Now showing items 1-20 of 31

    • A multiscale butterfly algorithm for multidimensional fourier integral operators 

      Li, Y; Yang, H; Ying, L (Multiscale Modeling and Simulation, 2015-01-01)
      © 2015 Society for Industrial and Applied Mathematics.This paper presents an efficient multiscale butterfly algorithm for computing Fourier integral operators (FIOs) of the form (Lf)(x) =∫ <inf>ℝ d</inf>a(x, ξ)e2πiΦ(x,ξ)f(ξ)dξ, ...
    • Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species. 

      Bradnam, KR; Fass, JN; Alexandrov, A; Baranay, P; Bechner, M; Birol, I; Boisvert, S; Chapman, JA; Chapuis, G; Chikhi, R; Chitsaz, H; Chou, W-C; Corbeil, J; Del Fabbro, C; Docking, TR; Durbin, R; Earl, D; Emrich, S; Fedotov, P; Fonseca, NA; Ganapathy, G; Gibbs, RA; Gnerre, S; Godzaridis, E; Goldstein, S; Haimel, M; Hall, G; Haussler, D; Hiatt, JB; Ho, IY; Howard, J; Hunt, M; Jackman, SD; Jaffe, DB; Jarvis, ED; Jiang, H; Kazakov, S; Kersey, PJ; Kitzman, JO; Knight, JR; Koren, S; Lam, T-W; Lavenier, D; Laviolette, F; Li, Y; Li, Z; Liu, B; Liu, Y; Luo, R; Maccallum, I; Macmanes, MD; Maillet, N; Melnikov, S; Naquin, D; Ning, Z; Otto, TD; Paten, B; Paulo, OS; Phillippy, AM; Pina-Martins, F; Place, M; Przybylski, D; Qin, X; Qu, C; Ribeiro, FJ; Richards, S; Rokhsar, DS; Ruby, JG; Scalabrin, S; Schatz, MC; Schwartz, DC; Sergushichev, A; Sharpe, T; Shaw, TI; Shendure, J; Shi, Y; Simpson, JT; Song, H; Tsarev, F; Vezzi, F; Vicedomini, R; Vieira, BM; Wang, J; Worley, KC; Yin, S; Yiu, S-M; Yuan, J; Zhang, G; Zhang, H; Zhou, S; Korf, IF (Gigascience, 2013-07-22)
      BACKGROUND: The process of generating raw genome sequence data continues to become cheaper, faster, and more accurate. However, assembly of such data into high-quality, finished genome sequences remains challenging. Many ...
    • Assessing the radiation response of lung cancer with different gene mutations using genetically engineered mice. 

      Perez, BA; Ghafoori, AP; Lee, C-L; Johnston, SM; Li, Y; Moroshek, JG; Ma, Y; Mukherjee, S; Kim, Y; Badea, CT; Kirsch, DG (Front Oncol, 2013)
      PURPOSE: Non-small cell lung cancers (NSCLC) are a heterogeneous group of carcinomas harboring a variety of different gene mutations. We have utilized two distinct genetically engineered mouse models of human NSCLC ...
    • Beam-target double-spin asymmetry A{LT} in charged pion production from deep inelastic scattering on a transversely polarized {3}He target at 1.4<Q{2}<2.7  GeV{2}. 

