sodoma, A. M., Kitange, G. J., Loftus, J. C., Sarkaria, J. N. & Tran, N. L., Nov 14 2019, In : Molecular Medicine. 25, 1, 49.

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

Integrated genomic analysis of survival outliers in glioblastoma

Peng, S., Dhruv, H., Armstrong, B., Salhia, B., Legendre, C., Kiefer, J., Parks, J., Virk, S., Sloan, A. E., Ostrom, Q. T., Barnholtz-Sloan, J. S., Tran, N. & Berens, M. E., 2017, In : Neuro-Oncology. 19, 6, p. 833-844 12 p.

Research output: Contribution to journalArticle

11 Scopus citations

Integrated genomic and epigenomic analysis of breast cancer brain metastasis

Salhia, B., Kiefer, J., Ross, J. T. D., Metapally, R., Martinez, R. A., Johnson, K. N., DiPerna, D. M., Paquette, K. M., Jung, S., Nasser, S., Wallstrom, G., Tembe, W., Baker, A., Carpten, J., Resau, J., Ryken, T., Sibenaller, Z., Petricoin, E. F., Liotta, L. A., Ramanathan, R. K. & 2 others, Berens, M. E. & Tran, N. L., Jan 29 2014, In : PloS one. 9, 1, e85448.

Research output: Contribution to journalArticle

63 Scopus citations

Integrated mapping of pharmacokinetics and pharmacodynamics in a patient-derived xenograft model of glioblastoma

Randall, E. C., Emdal, K. B., Laramy, J. K., Kim, M., Roos, A., Calligaris, D., Regan, M. S., Gupta, S. K., Mladek, A. C., Carlson, B. L., Johnson, A. J., Lu, F. K., Xie, X. S., Joughin, B. A., Reddy, R. J., Peng, S., Abdelmoula, W. M., Jackson, P. R., Kolluri, A., Kellersberger, K. A. & 8 others, Agar, J. N., Lauffenburger, D. A., Swanson, K. R., Tran, N. L., Elmquist, W. F., White, F. M., Sarkaria, J. N. & Agar, N. Y. R., Dec 1 2018, In : Nature communications. 9, 1, 4904.

Research output: Contribution to journalArticle

15 Scopus citations

Integrin- and cadherin-mediated induction of the matrix metalloprotease matrilysin in cocultures of malignant oral squamous cell carcinoma cells and dermal fibroblasts

Bair, E. L., Massey, C. P., Tran, N. L., Borchers, A. H., Heimark, R. L., Cress, A. E. & Bowden, G. T., Nov 1 2001, In : Experimental Cell Research. 270, 2, p. 259-267 9 p.

Research output: Contribution to journalArticle

31 Scopus citations

IRS1 is highly expressed in localized breast tumors and regulates the sensitivity of breast cancer cells to chemotherapy, while IRS2 is highly expressed in invasive breast tumors

Porter, H. A., Perry, A., Kingsley, C., Tran, N. L. & Keegan, A. D., Sep 28 2013, In : Cancer Letters. 338, 2, p. 239-248 10 p.

Research output: Contribution to journalArticle

38 Scopus citations

Leveraging spatial variation in tumor purity for improved somatic variant calling of archival tumor only samples

Halperin, R. F., Liang, W. S., Kulkarni, S., Tassone, E. E., Adkins, J., Enriquez, D., Tran, N. L., Hank, N. C., Newell, J., Kodira, C., Korn, R., Berens, M. E., Kim, S. & Byron, S. A., 2019, In : Frontiers in Oncology. 9, MAR, 119.

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

LKB1 inactivation sensitizes non-small cell lung cancer to pharmacological aggravation of ER stress

Inge, L. J., Friel, J. M., Richer, A. L., Fowler, A. J., Whitsett, T., Smith, M. A., Tran, N. L. & Bremner, R. M., Oct 1 2014, In : Cancer Letters. 352, 2, p. 187-195 9 p.

Research output: Contribution to journalArticle

12 Scopus citations

Localized metabolomic gradients in patient-derived xenograft models of glioblastoma

Randall, E. C., Lopez, B. G. C., Peng, S., Regan, M. S., Abdelmoula, W. M., Basu, S. S., Santagata, S., Yoon, H., Haigis, M. C., Agar, J. N., Tran, N. L., Elmquist, W. F., White, F. M., Sarkaria, J. N. & Agar, N. Y. R., Mar 15 2020, In : Cancer research. 80, 6, p. 1258-1267 10 p.

