Introduction to Human Genetic Epidemiology.

Human genetic epidemiology (HGP) is concerned with a knowledge of medicine, preventive medicine, public health, and epidemiology. In the modern era of genetic medicine, HGP must be concerned with human genetic diversity including mutation and polymorphism.

Data Analysis Using R Programming.

Beginning RR is an open-source, freely available, integrated software environment for data manipulation, computation, analysis, and graphical display. The R environment consists of *a data handling and storage facility, *operators for computations on arrays and matrices, *a collection of tools for data analysis *graphical capabilities for analysis and display, and *an efficient, and continuing developing programming algebra-like programming language which consists of loops, conditionals, user-defined functions, and input and output capabilities. Many R programs are available for biostatistical analysis in Genetic Epidemiology. Typical examples are shown.

Applied Statistics for Human Genetics Using R.

This chapter considers the fundamental concepts in the theory of probability and applied statistics in epidemiology, including the biostatistical concepts and measures in genetic association and familial aggregation studies, including: Additional Approaches in Familial Aggregation Studies Twin Studies Adoption Studies Inbreeding Studies Randomization Test Segregation studies, Linkage studies, Association studies Genome-wide Association Studies (GWAS) Big Data and Human Genomics.

Applied Human Genetic Epidemiology.

This chapter covers the study of human epidemiology, including family studies in genetic epidemiology, linkage analysis, genetic Mapping in human diseases, human genetic influences on diseases, genetic relationships in familial aggregation, and derivation of familial risk.An Illustration is provided of a research project in genetic epidemiology research which included (1) Heritability Analysis (2) Molecular Variation Study Methods (3) Genomics for Human Genetic Epidemiology Complex Traits and Mendelian Inheritance Mendel's Laws Hardy-Weinberg Principle Gene Structure and Genetic Code Genetic Linkage and Linkage Disequilibrium Study Designs for of Rare Genetic Variations Spectrum of Variation Familial Factors in Human Genetic Epidemiology *Human Genetic Association Genetic Epidemiology Owing to Population Stratification Environmental Effects on Genetic Epidemiology Genetic Epidemiology and Public Health.

Human Genetic Epidemiology Using R.

This chapter illustrates the biostatistical human genetics with an introduction to the T-Test, and the Manhattan Plots in statistics using Human Genetic Data concepts leading to procedures for Statistical Tests and Utilities for Genetic Association. Several R packages are chosen: iGasso, GenABEL, and HardyWeinberg. Other topics discussed include: Regression Decision Trees and Classifications Multi-dimensional Analysis in Genetic Epidemiology Regression Decision Trees and Classifications.

Crystal structure of the complex of plasminogen activator inhibitor 2 with a peptide mimicking the reactive center loop.

The structure of the serpin, plasminogen activator inhibitor type-2 (PAI-2), in a complex with a peptide mimicking its reactive center loop (RCL) has been determined at 1.6-A resolution. The structure shows the relaxed state serpin structure with a prominent six-stranded beta-sheet. Clear electron density is seen for all residues in the peptide. The P1 residue of the peptide binds to a well defined pocket at the base of PAI-2 that may be important in determining the specificity of protease inhibition. The stressed-to-relaxed state (S --> R) transition in PAI-2 can be modeled as the relative motion between a quasirigid core domain and a smaller segment comprising helix hF and beta-strands s1A, s2A, and s3A. A comparison of the Ramachandran plots of the stressed and relaxed state PAI-2 structures reveals the location of several hinge regions connecting these two domains. The hinge regions cluster in three locations on the structure, ensuring a cooperative S --> R transition. We hypothesize that the hinge formed by the conserved Gly(206) on beta-strand s3A in the breach region of PAI-2 effects the S --> R transition by altering its backbone torsion angles. This torsional change is due to the binding of the P14 threonine of the RCL to the open breach region of PAI-2.

Immunisation against the amino-terminal peptide (alpha N) of the alpha 43 subunit of inhibin impairs fertility in sheep.

