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Centile charts II: alternative nonparametric approach for establishing time-specific reference centiles and assessment of the sample size required.

BACKGROUND: Reference intervals, and more generally centile estimates, are used to characterize a reference population for the purposes of interpreting an individual patient's clinical measurement. We describe methods of calculating reference intervals where these centiles vary with a covariate, usually age or time. METHODS: The US Food and Drug Administration and the IFCC have made recommendations on two approaches: the parametric approach, which models the structural characteristics of the data set with a theoretical distribution, and the nonparametric approach, which makes no particular assumption about this structure. In this report we propose a nonparametric procedure that relies on the principles of regression and show how sample size determination can be assessed. We also show how the sample size calculation is influenced by the distribution of the times measured. RESULTS: We illustrated our method on three data sets and compared the results for our proposed nonparametric method with parametric estimates. We showed that the bias is reduced and that the nonparametric method is less likely to produce fluctuating profiles. CONCLUSIONS: To achieve adequate precision the sample size needs to be larger than 120, as has often been recommended. If there is doubt about the parametric model, then threshold sample sizes may need to be as high as 500.

Adolescent↗

Leaving patches: Effects of travel requirements.

Five pigeons were trained in an analogue foraging procedure in which, by completing a travel requirement, they entered a "patch" in which a reinforcer might be available after an unpredictable time. They also had the opportunity, by emitting a defined response, to exit the patch and travel to another patch. Prey availability in a patch was not signaled. Data were collected on the length of time that subjects stayed in patches before exiting (residence times) as a function of various travel requirements: travel for a fixed time in blackout, fixed-interval schedule traveling, fixed-time traveling with an added response required to terminate traveling, and fixed-ratio traveling. For each of these conditions, the required amount of travel (time or responses) was varied over a wide range. As previously reported, residence times increased with increases in fixed-time traveling, as they did with increasing fixed-interval or fixed-ratio traveling. There was no evidence that adding response or work requirements systematically affected residence time except via increased travel time, although 3 of the 5 birds stayed longer in a patch under higher fixed-ratio values. A "threshold-maximization" model described the data well with a single parameter that was consistent across subjects, procedures, and experiments.

Journal Article↗

Heritabilities of and genetic relationships between salmonella resistance traits in broilers.

Using experimental infections, three traits for salmonella resistance were studied: mortality, survival time (in animals that died by infection), and quantitative cecal salmonella carriage at the end of the rearing period (in animals that did not die). In total, 548 animals were used; mortality was 29.2%, mean survival time was 5.97 d (n = 160), and the mean 10log of colony forming units per gram of cecal contents was 1.62 (n = 387). Genetic parameters were evaluated in bivariate threshold-linear models to account for the selective measurement of survival time and cecal carriage. Heritabilities were .06 for survival time, .09 for cecal carriage, and .12 for mortality. The genetic correlation between mortality and cecal carriage was weak (.26), which suggests that these traits are largely controlled by different genes. The genetic correlation between mortality and survival time was relatively strong (-.68). Simultaneous study of multiple traits seems to be of particular importance in judging epidemiological consequences of a possible selection for resistance. Results here indicate that selection on decreased mortality could be unfavorable for the spread of salmonella because the resulting correlated increase in survival time, implying longer shedding by infected animals, is relatively stronger than the correlated decrease in level of cecal carriage. Selection to reduce the level of cecal salmonella carriage could be done while keeping survival time constant, if so desired, because the correlation between these traits is weak (-.15).

Animals↗

Analysis of litter size and days to lambing in the Ripollesa ewe. II. Estimation of variance components and response to phenotypic selection on litter size.

