Multiple testing for SNP-SNP interactions

Most genetic diseases are complex, i.e. associated to combinations of SNPs rather than individual SNPs. In the last few years, this topic has often been addressed in terms of SNP-SNP interaction patterns given as expressions linked by logical operators. Methods for multiple testing in high-dimensional settings can be applied when many SNPs are considered simultaneously. However, another less well-known multiple testing problem arises within a fixed subset of SNPs when the logic expression is chosen optimally. In this article, we propose a general asymptotic approach for deriving the distribution of the maximally selected chi-square statistic in various situations. We show how this result can be used for testing logic expressions - in particular SNP-SNP interaction patterns - while controlling for multiple comparisons. Simulations show that our method provides multiple testing adjustment when the logic expression is chosen such as to maximize the statistic. Its benefit is demonstrated through an application to a real dataset from a large population-based study considering allergy and asthma in KORA. An implementation of our method is available from the Comprehensive R Archive Network (CRAN) as R package 'SNPmaxsel'

HUBUNGAN STATUS GIZI DENGAN PRESTASI BELAJAR PADA SISWA KELAS 4 SAMPAI 6 SEKOLAH DASAR BUNGA MATAHARI INTERNATIONAL SCHOOL BANDA ACEH TAHUN AJARAN 2016/2017

Gizi yang tidak seimbang baik kekurangan maupun kelebihan gizi akan menurunkan kualitas sumber daya manusia. Anak yang menderita ketidakseimbangan gizi mudah mengantuk dan gairahnya berkurang, yang akan dapat mengganggu proses belajar disekolah dan prestasi belajar yang menurun.Penelitianini bertujuan untuk mengetahui hubungan status gizi dengan prestasi belajar pada siswa kelas 4 sampai 6 sekolah dasar Bunga Matahari International School Banda Aceh. Penelitian ini adalah penelitian observasional analitik dengan desain cross sectional yang dilaksanakan pada bulan Maret 2017 pada siswa kelas 4 sampai 6 sekolah dasar Bunga Matahari International School Banda Aceh. Pengambilan sampel menggunakan teknik total sampling yang berjumlah 38 responden. Instrumen yang digunakan dalam penelitian adalah stadiometer, timbangan merk Gea, dan nilai rapor. Hasil uji analisis spearman untuk variabel status gizi terhadap prestasi belajar (? = 0.378) menunjukkan tidak terdapat hubungan status gizi terhadap prestasi belajar pada siswa kelas 4 sampai 6 sekolah dasar Bunga Matahari International School Banda Aceh.Kata Kunci: Anak Usia Sekolah Dasar, Prestasi Belajar, Status Giz

The Compton-thick quasar at the heart of the high-redshift giant radio galaxy 6C 0905+39

Our XMM-Newton spectrum of the giant, high-redshift (z=1.88) radio galaxy 6C 0905+39 shows that it contains one of the most powerful, high-redshift, Compton-thick quasars known. Its spectrum is very hard above 2 keV. The steep XMM spectrum below that energy is shown to be due to extended emission from the radio bridge using Chandra data. The nucleus of 6C 0905+39 has a column density of 3.5 (+1.4,-0.4) X 10^24 cm^-2 and absorption-corrected X-ray luminosity of 1.7 (+0.9,-0.1) X 10^45 erg/s in the 2-10 keV band. A lower redshift active galaxy in the same field, SDSS J090808.36+394313.6, may also be Compton-thick.Comment: 5 pages, 5 figures, accepted to MNRA

Synthesis, spectroscopic study of Pt (IV), Au (III), Rh(III),Co(II) and V (IV) complexes with sodium[5-(p-nitro phenyl) -/4- phenyl-1,2,4-triazole-3-dithiocarbamato hydrazide] and cytotoxicity assay on rhabdomyosarcoma cell line of heavy metals