      Huang, J; Allada, K; Dutta, C; Katich, J; Qian, X; Wang, Y; Zhang, Y; Aniol, K; Annand, JR; Averett, T; Benmokhtar, F; Bertozzi, W; Bradshaw, PC; Bosted, P; Camsonne, A; Canan, M; Cates, GD; Chen, C; Chen, JP; Chen, W; Chirapatpimol, K; Chudakov, E; Cisbani, E; Cornejo, JC; Cusanno, F; Dalton, MM; Deconinck, W; de Jager, CW; De Leo, R; Deng, X; Deur, A; Ding, H; Dolph, PA; Dutta, D; El Fassi, L; Frullani, S; Gao, H; Garibaldi, F; Gaskell, D; Gilad, S; Gilman, R; Glamazdin, O; Golge, S; Guo, L; Hamilton, D; Hansen, O; Higinbotham, DW; Holmstrom, T; Huang, M; Ibrahim, HF; Iodice, M; Jiang, X; Jin, G; Jones, MK; Kelleher, A; Kim, W; Kolarkar, A; Korsch, W; Lerose, JJ; Li, X; Li, Y; Lindgren, R; Liyanage, N; Long, E; Lu, HJ; Margaziotis, DJ; Markowitz, P; Marrone, S; McNulty, D; Meziani, ZE; Michaels, R; Moffit, B; Muñoz Camacho, C; Nanda, S; Narayan, A; Nelyubin, V; Norum, B; Oh, Y; Osipenko, M; Parno, D; Peng, JC; Phillips, SK; Posik, M; Puckett, AJ; Qiang, Y; Rakhman, A; Ransome, RD; Riordan, S; Saha, A; Sawatzky, B; Schulte, E; Shahinyan, A; Shabestari, MH; Sirca, S; Stepanyan, S; Subedi, R; Sulkosky, V; Tang, LG; Tobias, A; Urciuoli, GM; Vilardi, I; Wang, K; Wojtsekhowski, B; Yan, X; Yao, H; Ye, Y; Ye, Z; Yuan, L; Zhan, X; Zhang, YW; Zhao, B; Zheng, X; Zhu, L; Zhu, X; Zong, X; Jefferson Lab Hall A Collaboration (Phys Rev Lett, 2012-02-03)
      We report the first measurement of the double-spin asymmetry A{LT} for charged pion electroproduction in semi-inclusive deep-inelastic electron scattering on a transversely polarized {3}He target. The kinematics focused ...
    • Butterfly factorization 

      Li, Y; Yang, H; Martin, ER; Ho, KL; Ying, L (Multiscale Modeling and Simulation, 2015-01-01)
      © 2015 Society for Industrial and Applied Mathematics.The paper introduces the butterfly factorization as a data-sparse approximation for the matrices that satisfy a complementary low-rank property. The factorization can ...
    • Component-wise gradient boosting and false discovery control in survival analysis with high-dimensional covariates. 

      He, K; Li, Y; Zhu, J; Liu, H; Lee, JE; Amos, CI; Hyslop, T; Jin, J; Lin, H; Wei, Q; Li, Y (Bioinformatics, 2016-01-01)
      MOTIVATION: Technological advances that allow routine identification of high-dimensional risk factors have led to high demand for statistical techniques that enable full utilization of these rich sources of information for ...
    • Computed tomography imaging of primary lung cancer in mice using a liposomal-iodinated contrast agent. 

      Badea, CT; Athreya, KK; Espinosa, G; Clark, D; Ghafoori, AP; Li, Y; Kirsch, DG; Johnson, GA; Annapragada, A; Ghaghada, KB (PLoS One, 2012)
      PURPOSE: To investigate the utility of a liposomal-iodinated nanoparticle contrast agent and computed tomography (CT) imaging for characterization of primary nodules in genetically engineered mouse models of non-small cell ...
    • Deferoxamine regulates neuroinflammation and iron homeostasis in a mouse model of postoperative cognitive dysfunction. 

      Li, Y; Pan, K; Chen, L; Ning, J-L; Li, X; Yang, T; Terrando, Niccolò; Gu, J; Tao, G (J Neuroinflammation, 2016-10-12)
      BACKGROUND: Postoperative cognitive dysfunction (POCD) is a common complication after surgery, especially amongst elderly patients. Neuroinflammation and iron homeostasis are key hallmarks of several neurological disorders. ...
    • Electrocardiographic J Wave and Cardiovascular Outcomes in the General Population (from the Atherosclerosis Risk In Communities Study). 