A performance data set from 376 Ripollesa purebred ewes of the experimental flock of the Universitat Autònoma of Barcelona was analyzed using a bivariate Bayesian threshold-linear model. The data set contained 1,598 litter size records and 1,699 days-to-lambing records. The model included the additive genetic effect of each animal and 3 nongenetic sources of variation: ewe age, year of lambing, and the permanent environmental effect characterized by the ewe. The flock was phenotypically selected for litter size since 1986, and replacement ewes and rams were selected from the progeny of the more prolific ewes, which had at least 3 deliveries recorded. The phenotypic trend for litter size was positive, whereas days to lambing followed an unclear pattern. Both traits had low heritabilities; 0.13 for litter size and 0.11 for days to lambing. Response to selection was evaluated through (a) the average breeding value of the ewe lambs chosen annually, and (b) the average breeding value of the overall flock. The first measurement suggested a positive trend for litter size, although it showed important oscillations. On the other hand, the average breeding value for the overall flock showed a stable positive tendency after yr 4 of selection, with estimates clearly different from zero after yr 11 of selection. A significant increase in the incidence of multiple births was observed, with a mode of approximately 10%. The correlated response in days to lambing did not show a significant trend. The effect of year of lambing also positively influenced both litter size and days to lambing, although important oscillations were observed between years. Results indicated that litter size in sheep can be effectively improved through phenotypic selection, even in small flocks; moreover, days to lambing could also be genetically improved, given the estimate obtained for its heritability.

Animals↗

Orofacial clefts in Czechoslovakia. Incidence, genetics and prevention of cleft lip and palate over a 19-year period.

The precise value of incidence was calculated based on the sample of 3,660 probands with orofacial clefts born in Bohemia between 1964-1982, as all cases born in this region and time were registered. For non-syndromic cases, the incidence of cleft lip was 0.4396 per 1,000 live birth, 0.7684 for cleft lip and palate and 0.6024 for isolated cleft palate. The sample of 4,950 of our older probands born between 1886-1963 was added and the whole sample of 8,250 individuals was evaluated with respect to sex-ratio, laterality, clinical severity, seasonal incidence and age of parents. The risk of recurrence and value of heritability were calculated as well. Based on these evaluations, a four-threshold multifactorial model for cleft lip and palate was suggested and also confirmed by our results of primary prevention of orofacial clefts using periconceptional supplementation with vitamins and folic acid.

Cleft Lip↗

Genetic selection for health traits using producer-recorded data. I. Incidence rates, heritability estimates, and sire breeding values.

The objective of this study was to determine the feasibility of genetic selection for health traits in dairy cattle using data recorded in on-farm herd management software programs. Data regarding displaced abomasum (DA), ketosis (KET), mastitis (MAST), lameness (LAME), cystic ovaries (CYST), and metritis (MET) were collected between January 1, 2001 and December 31, 2003 in herds using Dairy Comp 305, DHI-Plus, or PCDART herd management software programs. All herds in this study were either participants in the Alta Genetics (Watertown, WI) Advantage progeny testing program or customers of the Dairy Records Management Systems (Raleigh, NC) processing center. Minimum lactation incidence rates were applied to ensure adequate reporting of these disorders within individual herds. After editing, DA, KET, MAST, LAME, CYST, and MET data from 75,252 (313), 52,898 (250), 105,029 (429), 50,611 (212), 65,080 (340), and 97,318 (418) cows (herds) remained for analysis. Average lactation incidence rates were 0.03, 0.10, 0.20, 0.10, 0.08, and 0.21 for DA, KET, MAST, LAME, CYST, and MET (including retained placenta), respectively. Data for each disorder were analyzed separately using a threshold sire model that included a fixed parity effect and random sire and herd-year-season of calving effects; both first lactation and all lactation analyses were carried out. Heritability estimates from first lactation (all lactation) analyses were 0.18 (0.15) for DA, 0.11 (0.06) for KET, 0.10 (0.09) for MAST, 0.07 (0.06) for LAME, 0.08 (0.05) for CYST, and 0.08 (0.07) for MET. Corresponding heritability estimates for the pooled incidence rate of all diseases between calving and 50 d postpartum were 0.12 and 0.10 for the first and all lactation analyses, respectively. Mean differences in PTA for probability of disease between the 10 best and 10 worst sires were 0.034 for DA, 0.069 for KET, 0.130 for MAST, 0.054 for LAME, 0.039 for CYST, and 0.120 for MET. Based on the results of this study, it appears that genetic selection against common health disorders using data from on-farm recording systems is possible.

Abomasum↗

Genetic selection for health traits using producer-recorded data. II. Genetic correlations, disease probabilities, and relationships with existing traits.

