Institution

# Los Alamos National Laboratory

Facility•Los Alamos, New Mexico, United States•

About: Los Alamos National Laboratory is a facility organization based out in Los Alamos, New Mexico, United States. It is known for research contribution in the topics: Neutron & Population. The organization has 31079 authors who have published 74688 publications receiving 2999590 citations. The organization is also known as: LANL & Project Y.

Topics: Neutron, Population, Laser, Scattering, Superconductivity

##### Papers published on a yearly basis

##### Papers

More filters

••

[...]

TL;DR: The PHENIX software for macromolecular structure determination is described and its uses and benefits are described.

Abstract: Macromolecular X-ray crystallography is routinely applied to understand biological processes at a molecular level. However, significant time and effort are still required to solve and complete many of these structures because of the need for manual interpretation of complex numerical data using many software packages and the repeated use of interactive three-dimensional graphics. PHENIX has been developed to provide a comprehensive system for macromolecular crystallographic structure solution with an emphasis on the automation of all procedures. This has relied on the development of algorithms that minimize or eliminate subjective input, the development of algorithms that automate procedures that are traditionally performed by hand and, finally, the development of a framework that allows a tight integration between the algorithms.

15,827 citations

••

[...]

TL;DR: In this paper, the concept of a fractional volume of fluid (VOF) has been used to approximate free boundaries in finite-difference numerical simulations, which is shown to be more flexible and efficient than other methods for treating complicated free boundary configurations.

Abstract: Several methods have been previously used to approximate free boundaries in finite-difference numerical simulations. A simple, but powerful, method is described that is based on the concept of a fractional volume of fluid (VOF). This method is shown to be more flexible and efficient than other methods for treating complicated free boundary configurations. To illustrate the method, a description is given for an incompressible hydrodynamics code, SOLA-VOF, that uses the VOF technique to track free fluid surfaces.

9,793 citations

••

[...]

TL;DR: This letter extends the heuristic homology algorithm of Needleman & Wunsch (1970) to find a pair of segments, one from each of two long sequences, such that there is no other Pair of segments with greater similarity (homology).

Abstract: The identification of maximally homologous subsequences among sets of long sequences is an important problem in molecular sequence analysis. The problem is straightforward only if one restricts consideration to contiguous subsequences (segments) containing no internal deletions or insertions. The more general problem has its solution in an extension of sequence metrics (Sellers 1974; Waterman et al., 1976) developed to measure the minimum number of “events” required to convert one sequence into another. These developments in the modern sequence analysis began with the heuristic homology algorithm of Needleman & Wunsch (1970) which first introduced an iterative matrix method of calculation. Numerous other heuristic algorithms have been suggested including those of Fitch (1966) and Dayhoff (1969). More mathematically rigorous algorithms were suggested by Sankoff (1972), Reichert et al. (1973) and Beyer et al. (1979) but these were generally not biologically satisfying or interpretable. Success came with Sellers (1974) development of a true metric measure of the distance between sequences. This metric was later generalized by Waterman et al. (1976) to include deletions/insertions of arbitrary length. This metric represents the minimum number of “mutational events” required to convert one sequence into another. It is of interest to note that Smith et al. (1980) have recently shown that under some conditions the generalized Sellers metric is equivalent to the original homology algorithm of Needleman & Wunsch (1970). In this letter we extend the above ideas to find a pair of segments, one from each of two long sequences, such that there is no other pair of segments with greater similarity (homology). The similarity measure used here allows for arbitrary length deletions and insertions.

9,761 citations

••

[...]

Donald G. York

^{1}, Jennifer Adelman^{2}, John E. Anderson^{2}, Scott F. Anderson^{3}+148 more•Institutions (29)TL;DR: The Sloan Digital Sky Survey (SDSS) as discussed by the authors provides the data to support detailed investigations of the distribution of luminous and non-luminous matter in the universe: a photometrically and astrometrically calibrated digital imaging survey of π sr above about Galactic latitude 30° in five broad optical bands to a depth of g' ~ 23 mag.

Abstract: The Sloan Digital Sky Survey (SDSS) will provide the data to support detailed investigations of the distribution of luminous and nonluminous matter in the universe: a photometrically and astrometrically calibrated digital imaging survey of π sr above about Galactic latitude 30° in five broad optical bands to a depth of g' ~ 23 mag, and a spectroscopic survey of the approximately 106 brightest galaxies and 105 brightest quasars found in the photometric object catalog produced by the imaging survey. This paper summarizes the observational parameters and data products of the SDSS and serves as an introduction to extensive technical on-line documentation.

9,207 citations

••

[...]

TL;DR: PHENIX has been developed to provide a comprehensive system for macromolecular crystallographic structure solution with an emphasis on the automation of all procedures.

Abstract: Macromolecular X-ray crystallography is routinely applied to understand biological processes at a molecular level. However, significant time and effort are still required to solve and complete many of these structures because of the need for manual interpretation of complex numerical data using many software packages and the repeated use of interactive three-dimensional graphics. PHENIX has been developed to provide a comprehensive system for macromolecular crystallographic structure solution with an emphasis on the automation of all procedures. This has relied on the development of algorithms that minimize or eliminate subjective input, the development of algorithms that automate procedures that are traditionally performed by hand and, finally, the development of a framework that allows a tight integration between the algorithms.
Keywords:
PHENIX;
Python;
algorithms

7,741 citations

##### Authors

Showing all 31079 results

Name | H-index | Papers | Citations |
---|---|---|---|

George Davey Smith | 224 | 2540 | 248373 |

David A. Weitz | 178 | 1038 | 114182 |

Hongfang Liu | 166 | 2356 | 156290 |

Moungi G. Bawendi | 165 | 626 | 118108 |

Yang Yang | 164 | 2704 | 144071 |

Hannes Jung | 159 | 2069 | 125069 |

David Eisenberg | 156 | 697 | 112460 |

Richard E. Smalley | 153 | 494 | 111117 |

Albert-László Barabási | 152 | 438 | 200119 |

James M. Tiedje | 150 | 688 | 102287 |

Andrew White | 149 | 1494 | 113874 |

Barton F. Haynes | 144 | 911 | 79014 |

Liming Dai | 141 | 781 | 82937 |

Josh Moss | 139 | 1019 | 89255 |

Christopher T. Walsh | 139 | 819 | 74314 |