[27] Maximum-likelihood heavy-atom parameter refinement for multiple isomorphous replacement and multiwavelength anomalous diffraction methods.

By E. de la Fortelle, Gerard Bricogne. 1997

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Using SAD data in Phaser (2011, neutral): “In Phaser, the substructure is completed by using log-likelihood gradient (LLG) maps (McCoy & Read, 2010) similar in concept to those used for isomorphous derivatives in the program SHARP (de La Fortelle & Bricogne, 1997).”
Phaser crystallographic software (2007, methodology): “Likelihood-based experimental phasing can be carried out using Sharp (La Fortelle & Bricogne, 1997).”
Can I solve my structure by SAD phasing? Planning an experiment, scaling data and evaluating the useful anomalous correlation and anomalous signal (2016, methodology): “…1999; Schneider & Sheldrick, 2002; Grosse-Kunstleve & Adams, 2003) and are then used ISSN 2059-7983 along with the substructure to estimate phases for the entire structure (Otwinowski, 1991; de La Fortelle & Bricogne, 1997; Furey & Swaminathan, 1997; McCoy et al., 2004; Pannu & Read, 2004).”
A multivariate likelihood SIRAS function for phasing and model refinement. (2009, methodology): “Indeed, the (univariate) likelihood-based SIRAS function used in SHARP (de La Fortelle & Bricogne, 1997) and BP3 (Pannu et al., 2003) assumes the independence of a Gaussian term involving anomalous differences (North, 1965; Matthews, 1966) and a Rice function modelling the isomorphic data for…”
General quadratic functions in real and reciprocal space and their application to likelihood phasing. (2000, methodology): “…distribution for the phase multiplied by a Gaussian distribution for the magnitude based on the experimental standard deviation for the structure-factor magnitude; however, a general two-dimension probability distribution as employed by SHARP (La Fortelle & Bricogne, 1997) could be used.”
Generation, representation and flow of phase information in structure determination: recent developments in and around SHARP 2.0. (2003, methodology): “(h) according to (3) is a product of radially symmetric Rice distributions centred at ÿFH(j, h) for each j (equation 23 in de La Fortelle & Bricogne, 1997).”
Automated MAD and MIR structure solution (1999, methodology): “For MAD data, this phasing method is much more rapid than a more complete treatment of the phasing would be (e.g. Terwilliger & Berendzen, 1997; de la Fortelle & Bricogne, 1997) and is useful in speeding up the operation of SOLVE.”
Anomalous signal indicators in protein crystallography. (2005, methodology): “…procedures (e.g. Alkire et al., 2004; Weiss, Sicker, Djinovic Carugo et al., 2001) and novel theoretical developments implemented in user-friendly software (e.g. de La Fortelle & Bricogne, 1997; Pannu & Read, 2004; Schneider & Sheldrick, 2002; Terwilliger, 2003; Weeks & Miller, 1999).”
Auto-rickshaw: an automated crystal structure determination platform as an efficient tool for the validation of an X-ray diffraction experiment. (2005, methodology): “…several structure-determination software packages have been assembled by various authors with different goals and degrees of built-in automation, e.g. SOLVE/RESOLVE (Terwilliger, 1999, 2000), SHARP (de La Fortelle & Bricogne, 1997), BnP (Weeks et al., 2001) and HKL2MAP (Pape & Schneider, 2004).”