The objectives of this study were to calculate genetic correlations between health traits that were recorded in on-farm herd management software programs and to assess relationships between these traits and other traits that are routinely evaluated in US dairy sires. Data consisted of 272,576 lactation incidence records for displaced abomasum (DA), ketosis (KET), mastitis (MAST), lameness (LAME), cystic ovaries (CYST), and metritis (MET) from 161,622 cows in 646 herds. These data were collected between January 1, 2001 and December 31, 2003 in herds using the Dairy Comp 305, DHI-Plus, or PCDART herd management software programs. Binary incidence data for all disorders were analyzed simultaneously using a multiple-trait threshold sire model that included random sire and herd-year-season of calving effects. Although data from multiple lactations were available for some animals, our genetic analysis included only first parity records due to concerns about selection bias and improper modeling of the covariance structure. Heritability estimates for the presence or absence of each disorder during first lactation were 0.14 for DA, 0.06 for KET, 0.09 for MAST, 0.03 for LAME, 0.04 for CYST, and 0.06 for MET. Estimated genetic correlations were 0.45 between DA and KET, 0.42 between KET and CYST, 0.20 between MAST and LAME, 0.19 between KET and LAME, 0.17 between DA and CYST, 0.17 between KET and LAME, 0.17 between KET and MET, and 0.16 between LAME and CYST. All other correlations were negligible. Correlations between predicted transmitting abilities for the aforementioned health traits and existing production, type, and fitness traits were low, though it must be noted that these estimates may have been biased by low reliability of the health trait evaluations. Based on results of this study, it appears that genetic selection for health disorders recorded in on-farm software programs can be effective. These traits can be incorporated into selection indices directly, or they can be combined into composite traits, such as "reproductive disorders", "metabolic disorders", or "early lactation disorders".

Abomasum↗

Genetic association between susceptibility to clinical mastitis and protein yield in norwegian dairy cattle.

The objective of this study was to examine associations between susceptibility to clinical mastitis and protein yield in first-lactation Norwegian Dairy Cattle (NRF) cows. Records from 372,227 first-lactation daughters of 2411 NRF sires were analyzed bivariately, using a threshold-liability model for clinical mastitis and a linear Gaussian model for 305-d protein yield. The mean (SD) of the posterior distribution of heritability was 0.08 (0.004) for susceptibility to clinical mastitis and 0.19 (0.007) for 305-d protein yield. The posterior mean (SD) of the genetic correlation between susceptibility to clinical mastitis and 305-d protein yield was 0.43 (0.03). Posterior means of the correlations between herd-5-yr effects, and between model residuals were 0.19 and -0.008, respectively. Corresponding estimates of genetic, herd-5-yr, and residual correlations from a bivariate linear model analysis were 0.42, 0.18, and -0.008, respectively. An antagonistic genetic relationship between clinical mastitis and protein yield was corroborated.

Animals↗

Short communication: Genetic analysis of nonreturn rate and mastitis in first-lactation Norwegian Red cows.

Associations between clinical mastitis (CM) and nonreturn rate within 56 d after first insemination (NR56) were examined in Norwegian Red (NRF) cows. Records on absence or presence of CM within each of the intervals, -30 to 30, 31 to 150, and 151 to 300 d after first calving, and records on NR56 for 620,492 first-lactation daughters of 3,064 NRF sires were analyzed with a Bayesian multivariate threshold liability model. Point estimates of genetic correlations between NR56 and the 3 CM traits were between -0.05 and -0.02. Residual correlations were close to zero, and correlations between herd-5-yr effects on NR56 and CM in the 3 lactation intervals ranged from -0.15 to -0.17. It appears that CM and NR56 in first lactation are independent traits.

Animals↗

Genetic parameters for health traits and their relationship to different persistency traits in German Holstein dairy cattle.

