Institution
Stony Brook University
Education•Stony Brook, New York, United States•
About: Stony Brook University is a education organization based out in Stony Brook, New York, United States. It is known for research contribution in the topics: Population & Poison control. The organization has 32534 authors who have published 68218 publications receiving 3035131 citations. The organization is also known as: State University of New York at Stony Brook & SUNY Stony Brook.
Topics: Population, Poison control, Quantum chromodynamics, Large Hadron Collider, Context (language use)
Papers published on a yearly basis
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TL;DR: This manuscript presents the latest algorithmic and methodological developments to the structure‐based design program DOCK 6.7 focused on an updated internal energy function, new anchor selection control, enhanced minimization options, a footprint similarity scoring function, a symmetry‐corrected root‐mean‐square deviation algorithm, a database filter, and docking forensic tools.
Abstract: This manuscript presents the latest algorithmic and methodological developments to the structure-based design program DOCK 6.7 focused on an updated internal energy function, new anchor selection control, enhanced minimization options, a footprint similarity scoring function, a symmetry-corrected root-mean-square deviation algorithm, a database filter, and docking forensic tools. An important strategy during development involved use of three orthogonal metrics for assessment and validation: pose reproduction over a large database of 1043 protein-ligand complexes (SB2012 test set), cross-docking to 24 drug-target protein families, and database enrichment using large active and decoy datasets (Directory of Useful Decoys [DUD]-E test set) for five important proteins including HIV protease and IGF-1R. Relative to earlier versions, a key outcome of the work is a significant increase in pose reproduction success in going from DOCK 4.0.2 (51.4%) → 5.4 (65.2%) → 6.7 (73.3%) as a result of significant decreases in failure arising from both sampling 24.1% → 13.6% → 9.1% and scoring 24.4% → 21.1% → 17.5%. Companion cross-docking and enrichment studies with the new version highlight other strengths and remaining areas for improvement, especially for systems containing metal ions. The source code for DOCK 6.7 is available for download and free for academic users at http://dock.compbio.ucsf.edu/.
515 citations
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University of Tokyo1, Boston University2, Massachusetts Institute of Technology3, Brookhaven National Laboratory4, University of California, Irvine5, California State University, Dominguez Hills6, George Mason University7, Gifu University8, Kobe University9, Kyoto University10, Los Alamos National Laboratory11, Louisiana State University12, University of Maryland, College Park13, Korea Research Institute of Standards and Science14, University of Minnesota15, Stony Brook University16, University of Utah17, Niigata University18, Osaka University19, Seoul National University20, Shizuoka University21, Tohoku University22, Tokai University23, Tokyo Institute of Technology24, University of Warsaw25, University of Washington26
TL;DR: The absence of significant zenith angle variation and spectrum distortion places strong constraints on neutrino mixing and mass difference in a flux-independent way, and two allowed regions at large mixing are found.
Abstract: We report the result of a search for neutrino oscillations using precise measurements of the recoil electron energy spectrum and zenith angle variations of the solar neutrino flux from 1258 days of neutrino-electron scattering data in Super-Kamiokande The absence of significant zenith angle variation and spectrum distortion places strong constraints on neutrino mixing and mass difference in a flux-independent way Using the Super-Kamiokande flux measurement in addition, two allowed regions at large mixing are found
515 citations
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TL;DR: The experiments test the hypothesis that chronic dietary poisoning by aristolochic acid is responsible for EN and its associated urothelial cancer and conclude that dietary exposure to AA is a significant risk factor for ENand its attendant transitional cell cancer.