Processing of the 58 kDa to the 31 kDa form of inhibin (Inh) involves cleavage of the amino-terminal peptide (alpha N) from the alpha 43-subunit. We show that active immunisation of female sheep against a recombinant bovine alpha N impairs their fertility. In Exp 1, 5 treated (Group 1; 300 micrograms alpha N) and 6 control ewes (Group 2; adjuvant only) were immunized (Day 1) and given boosters on Days 22 and 56. In Group 1, mean +/- SEM binding of 125I-31 kDa Inh was less than 0.5% on Days 33 and 44, whereas binding of 125I-58 kDa Inh was 4.9 +/- 0.7 and 6.2 +/- 0.6%, respectively. In Group 2 binding of both tracers was less than 0.5%. The corpora lutea (CL)/ewe in Group 1 on Days 44 and 82 were 1.8 +/- 0.2 and 2.8 +/- 0.9, respectively, and were not different from those in Group 2 (1.7 +/- 0.3 and 1.5 +/- 0.2, respectively). One ewe in Group 1 versus 5/6 ewes in Group 2 were diagnosed pregnant. In Exp 2, 18 treated and 16 controls were immunized as in Exp 1. The binding of 125I-58 kDa Inh in treated ewes (2.4 +/- 0.3%) was greater than in controls (less than 0.5%) on Day 56. The CL/ewe in treated ewes (1.8 +/- 0.2) was similar to that in controls (2.0 +/- 0.1) on Day 76. All 16 control ewes but only 7/17 treated ewes were subsequently diagnosed pregnant. The plasma progesterone concentrations were similar in treated ewes which did (7.6 +/- 1.2 nmol/L) and did not (7.0 +/- 0.7) become pregnant. Neither basal nor GnRH-stimulated concentrations of LH, nor basal concentrations of Inh differed between treated and controls in Exp 2. Similarly, there were no differences in FSH, except that basal concentrations were higher in the luteal phase of treated ewes. We conclude that immunisation of ewes against alpha N results in a significant reduction in fertility.

Immunization against an inhibin subunit produced by recombinant DNA techniques results in increased ovulation rate in sheep.

Seven Merino-Border Leicester cross-bred ewes were immunized with a purified fusion protein, produced by recombinant DNA methods, of the alpha subunit of bovine inhibin. Four animals were immunized with the fusion protein alone and three with a conjugate made by coupling the fusion protein to keyhole limpet haemocyanin (KLH) using glutaraldehyde. Each animal received four injections of the fusion protein over 93 days. The animals were synchronized using progestagen sponges and subjected to laparoscopy for the determination of ovulation rates in two consecutive cycles (days 115 and 135). The immunized animals had overall mean ovulation rates for each cycle of 3.4 and 3.4 which was significantly (P less than 0.001) above the rates of 1.1 and 1.4 determined for the controls, which had either received no treatment (n = 5) or had been immunized with 300 micrograms KLH (n = 4). Analysis of antisera taken on day 115 showed significant fusion protein antibodies and iodinated inhibin-binding capacity in the test but not control groups. Furthermore, antisera to the fusion protein in four out of seven ewes neutralized the inhibin bioactivity of ovine follicular fluid in an in-vitro bioassay. These data demonstrate that neutralization of inhibin can be effected by immunization with bovine inhibin alpha subunit and that such immunization results in increased ovulation rates as predicted from the biological role of inhibin as a suppressor of FSH.

Synthesis of teichoic acid by Bacillus subtilis protoplasts.

Protoplasts of Bacillus subtilis W23 readily synthesized ribitol teichoic acid from nucleotide precursors in the surrounding medium. With cytidine diphosphate-ribitol they made poly(ribitol phosphate), presumably attached to lipoteichoic acid carrier; when cytidine diphosphate-glycerol and uridine diphosphate-N-acetylglucosamine were also present a 10-fold increase in the rate of polymer synthesis occurred, and the product contained both the main chain and the linkage unit. Synthesis was inhibited by trypsin or p-chloromercuribenzenesulfonate in the medium, and we concluded that it occurred at the outer surface of the membrane. During synthesis, which was also achieved readily by whole cells after a brief period of wall lysis, the cytidine phosphate portion of the nucleotide precursors did not pass through the membrane. No evidence could be obtained for a transphosphorylation mechanism for the translocation process. It is suggested that reaction with exogenous substrates was due to temporary exposure of a protein component of the enzyme complex at the outer surface of the membrane during the normal biosynthetic cycle.