Data from 3,200 Holstein cows from 3 commercial dairy farms in Germany were used to estimate heritabilities and breeding values for liability to udder diseases (UD), fertility diseases (FD), metabolic diseases (MD), and claw and leg diseases (CLD) using single-trait threshold sire models. A total of 92,722 medical treatments recorded from 1998 to 2003 were included in the analysis. Approximate genetic correlations between persistency of milk yield, fat yield, protein yield, and persistency of milk energy yield and liability to the health traits were calculated based on correlations between EBV. Posterior means of heritability of liability ranged from 0.05 to 0.08 for UD, from 0.04 to 0.07 for FD, from 0.08 to 0.12 for MD, and from 0.04 to 0.07 for CLD. Approximate genetic correlations of the disease traits with the persistency traits were favorable, except for MD in all lactations, which were unfavorable, and UD, which were around zero. Highest correlations in the range of 0.13 to 0.46 were found between the different persistency traits and CLD.

Animals↗

Mastitis of periparturient Holstein cattle: a phenotypic and genetic study.

Environmental and genetic factors affecting somatic cell scores, clinical mastitis, and IMI by minor and major pathogens were studied on 137 periparturient Holstein cows selected for milk production. Environmental effects were obtained by generalized least squares and logistic regression. Genetic parameters were from BLUP and threshold animal models. Lactation number affected the number of quarters with clinical mastitis and the number of quarters infected with minor pathogens. The DIM affected somatic cell score and number of quarters infected with major pathogens. Heritabilities for all mastitis indicators averaged 10%, but differences occurred among the indicators. Correlations between breeding values of the number of quarters infected with minor pathogens and the number infected with major pathogens were antagonistic and statistically significant.

Animals↗

Two retroviral infections of periparturient Holstein cattle: a phenotypic and genetic study.

Environmental and genetic factors affecting prevalences of antibodies to bovine leukosis virus and bovine immunodeficiency-like virus were studied on 137 periparturient Holstein cows selected for milk production. Environmental effects were obtained by logistic regression, and genetic parameters were determined using threshold animal models. Cows selected for high predicted transmitting ability for kilograms of milk fat plus protein had the highest prevalence of antibodies to bovine immunodeficiency-like virus and the lowest prevalence of antibodies to bovine leukosis virus. Heritability estimates for susceptibility to retroviral infections were close to zero.

Animals↗

Standardized care plan. Managing Alzheimer's patients at home.

1. Family-provided care of members with Alzheimer's disease and related disorders (ADRD) is complicated by the presence of secondary behavioral symptoms, such as agitation, that lead to caregiver depression, burden, and breakdown. 2. Caregiver education to manage secondary symptoms in ADRD can be simplified by using a theoretical framework of person-environment fit, providing a selection of interventions to modify the environment to reduce demand on the dwindling resources of the demented person. 3. The Progressively Lowered Stress Threshold (PLST) model identifies six areas of stress for persons with ADRD fatigue, change of caregiver, environment or routine, demands to achieve beyond capability, multiple and competing stimuli, affective response to perceived losses, and physical stressors.

Aged↗

Development and analysis of the effects of caregiver training program on aggressive behavior in elders with cognitive impairment.

PURPOSE: The purposes of this study were to 1) describe the type and frequency of aggressive behavior of cognitively impaired nursing home resident, 2) develop a caregiver training program on prevention and management of aggressive behavior, 3) examine the effects of caregiver training program on the incidence of aggressive behavior of cognitively impaired nursing home resident, and 4) examine the effects of caregiver training program on nursing staff's aggressive behavior management skills. METHODS: One-group, time series, quasi-experimental design with a pre-test and two post-tests was used. Data were collected from cognitively impaired home residents (N=32) and nursing staff (N=36) in a proprietary nursing home using Ryden Aggression Scale I, II, and Aggressive Behavior Management Scale. Data were entered and analyzed by descriptive statistics and repeated measures ANOVA. RESULTS: Incidence of aggressive behavior was high with a mean score of 3.09 (SD=3.11) at baseline. Caregiver training program was developed based on Progressively Lowered Stress Threshold (PLST) model and gerontological and psychiatric literature. The mean scores of aggressive behavior at baseline, Post I, and II did not differ significantly although the difference approached to the significant level (F=2.925, p=.066). Nursing staff's aggressive behavior management skills increased at Post I, and at Post II when compared to baseline, and the difference was significant (F=12.736, p=<.001). CONCLUSION: Caregiver training program showed potential impact on reduction of aggressive behavior in elders with cognitive impairment and was effective in increasing nursing staff's aggressive behavior management skills.