All the prepared metal complexes of Pt (IV), Au(III), Rh (III), Co (II) and V(IV) with new ligand sodium [5-(p-nitro phenyl)-/4-phenyl-1,2,4-triazole-3-dithiocarbamato hydrazide] (TRZ.DTC) have been synthesized and characterized in solid state by using flame atomic absorption, elemental analysis C.H.N.S, FT-IR ,UV-Vis Spectroscopy, conductivity and magnetic susceptibility measurements. The nature of the complexes formed in ethanolic solution has been studied following the molar ratio method also was studied stability constant and found to be stable in molar ratio1:1 of VL (IV) and CoL(II) while Pt(IV), Au(III) and Rh(III) complexes stable in molar ratio 1:2 as well as the molar absorptivity for these complexes were calculated. From the previous analyses, octahedral geometry was suggested for Pt (IV), Rh (III) and Co (II) complexes, square planar was suggested for Au(III) complex while V(IV) complex has a square pyramidal. Cytotoxic effect of PtL, AuL and RhL as well as ligand has been evaluated against RD cell line by using four different concentrations (500, 250, 125 & 62.5 µg/ml) respectively in three exposure times 24, 48 and 72 hrs and compared this effect with control positive Cis-Pt

High-Resolution Replication Profiles Define the Stochastic Nature of Genome Replication Initiation and Termination

Copyright © 2013 The Authors. Published by Elsevier Inc. All rights reserved.Peer reviewedPublisher PD

Multi-Level Kinetic Model of mRNA Delivery via Transfection of Lipoplexes

Recent work on the use of mRNA lipoplexes for gene delivery demonstrates the need for a mathematical model that simulates and predicts kinetics and transfection efficiency. The small copy numbers involved make it necessary to use stochastic models and include statistical analysis of the variation observed in the experimental data. The modeling requirements are further complicated by the multi-level nature of the problem, where mRNA molecules are contained in lipoplexes, which are in turn contained in endosomes, where each of these entities displays a behavior of its own. We have created a mathematical model that reproduces both the time courses and the statistical variance observed in recent experiments using single-cell tracking of GFP expression after transfection. By applying a few key simplifications and assumptions, we have limited the number of free parameters to five, which we optimize to match five experimental determinants by means of a simulated annealing algorithm. The models demonstrate the need for modeling of nested species in order to reproduce the shape of the dose-response and expression-level curves

Multi-Level Kinetic Model of mRNA Delivery via Transfection of Lipoplexes

Recent work on the use of mRNA lipoplexes for gene delivery demonstrates the need for a mathematical model that simulates and predicts kinetics and transfection efficiency. The small copy numbers involved make it necessary to use stochastic models and include statistical analysis of the variation observed in the experimental data. The modeling requirements are further complicated by the multi-level nature of the problem, where mRNA molecules are contained in lipoplexes, which are in turn contained in endosomes, where each of these entities displays a behavior of its own. We have created a mathematical model that reproduces both the time courses and the statistical variance observed in recent experiments using single-cell tracking of GFP expression after transfection. By applying a few key simplifications and assumptions, we have limited the number of free parameters to five, which we optimize to match five experimental determinants by means of a simulated annealing algorithm. The models demonstrate the need for modeling of nested species in order to reproduce the shape of the dose-response and expression-level curves

Web Service Discovery – Reality Check 2.0

In practice the ability to find the right Web service decides between a functionality being implemented anew and at least the possibility of executing it via a service. This report evaluates existing public portals for Web service discovery with respect to their characteristics and their acceptance by developers. For this, we distinguish different possible settings and use cases and evaluate how these are supported in practice. Only few of the publicly available Web service registries are growing in size and importance, with the use case best supported being the pre-programming phase of evaluation of the service landscape. <br

A practical guide for the study of human and murine sebaceous glands in situ

The skin of most mammals is characterised by the presence of sebaceous glands (SGs), whose predominant constituent cell population is sebocytes, that is, lipid-producing epithelial cells, which develop from the hair follicle. Besides holocrine sebum production (which contributes 90% of skin surface lipids), multiple additional SG functions have emerged. These range from antimicrobial peptide production and immunomodulation, via lipid and hormone synthesis/metabolism, to the provision of an epithelial progenitor cell reservoir. Therefore, in addition to its involvement in common skin diseases (e.g. acne vulgaris), the unfolding diversity of SG functions, both in skin health and disease, has raised interest in this integral component of the pilosebaceous unit. This practical guide provides an introduction to SG biology and to relevant SG histochemical and immunohistochemical techniques, with emphasis placed on in situ evaluation methods that can be easily employed. We propose a range of simple, established markers, which are particularly instructive when addressing specific SG research questions in the two most commonly investigated species in SG research, humans and mice. To facilitate the development of reproducible analysis techniques for the in situ evaluation of SGs, this methods review concludes by suggesting quantitative (immuno-)histomorphometric methods for standardised SG evaluation