Research output: Contribution to journalArticle

3 Scopus citations

Low-Dose Vertical Inhibition of the RAF-MEK-ERK Cascade Causes Apoptotic Death of KRAS Mutant Cancers

Ozkan-Dagliyan, I., Diehl, J. N., George, S. D., Schaefer, A., Papke, B., Klotz-Noack, K., Waters, A. M., Goodwin, C. M., Gautam, P., Pierobon, M., Peng, S., Gilbert, T. S. K., Lin, K. H., Dagliyan, O., Wennerberg, K., Petricoin, E. F., Tran, N. L., Bhagwat, S. V., Tiu, R. V., Peng, S. B. & 6 others, Herring, L. E., Graves, L. M., Sers, C., Wood, K. C., Cox, A. D. & Der, C. J., Jun 16 2020, In : Cell reports. 31, 11, 107764.

Research output: Contribution to journalArticle

Open Access

Mcl-1 mediates TWEAK/Fn14-induced non-small cell lung cancer survival and therapeutic response

Whitsett, T. G., Mathews, I. T., Cardone, M. H., Lena, R. J., Pierceall, W. E., Bittner, M., Sima, C., LoBello, J., Weiss, G. J. & Tran, N. L., Apr 2014, In : Molecular Cancer Research. 12, 4, p. 550-559 10 p.

Research output: Contribution to journalArticle

22 Scopus citations

MetaMarker: A pipeline for de novo discovery of novel metagenomic biomarkers

Koohi-Moghadam, M., Borad, M. J., Tran, N. L., Swanson, K. R., Boardman, L. A., Sun, H. & Wang, J., Oct 1 2019, In : Bioinformatics. 35, 19, p. 3812-3814 3 p.

Research output: Contribution to journalArticle

MicroRNA-328 is associated with (non-small) cell lung cancer (NSCLC) brain metastasis and mediates NSCLC migration

Arora, S., Ranade, A. R., Tran, N. L., Nasser, S., Sridhar, S., Korn, R. L., Ross, J. T. D., Dhruv, H., Foss, K. M., Sibenaller, Z., Ryken, T., Gotway, M. B., Kim, S. & Weiss, G. J., Dec 1 2011, In : International Journal of Cancer. 129, 11, p. 2621-2631 11 p.

Research output: Contribution to journalArticle

123 Scopus citations

Migrating glioma cells activate the PI3-K pathway and display decreased susceptibility to apoptosis

Joy, A. M., Beaudry, C. E., Tran, N. L., Ponce, F. A., Holz, D. R., Demuth, T. & Berens, M. E., Nov 1 2003, In : Journal of cell science. 116, 21, p. 4409-4417 9 p.

Research output: Contribution to journalArticle

128 Scopus citations

MiRNA expression profiling in migrating Glioblastoma cells: Regulation of cell migration and invasion by miR-23b via targeting of Pyk2

Loftus, J. C., Ross, J. T. D., Paquette, K. M., Paulino, V. M., Nasser, S., Yang, Z., Kloss, J., Kim, S., Berens, M. E. & Tran, N. L., Jun 22 2012, In : PloS one. 7, 6, e39818.

Research output: Contribution to journalArticle

50 Scopus citations

Molecular and microenvironmental determinants of glioma stem-like cell survival and invasion

Roos, A., Ding, Z., Loftus, J. C. & Tran, N. L., Jun 16 2017, In : Frontiers in Oncology. 7, JUN, 120.

Research output: Contribution to journalReview article

48 Scopus citations

Molecular determinants of lung cancer metastasis to the central nervous system

Whitsett, T. G., Inge, L. J., Dhruv, H. D., Cheung, P. Y., Weiss, G. J., Bremner, R. M., Winkles, J. A. & Tran, N., 2013, In : Translational Lung Cancer Research. 2, 4, p. 273-283 11 p.

Research output: Contribution to journalReview article

9 Scopus citations

Molecular pathways triggering glioma cell invasion

Salhia, B., Tran, N. L., Symons, M., Winkles, J. A., Rutka, J. T. & Berens, M. E., Aug 11 2006, In : Expert Review of Molecular Diagnostics. 6, 4, p. 613-626 14 p.

Research output: Contribution to journalReview article

55 Scopus citations