Life Sciences Graduate Programs

Research Output

Article

'Hitting you over the head': Oncologists' disclosure of prognosis to advanced cancer patients

Gordon, E. J. & Daugherty, C. K., Jan 1 2003, In : Bioethics. 17, 2, p. 142-168 27 p.

Research output: Contribution to journalArticle

176 Scopus citations

HIV Protease Inhibitors Alter Amyloid Precursor Protein Processing via β-Site Amyloid Precursor Protein Cleaving Enzyme-1 Translational Up-Regulation

Gannon, P. J., Akay-Espinoza, C., Yee, A. C., Briand, L. A., Erickson, M. A., Gelman, B. B., Gao, Y., Haughey, N. J., Zink, M. C., Clements, J. E., Kim, N. S., Van De Walle, G., Jensen, B. K., Vassar, R., Pierce, R. C., Gill, A. J., Kolson, D. L., Diehl, J. A., Mankowski, J. L. & Jordan-Sciutto, K. L., Jan 1 2017, In : American Journal of Pathology. 187, 1, p. 91-109 19 p.

Research output: Contribution to journalArticle

14 Scopus citations
3 Scopus citations

Hypoxia-inducible factor 1-a promotes glomerulosclerosis and regulates COL1A2 expression through interactions with Smad3

Baumann, B., Hayashida, T., Liang, S. & Schnaper, HW., 2016, In : Kidney international. 90, p. 797-808 12 p.

Research output: Contribution to journalArticle

Identification and validation of regulatory SNPs that modulate transcription factor chromatin binding and gene expression in prostate cancer

Jin, H. J., Jung, S., DebRoy, A. R. & Davuluri, R. V., 2016, In : Oncotarget. 7, 34, p. 54616-54626 11 p.

Research output: Contribution to journalArticle

17 Scopus citations

Identification of a novel noncoding RNA gene, NAMA, that is downregulated in papillary thyroid carcinoma with BRAF mutation and associated with growth arrest

Yoon, H., He, H., Nagy, R., Davuluri, R., Suster, S., Schoenberg, D., Pellegata, N. & De La Chapelle, A., Aug 15 2007, In : International Journal of Cancer. 121, 4, p. 767-775 9 p.

Research output: Contribution to journalArticle

48 Scopus citations

Identification of genetic and epigenetic variants associated with breast cancer prognosis by integrative bioinformatics analysis

Shilpi, A., Bi, Y., Jung, S., Patra, S. K. & Davuluri, R. V., Jan 9 2017, In : Cancer Informatics. 16

Research output: Contribution to journalArticle

9 Scopus citations

Identification of host-chromosome binding sites and candidate gene targets for Kaposi's sarcoma-associated herpesvirus LANA

Lu, F., Tsai, K., Chen, H. S., Wikramasinghe, P., Davuluri, R. V., Showe, L., Domsic, J., Marmorstein, R. & Lieberman, P. M., May 1 2012, In : Journal of virology. 86, 10, p. 5752-5762 11 p.

Research output: Contribution to journalArticle

43 Scopus citations

Identification of natural products with neuronal and metabolic benefits through autophagy induction

Fan, Y., Wang, N., Rocchi, A., Zhang, W., Vassar, R., Zhou, Y. & He, C., Jan 2 2017, In : Autophagy. 13, 1, p. 41-56 16 p.

Research output: Contribution to journalArticle

24 Scopus citations

Identification of reprogrammed myeloid cell transcriptomes in NSCLC

Durrans, A., Gao, D., Gupta, R., Fischer, K. R., Choi, H., El Rayes, T., Ryu, S., Nasar, A., Spinelli, C. F., Andrews, W., Elemento, O., Nolan, D., Stiles, B., Rafii, S., Narula, N., Davuluri, R., Altorki, N. K. & Mittal, V., Jun 5 2015, In : PloS one. 10, 6, e0129123.

Research output: Contribution to journalArticle

10 Scopus citations

Identifying estrogen receptor α target genes using integrated computational genomics and chromatin immunoprecipitation microarray

Jin, V. X., Leu, Y. W., Liyanarachchi, S., Sun, H., Fan, M., Nephew, K. P., Huang, T. H. M. & Davuluri, R. V., Dec 1 2004, In : Nucleic acids research. 32, 22, p. 6627-6635 9 p.

Research output: Contribution to journalArticle

63 Scopus citations

Identifying the 3′-terminal exon in human DNA

Tabaska, J. E., Davuluri, R. V. & Zhang, M. Q., Jan 1 2001, In : Bioinformatics. 17, 7, p. 602-607 6 p.