      O'Neal, WT; Wang, YG; Wu, Hau-Tieng; Zhang, Z-M; Li, Y; Tereshchenko, LG; Estes, EH; Daubechies, Ingrid; Soliman, EZ (Am J Cardiol, 2016-09-15)
      The association between the J wave, a key component of the early repolarization pattern, and adverse cardiovascular outcomes remains unclear. Inconsistencies have stemmed from the different methods used to measure the J ...
    • EphB2 receptor controls proliferation/migration dichotomy of glioblastoma by interacting with focal adhesion kinase. 

      Wang, SD; Rath, P; Lal, B; Richard, J-P; Li, Y; Goodwin, Courtney Rory; Laterra, J; Xia, S (Oncogene, 2012-12-13)
      Glioblastoma multiforme (GBM) is the most frequent and aggressive primary brain tumors in adults. Uncontrolled proliferation and abnormal cell migration are two prominent spatially and temporally disassociated characteristics ...
    • Experimental study of the A(e,e′π<sup>+</sup>) reaction on H1, H2, C12, Al27, Cu63, and Au197 

      Qian, X; Horn, T; Clasie, B; Arrington, J; Asaturyan, R; Benmokhtar, F; Boeglin, W; Bosted, P; Bruell, A; Christy, ME; Chudakov, E; Dalton, MM; Daniel, A; Day, D; Dutta, D; El Fassi, L; Ent, R; Fenker, HC; Ferrer, J; Fomin, N; Gao, H; Garrow, K; Gaskell, D; Gray, C; Huber, GM; Jones, MK; Kalantarians, N; Keppel, CE; Kramer, K; Li, Y; Liang, Y; Lung, AF; Malace, S; Markowitz, P; Matsumura, A; Meekins, DG; Mertens, T; Miyoshi, T; Mkrtchyan, H; Monson, R; Navasardyan, T; Niculescu, G; Niculescu, I; Okayasu, Y; Opper, AK; Perdrisat, C; Punjabi, V; Rauf, AW; Rodriquez, VM; Rohe, D; Seely, J; Segbefia, E; Smith, GR; Sumihama, M; Tadevosyan, V; Tang, L; Villano, A; Vulcan, WF; Wesselmann, FR; Wood, SA; Yuan, L; Zheng, X (Physical Review C - Nuclear Physics, 2010-05-25)
      Cross sections for the H1(e,e′π+)n process on H1, H2, C12, Al27, Cu63, and Au197 targets were measured at the Thomas Jefferson National Accelerator Facility (Jefferson Lab) to extract nuclear transparencies. Data were taken ...
    • Game-Theoretic Question Selection for Tests 

      Li, Y; Conitzer, Vincent (JOURNAL OF ARTIFICIAL INTELLIGENCE RESEARCH, 2017)
    • GxE interactions between FOXO genotypes and drinking tea are significantly associated with prevention of cognitive decline in advanced age in China. 

      Zeng, Y; Chen, H; Ni, T; Ruan, R; Feng, L; Nie, C; Cheng, L; Li, Y; Tao, W; Gu, J; Land, KC; Yashin, A; Tan, Q; Yang, Z; Bolund, L; Yang, H; Hauser, Elizabeth Rebecca; Willcox, DC; Willcox, BJ; Tian, X-L; Vaupel, James Walton (J Gerontol A Biol Sci Med Sci, 2015-04)
      Logistic regression analysis based on data from 822 Han Chinese oldest old aged 92+ demonstrated that interactions between carrying FOXO1A-266 or FOXO3-310 or FOXO3-292 and tea drinking at around age 60 or at present time ...
    • Hepatocyte growth factor enhances death receptor-induced apoptosis by up-regulating DR5. 

      Li, Y; Fan, X; Goodwin, Courtney Rory; Laterra, J; Xia, S (BMC Cancer, 2008-11-07)
      BACKGROUND: Hepatocyte growth factor (HGF) and its receptor c-MET are commonly expressed in malignant gliomas and embryonic neuroectodermal tumors including medulloblastoma and appear to play an important role in the growth ...
    • High-coverage sequencing and annotated assemblies of the budgerigar genome. 