Abstract: Endemic (Balkan) nephropathy (EN), a devastating renal disease affecting men and women living in rural areas of Bosnia, Bulgaria, Croatia, Romania, and Serbia, is characterized by its insidious onset, invariable progression to chronic renal failure and a strong association with transitional cell (urothelial) carcinoma of the upper urinary tract. Significant epidemiologic features of EN include its focal occurrence in certain villages and a familial, but not inherited, pattern of disease. Our experiments test the hypothesis that chronic dietary poisoning by aristolochic acid is responsible for EN and its associated urothelial cancer. Using (32)P-postlabeling/PAGE and authentic standards, we identified dA-aristolactam (AL) and dG-AL DNA adducts in the renal cortex of patients with EN but not in patients with other chronic renal diseases. In addition, urothelial cancer tissue was obtained from residents of endemic villages with upper urinary tract malignancies. The AmpliChip p53 microarray was then used to sequence exons 2-11 of the p53 gene where we identified 19 base substitutions. Mutations at A:T pairs accounted for 89% of all p53 mutations, with 78% of these being A:T --> T:A transversions. Our experimental results, namely, that (i) DNA adducts derived from aristolochic acid (AA) are present in renal tissues of patients with documented EN, (ii) these adducts can be detected in transitional cell cancers, and (iii) A:T --> T:A transversions dominate the p53 mutational spectrum in the upper urinary tract malignancies found in this population lead to the conclusion that dietary exposure to AA is a significant risk factor for EN and its attendant transitional cell cancer.
515 citations
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TL;DR: The T2K experiment has observed electron neutrino appearance in a muon neutrinos beam produced 295 km from the Super-Kamiokande detector with a peak energy of 0.6 GeV, corresponding to a significance of 7.3σ.
Abstract: The T2K experiment has observed electron neutrino appearance in a muon neutrino beam produced 295 km from the Super-Kamiokande detector with a peak energy of 0.6 GeV. A total of 28 electron neutrino events were detected with an energy distribution consistent with an appearance signal, corresponding to a significance of 7.3 sigma when compared to 4.92 +/- 0.55 expected background events. In the Pontecorvo-Maki-Nakagawa-Sakata mixing model, the electron neutrino appearance signal depends on several parameters including three mixing angles theta(12), theta(23), theta(13), a mass difference vertical bar Delta m(32)(2)vertical bar and a CP violating phase delta(CP). In this neutrino oscillation scenario, assuming vertical bar Delta m(32)(2)vertical bar = 2.4 x 10(-3) eV(2), sin theta(2)(23) = 0.5, and vertical bar Delta m(32)(2)vertical bar > 0 (vertical bar Delta m(32)(2)vertical bar <0), a best- fit value of sin2 theta(2)(13) = 0.140(- 0.032)(+0.038) (0.170(-0.037)(+0.045)) is obtained at delta(CP) = 0. When combining the result with the current best knowledge of oscillation parameters including the world average value of theta(13) from reactor experiments, some values of delta(CP) are disfavored at the 90% C. L.
515 citations
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TL;DR: A 29-item fatigue assessment instrument is presented, its psychometric properties are described, and it is used to differentiate normal fatigue from fatigue related medical disorders.
514 citations
Authors
Showing all 32829 results
Name | H-index | Papers | Citations |
---|---|---|---|
Zhong Lin Wang | 245 | 2529 | 259003 |
Dennis W. Dickson | 191 | 1243 | 148488 |
Hyun-Chul Kim | 176 | 4076 | 183227 |
David Baker | 173 | 1226 | 109377 |
J. N. Butler | 172 | 2525 | 175561 |
Roderick T. Bronson | 169 | 679 | 107702 |
Nora D. Volkow | 165 | 958 | 107463 |
Jovan Milosevic | 152 | 1433 | 106802 |
Thomas E. Starzl | 150 | 1625 | 91704 |
Paolo Boffetta | 148 | 1455 | 93876 |
Jacques Banchereau | 143 | 634 | 99261 |
Larry R. Squire | 143 | 472 | 85306 |
John D. E. Gabrieli | 142 | 480 | 68254 |
Alexander Milov | 142 | 1143 | 93374 |
Meenakshi Narain | 142 | 1805 | 147741 |