Research output: Contribution to journalArticle

5 Scopus citations

IDH3α regulates one-carbon metabolism in glioblastoma

May, J. L., Kouri, F., Hurley, L. A., Liu, J., Tommasini-Ghelfi, S., Ji, Y., Gao, P., Calvert, A. E., Lee, A., Chandel, N., Davuluri, R. V., Horbinski, C. M., Locasale, J. W. & Stegh, A. H., Jan 1 2019, In : Science Advances. 5, 1, eaat0456.

Research output: Contribution to journalArticle

9 Scopus citations

IFN-γ- and TNF-dependent bystander eradication of antigen-loss variants in established mouse cancers

Zhang, B., Karrison, T., Rowley, D. A. & Schreiber, H., Apr 1 2008, In : Journal of Clinical Investigation. 118, 4, p. 1398-1404 7 p.

Research output: Contribution to journalArticle

97 Scopus citations

IL-18 increases invasiveness of HL-60 myeloid leukemia cells: Up-regulation of matrix metalloproteinases-9 (MMP-9) expression

Zhang, B., Wu, K. F., Cao, Z. Y., Rao, Q., Ma, X. T., Zheng, G. G. & Li, G., Jan 1 2004, In : Leukemia Research. 28, 1, p. 91-95 5 p.

Research output: Contribution to journalArticle

42 Scopus citations

Image analysis for retinopathy of prematurity diagnosis

Chiang, M. F., Gelman, R., Martinez-Perez, M. E., Du, Y. E., Casper, D. S., Currie, L. M., Shah, P. D., Starren, J. & Flynn, J. T., Oct 1 2009, In : Journal of AAPOS. 13, 5, p. 438-445 8 p.

Research output: Contribution to journalArticle

29 Scopus citations

Imaging patterns predict patient survival and molecular subtype in glioblastoma via machine learning techniques

Macyszyn, L., Akbari, H., Pisapia, J. M., Da, X., Attiah, M., Pigrish, V., Bi, Y., Pal, S., Davuluri, R. V., Roccograndi, L., Dahmane, N., Martinez-Lage, M., Biros, G., Wolf, R. L., Bilello, M., O'Rourke, D. M. & Davatzikos, C., Mar 1 2016, In : Neuro-oncology. 18, 3, p. 417-425 9 p.

Research output: Contribution to journalArticle

107 Scopus citations

Implementation of workflow engine technology to deliver basic clinical decision support functionality

Huser, V., Rasmussen, L. V., Oberg, R. & Starren, J. B., Apr 12 2011, In : BMC Medical Research Methodology. 11, 43.

Research output: Contribution to journalArticle

17 Scopus citations

Importance of multi-modal approaches to effectively identify cataract cases from electronic health records

Peissig, P. L., Rasmussen, L. V., Berg, R. L., Linneman, J. G., McCarty, C. A., Waudby, C., Chen, L., Denny, J. C., Wilke, R. A., Pathak, J., Carrell, D., Kho, A. N. & Starren, J. B., Mar 1 2012, In : Journal of the American Medical Informatics Association. 19, 2, p. 225-234 10 p.

Research output: Contribution to journalArticle

68 Scopus citations

Improved techniques for quantitatively comparing data visualizations.

Pieczkiewicz, D. S., Rasmussen, L. V. & Starren, J. B., Dec 1 2008, In : AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium. 1 p.

Research output: Contribution to journalArticle

Improving clinical trial participant tracking tools using knowledge-anchored design methodologies

Payne, P. R. O., Embi, P. J., Johnson, S. B., Mendonca, E. & Starren, J., Dec 1 2010, In : Applied Clinical Informatics. 1, 2, p. 177-196 20 p.

Research output: Contribution to journalArticle

4 Scopus citations

Improving the Accuracy of Scores to Predict Gastrostomy after Intracerebral Hemorrhage with Machine Learning

Garg, R., Prabhakaran, S., Holl, J. L., Luo, Y., Faigle, R., Kording, K. & Naidech, A. M., Dec 2018, In : Journal of Stroke and Cerebrovascular Diseases. 27, 12, p. 3570-3574 5 p.

Research output: Contribution to journalArticle

2 Scopus citations

Incidence of retinopathy of prematurity from 1996 to 2000: Analysis of a comprehensive New York state patient database

Chiang, M. F., Arons, R. R., Flynn, J. T. & Starren, J. B., Jul 1 2004, In : Ophthalmology. 111, 7, p. 1317-1325 9 p.

Research output: Contribution to journalArticle

93 Scopus citations
57 Scopus citations

Increased mtDNA mutations with aging promotes amyloid accumulation and brain atrophy in the APP/Ld transgenic mouse model of Alzheimer's disease

Kukreja, L., Kujoth, G. C., Prolla, T. A., Van Leuven, F. & Vassar, R., May 2 2014, In : Molecular neurodegeneration. 9, 1, 16.

