A New Halo Finding Method for N-Body Simulations

We have developed a new halo finding method, Physically Self-Bound (PSB) group finding algorithm, which can efficiently identify halos located even at crowded regions. This method combines two physical criteria such as the tidal radius of a halo and the total energy of each particle to find member particles. Two hierarchical meshes are used to increase the speed and the power of halo identification in the parallel computing environments. First, a coarse mesh with cell size equal to the mean particle separation $l_{\rm mean}$ is used to obtain the density field over the whole simulation box. Mesh cells having density contrast higher than a local cutoff threshold $\delta_{\rm LOC}$ are extracted and linked together for those adjacent to each other. This produces local-cell groups. Second, a finer mesh is used to obtain density field within each local-cell group and to identify halos. If a density shell contains only one density peak, its particles are assigned to the density peak. But in the case of a density shell surrounding at least two density peaks, we use both the tidal radii of halo candidates enclosed by the shell and the total energy criterion to find physically bound particles with respect to each halo. Similar to DENMAX and HOP, the \hfind method can efficiently identify small halos embedded in a large halo, while the FoF and the SO do not resolve such small halos. We apply our new halo finding method to a 1-Giga particle simulation of the $\Lambda$CDM model and compare the resulting mass function with those of previous studies. The abundance of physically self-bound halos is larger at the low mass scale and smaller at the high mass scale than proposed by the Jenkins et al. (2001) who used the FoF and SO methods. (abridged)Comment: 10 pages, 8 figs, submitted to Ap

D1 and D5-Brane Actions in AdS_m x S^n

The kappa-invariant and supersymmetric actions of D1 and D5-branes in AdS_3 x S^3 are investigated, as well as the action of a D5-brane in an AdS_5 x S^5 background. The action of a D5-brane lying totally in an AdS_3 x S^3 background is found. Some progress was made towards finding the action for the D5-brane free to move in the whole AdS_3 x S^3 x T^4 space, however the supersymmetric action found here is not kappa-invariant and the reasons the method used did not find a kappa-invariant solution are discussed.Comment: 17pp, Latex, improved explanations, a definition adde

Comment on ``Solution of Classical Stochastic One-Dimensional Many-Body Systems''

In a recent Letter, Bares and Mobilia proposed the method to find solutions of the stochastic evolution operator $H=H_0 + {\gamma\over L} H_1$ with a non-trivial quartic term $H_1$. They claim, ``Because of the conservation of probability, an analog of the Wick theorem applies and all multipoint correlation functions can be computed.'' Using the Wick theorem, they expressed the density correlation functions as solutions of a closed set of integro-differential equations. In this Comment, however, we show that applicability of Wick theorem is restricted to the case $\gamma = 0$ only.Comment: 1 page, revtex style, comment on paper Phys. Rev. Lett. {\bf 83}, 5214 (1999

Clinical exome performance for reporting secondary genetic findings.

BACKGROUND : Reporting clinically actionable incidental genetic findings in the course of clinical exome testing is recommended by the American College of Medical Genet- ics and Genomics (ACMG). However, the performance of clinical exome methods for reporting small subsets of genes has not been previously reported. METHODS : In this study, 57 exome data sets performed as clinical (n ! 12) or research (n ! 45) tests were retrospec- tively analyzed. Exome sequencing data was examined for adequacy in the detection of potentially pathogenic variant locations in the 56 genes described in the ACMG incidental findings recommendation. All exons of the 56 genes were examined for adequacy of sequencing coverage. In addition, nucleotide positions annotated in HGMD (Human Gene Mutation Database) were examined. RESULTS : The 56 ACMG genes have 18336 nucleotide variants annotated in HGMD. None of the 57 exome data sets possessed a HGMD variant. The clinical exome test had inadequate coverage for " 50% of HGMD vari- ant locations in 7 genes. Six exons from 6 different genes had consistent failure across all 3 test methods; these exons had high GC content (76%–84%). CONCLUSIONS : The use of clinical exome sequencing for the interpretation and reporting of subsets of genes requires recognition of the substantial possibility of inadequate depth and breadth of sequencing coverage at clinically relevant locations. Inadequate depth of coverage may contribute to false-negative clinical ex- ome results