Adult↗

Heritability of defects of far vision in young adults--a twin study.

A questionnaire to study defects in far vision in the Finnish Twin Cohort Study was sent to 600 twin pairs of 30 and 31 years of age divided equally by gender and zygosity. An excess in female prevalence of defects in far vision was observed (p less than 0.001). Validation of the questionnaire method to assess negative spherical equivalent of refraction was performed by asking the twins to send their last prescription for glasses. Accuracy of the questionnaire method to detect in far vision was tested using a subsample of cases where actual refraction obtained from the prescription for glasses was available. This actual refraction value was compared with the individuals answers to the questions of far vision. Of the subjects 5.5% were false negatives and 1.8% of the individuals were false positives. In 152 pairs one or both twins had a defect in far vision. Under a threshold liability model, the proportion of total (phenotypic) variance in liability attributable to additive genetic effects was 0.91 in this twin data, while no evidence for effects due to dominance was found.

Adult↗

Historical blunders: how toxicology got the dose-response relationship half right.

Substantial evidence indicates that reliable examples of hormetic dose responses in the toxicological literature are common and generalizable across biological model, endpoint measured and chemical class. Further evaluation revealed that the hormetic dose response model is more common than the threshold dose response model in objective, head-to-head comparisons. Nonetheless, the field of toxicology made a profound error by rejecting the use of the hormetic dose response model in its teaching, research, risk assessment and regulatory activities over nearly the past century. This paper argues that the hormetic dose response model (formerly called the Arndt-Schulz Law) was rejected principally because of its close historical association with the medical practice of homeopathy as a result of the prolonged and bitter feud between traditional medicine and homeopathy. Opponents of the concept of hormesis, making use of strong appeals to authority, were successful in their misrepresentation of the scientific foundations of hormesis and in their unfair association of it with segments of the homeopathic movement with extreme and discreditable views. These misrepresentations became established and integrated within the pharmacology and toxicology communities as a result of their origins in and continuities with traditional medicine and subsequently profoundly impacted a broad range of governmental risk assessment activities further consolidating the rejection of hormesis. This error of judgment was reinforced by toxicological hazard assessment methods using only high and few doses that were unable to assess hormetic responses, statistical modeling processes that were constrained to deny the possibility of hormetic dose response relationships and by the modest nature of the hormetic stimulatory response itself, which required more rigorous study designs to evaluate possible hormetic responses.

Animals↗

Association and linkage studies of genetic marker loci in major psychiatric disorders.

Studies of the segregation of major psychiatric disorders in families are consistent with multiple threshold polygenic models rather than with major locus transmission. This does not however rule out the possibility of identifying major locus traits that correlate with disease susceptibility. One approach has been to ascertain the degree of association between well characterized genetic markers and psychiatric disorders. The theory and methodology of such association and linkage studies are reviewed. The results of such studies lead to the conclusion that the association of ABO and HLA subtypes with affective disorders and schizophrenia is extremely variable, although there may be an association between HLA A9 and paranoid schizophrenia. The alternative strategy has been to identify specific genetically transmitted traits which are associated with disorders, and so could represent potential etiological factors. A review of these studies points to the potential usefulness of cholinergic and GABA markers for susceptibility to affective disorders. CT scan traits and attentional variables appear to be the most promising indicators of susceptibility to schizophrenia. cDNA probes in restriction enzyme digests for regularly spaced polymorphisms, and restriction fragment length polymorphisms offer the promise of a radical expansion in the number of markers available for linkage studies.

ABO Blood-Group System↗

Epigenetic nature of radiation carcinogenesis at low doses.

The present paradigm of radiation-induced carcinogenesis has been based on somatic mutation theory initiating a mutation in somatic cells derived from DNA damage by ionizing radiation. A non-threshold linear model has been assumed from high doses to low doses. As an alternative to this, we are proposing a new model that epigenetic changes induced by low dose irradiation may be a first step of carcinogenesis. Our preliminary data suggesting the epigenetic nature and reports on various stress response to ionizing radiation are presented.

Animals↗