Research output: Contribution to journalArticle

29 Scopus citations

Induced sensitization of tumor stroma leads to eradication of established cancer by T cells

Zhang, B., Bowerman, N. A., Salama, J. K., Schmidt, H., Spiotto, M. T., Schietinger, A., Yu, P., Fu, Y. X., Weichselbaum, R. R., Rowley, D. A., Kranz, D. M. & Schreiber, H., Jan 22 2007, In : Journal of Experimental Medicine. 204, 1, p. 49-55 7 p.

Research output: Contribution to journalArticle

260 Scopus citations

Informed consent for live liver donors: A qualitative, prospective study

Gordon, E. J., Rodde, J., Skaro, A. & Baker, T., Oct 1 2015, In : Journal of Hepatology. 63, 4, p. 838-847 10 p.

Research output: Contribution to journalArticle

5 Scopus citations

Inhibition of glycogen synthase kinase-3 ameliorates β-amyloid pathology and restores lysosomal acidification and mammalian target of rapamycin activity in the alzheimer disease mouse model: In vivo and in vitro studies

Avrahami, L., Farfara, D., Shaham-Kol, M., Vassar, R., Frenkel, D. & Eldar-Finkelman, H., Jan 11 2013, In : Journal of Biological Chemistry. 288, 2, p. 1295-1306 12 p.

Research output: Contribution to journalArticle

131 Scopus citations

Integrating hypertension phenotype and genotype with hybrid non-negative matrix factorization

Luo, Y., Mao, C., Yang, Y., Wang, F., Ahmad, F. S., Arnett, D., Irvin, M. R. & Shah, S. J., Jan 1 2019, In : Bioinformatics. 35, 8, p. 1395-1403 9 p.

Research output: Contribution to journalArticle

Intraneuronal β-amyloid aggregates, neurodegeneration, and neuron loss in transgenic mice with five familial Alzheimer's disease mutations: Potential factors in amyloid plaque formation

Oakley, H., Cole, S. L., Logan, S., Maus, E., Shao, P., Craft, J., Guillozet-Bongaarts, A., Ohno, M., Disterhoft, J., Van Eldik, L., Berry, R. & Vassar, R., Oct 4 2006, In : Journal of Neuroscience. 26, 40, p. 10129-10140 12 p.

Research output: Contribution to journalArticle

1254 Scopus citations

In vitro and in vivo anticancer effects of american ginseng berry: Exploring representative compounds

Xie, J. T., Wang, C. Z., Zhang, B., Mehendale, S. R., Li, X. L., Sun, S., Han, A. H., Du, W., He, T. C. & Yuan, C. S., Sep 1 2009, In : Biological and Pharmaceutical Bulletin. 32, 9, p. 1552-1558 7 p.

Research output: Contribution to journalArticle

44 Scopus citations

Involvement of β-site APP cleaving enzyme 1 (BACE1) in amyloid precursor protein-mediated enhancement of memory and activity-dependent synaptic plasticity

Huifang, M., Lesné, S., Kotilinek, L., Steidl-Nichols, J. V., Sherman, M., Younkin, L., Younkin, S., Forster, C., Sergeant, N., Delacourte, A., Vassar, R., Citron, M., Kofuji, P., Boland, L. M. & Ashe, K. H., May 8 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 19, p. 8167-8172 6 p.

Research output: Contribution to journalArticle

89 Scopus citations

Ir gene-controlled response to haptenated hen ovomucoid: Isotypic specificity and dominant nonresponsiveness

Starren, J. B. & Davie, J. M., Jan 1987, In : Cellular Immunology. 104, 1, p. 59-70 12 p.

Research output: Contribution to journalArticle

1 Scopus citations

Is Cerebellar Ataxia, Neuropathy, and Vestibular Areflexia Syndrome (CANVAS) a Vestibular Ganglionopathy?

Yacovino, D. A., Zanotti, E. & Hain, T. C., Aug 1 2019, In : The journal of international advanced otology. 15, 2, p. 304-308 5 p.

Research output: Contribution to journalArticle

Open Access

Is in vivo amyloid distribution asymmetric in primary progressive aphasia?

Martersteck, A., Murphy, C., Rademaker, A., Wieneke, C., Weintraub, S., Chen, K., Mesulam, M. M. & Rogalski, E., Mar 1 2016, In : Annals of neurology. 79, 3, p. 496-501 6 p.

Research output: Contribution to journalArticle

9 Scopus citations

IsoformEx: Isoform level gene expression estimation using weighted non-negative least squares from mRNA-Seq data

Kim, H., Bi, Y., Pal, S., Gupta, R. & Davuluri, R. V., Jul 27 2011, In : BMC bioinformatics. 12, 305.

Research output: Contribution to journalArticle

20 Scopus citations

Isoform level expression profiles provide better cancer signatures than gene level expression profiles

Zhang, Z., Pal, S., Bi, Y., Tchou, J. & Davuluri, R. V., Apr 17 2013, In : Genome Medicine. 5, 4, 33.