      Ganapathy, G; Howard, JT; Ward, JM; Li, J; Li, B; Li, Y; Xiong, Y; Zhang, Y; Zhou, S; Schwartz, DC; Schatz, M; Aboukhalil, R; Fedrigo, O; Bukovnik, L; Wang, T; Wray, G; Rasolonjatovo, I; Winer, R; Knight, JR; Koren, S; Warren, WC; Zhang, G; Phillippy, AM; Jarvis, ED (Gigascience, 2014)
      BACKGROUND: Parrots belong to a group of behaviorally advanced vertebrates and have an advanced ability of vocal learning relative to other vocal-learning birds. They can imitate human speech, synchronize their body movements ...
    • Identification of autoantigens recognized by the 2F5 and 4E10 broadly neutralizing HIV-1 antibodies. 

      Yang, G; Holl, TM; Liu, Y; Li, Y; Lu, X; Nicely, NI; Kepler, TB; Alam, SM; Liao, HX; Cain, DW; Spicer, L; VandeBerg, JL; Haynes, BF; Kelsoe, G (J Exp Med, 2013-02-11)
      Many human monoclonal antibodies that neutralize multiple clades of HIV-1 are polyreactive and bind avidly to mammalian autoantigens. Indeed, the generation of neutralizing antibodies to the 2F5 and 4E10 epitopes of HIV-1 ...
    • Impact of Community-Based DOT on Tuberculosis Treatment Outcomes: A Systematic Review and Meta-Analysis. 

      Zhang, H; Ehiri, J; Yang, H; Tang, Shenglan; Li, Y (PLoS One, 2016)
      BACKGROUND: Poor adherence to tuberculosis (TB) treatment can lead to prolonged infectivity and poor treatment outcomes. Directly observed treatment (DOT) seeks to improve adherence to TB treatment by observing patients ...
    • Impact of simian immunodeficiency virus infection on chimpanzee population dynamics. 

      Rudicell, RS; Holland Jones, J; Wroblewski, EE; Learn, GH; Li, Y; Robertson, JD; Greengrass, E; Grossmann, F; Kamenya, S; Pintea, L; Mjungu, DC; Lonsdorf, EV; Mosser, A; Lehman, C; Collins, DA; Keele, BF; Goodall, J; Hahn, BH; Pusey, AE; Wilson, ML (PLoS Pathog, 2010-09-23)
      Like human immunodeficiency virus type 1 (HIV-1), simian immunodeficiency virus of chimpanzees (SIVcpz) can cause CD4+ T cell loss and premature death. Here, we used molecular surveillance tools and mathematical modeling ...
    • Increased Costs with Multidrug Resistant Gram Negative Bloodstream Infections Are Primarily Due to Patients with Hospital-Acquired Infections. 

      Thaden, JT; Li, Y; Ruffin, Felicia; Maskarinec, SA; Hill-Rorie, JM; Wanda, LC; Reed, SD; Fowler, Vance Garrison Jr. (Antimicrob Agents Chemother, 2016-12-19)
      The clinical and economic impact of bloodstream infections (BSI) due to multidrug resistant (MDR) Gram negative bacteria is incompletely understood. From 2009-2015, all adult inpatients with Gram negative BSI at our ...
    • Inhibition of pulmonary fibrosis in mice by CXCL10 requires glycosaminoglycan binding and syndecan-4. 

      Jiang, D; Liang, J; Campanella, GS; Guo, R; Yu, S; Xie, T; Liu, N; Jung, Y; Homer, R; Meltzer, EB; Li, Y; Tager, AM; Goetinck, PF; Luster, AD; Noble, PW (J Clin Invest, 2010-06)
      Pulmonary fibrosis is a progressive, dysregulated response to injury culminating in compromised lung function due to excess extracellular matrix production. The heparan sulfate proteoglycan syndecan-4 is important in ...