Research output: Contribution to journalArticle

33 Scopus citations

Isoform-level gene signature improves prognostic stratification and accurately classifies glioblastoma subtypes

Pal, S., Bi, Y., MacYszyn, L., Showe, L. C., O'Rourke, D. M. & Davuluri, R. V., Apr 2014, In : Nucleic acids research. 42, 8, p. e64

Research output: Contribution to journalArticle

40 Scopus citations

Java-based application framework for visualization of gene regulatory region annotations

Sun, H. & Davuluri, R. V., Mar 22 2004, In : Bioinformatics. 20, 5, p. 727-734 8 p.

Research output: Contribution to journalArticle

10 Scopus citations

Live liver donors’ information needs: A qualitative study of practical implications for informed consent

Gordon, E. J., Mullee, J., Skaro, A. & Baker, T., Sep 1 2016, In : Surgery (United States). 160, 3, p. 671-682 12 p.

Research output: Contribution to journalArticle

3 Scopus citations

Living donor kidney transplantation: Facilitating education about live kidney donation—recommendations from a consensus conference

Tan, J. C., Gordon, E. J., Dew, M. A., Rudow, D. L., Steiner, R. W., Woodle, E. S., Hays, R., Rodrigue, J. R. & Segev, D. L., Sep 4 2015, In : Clinical Journal of the American Society of Nephrology. 10, 9, p. 1670-1677 8 p.

Research output: Contribution to journalArticle

23 Scopus citations

Living kidney donor informed consent practices vary between US and non-US centers

Parekh, A. M., Gordon, E. J., Garg, A. X., Waterman, A. D., Kulkarni, S. & Parikh, C. R., Oct 1 2008, In : Nephrology Dialysis Transplantation. 23, 10, p. 3316-3324 9 p.

Research output: Contribution to journalArticle

21 Scopus citations

Loss of estrogen receptor signaling triggers epigenetic silencing of downstream targets in breast cancer

Leu, Y. W., Yan, P. S., Fan, M., Jin, V. X., Liu, J. C., Curran, E. M., Welshons, W. V., Wei, S. H., Davuluri, R. V., Plass, C., Nephew, K. P. & Huang, T. H. M., Nov 15 2004, In : Cancer Research. 64, 22, p. 8184-8192 9 p.

Research output: Contribution to journalArticle

164 Scopus citations

Low-Level Laser Therapy Ameliorates Disease Progression in a Mouse Model of Alzheimer’s Disease

Farfara, D., Tuby, H., Trudler, D., Doron-Mandel, E., Maltz, L., Vassar, R. J., Frenkel, D. & Oron, U., Jan 1 2014, In : Journal of Molecular Neuroscience. 55, 2, p. 430-436 7 p.

Research output: Contribution to journalArticle

48 Scopus citations

Macrofiber structure and the dynamics of sickle cell hemoglobin crystallization

Potel, M. J., Wellems, T. E., Vassar, R. J., Deer, B. & Josephs, R., Aug 25 1984, In : Journal of Molecular Biology. 177, 4, p. 819-839 21 p.

Research output: Contribution to journalArticle

29 Scopus citations

Macrophages employ quorum licensing to regulate collective activation

Muldoon, J. J., Chuang, Y., Bagheri, N. & Leonard, J. N., Dec 1 2020, In : Nature communications. 11, 1, 878.

Research output: Contribution to journalArticle

Open Access

Making grandma's data secure: a security architecture for home telemedicine.

Starren, J., Sengupta, S., Hripcsak, G., Ring, G., Klerer, R. & Shea, S., 2001, In : Proceedings / AMIA ... Annual Symposium. AMIA Symposium. p. 657-661 5 p.

Research output: Contribution to journalArticle

4 Scopus citations

Marital quality and diabetes outcomes: The IDEATel project

Trief, P. M., Morin, P. C., Izquierdo, R., Teresi, J., Starren, J., Shea, S. & Weinstock, R. S., Sep 1 2006, In : Families, Systems and Health. 24, 3, p. 318-331 14 p.

Research output: Contribution to journalArticle

33 Scopus citations

MDMS (medical decision making systems): practical issues, specific approaches. Part 2.

Starren, J. B., Jun 1 1995, In : MLO: medical laboratory observer. 27, 6, p. 50-51 2 p.

Research output: Contribution to journalArticle

Mechanism of Assembly and Cooperativity of Homomeric and Heteromeric Metabotropic Glutamate Receptors

Levitz, J., Habrian, C., Bharill, S., Fu, Z., Vafabakhsh, R. & Isacoff, E. Y., Oct 5 2016, In : Neuron. 92, 1, p. 143-159 17 p.

Research output: Contribution to journalArticle

54 Scopus citations