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Reaction time for /s/ and /z/ in stutterers and nonstutterers: a test of discoordination hypothesis.

In an attempt to test the hypothesis that stuttering is the result of discoordination between phonation and articulation, 10 adult stutterers and 10 adult nonstutterers were asked to produce prolonged versions of /z/ and /s/ sounds, as quickly as possible, in response to tone stimuli. It was hypothesized that stutterers would exhibit significantly longer reaction time (RT) for the /z/, a voiced sound, than would a similar group of nonstutterers, whereas the two groups would not differ in RT for the /s/ sound, the unvoiced counterpart of /z/. The results showed that stutterers as a group did not differ from nonstutterers in RT for either the /z/ of the /s/ sound. However, it was found that severe stutterers exhibited significantly longer RTs for the /z/ sound than did mild stutterers. There were no differences between severe and mild stutterers in RT for the /s/ sound.

Adult↗

Cognitive antecedents of early reading ability: a test of the modularity hypothesis.

This study tested the hypothesis that the cognitive antecedents of word recognition are uniquely domain-specific and unrelated to higher-order domain-general cognitive abilities. This hypothesis was evaluated in a longitudinal study of 349 Hebrew-speaking children (mean age: 6.0 years) who were tested on a battery of domain-specific (phonological awareness, phonological memory, visual-orthographic processing, and early literacy) and domain-general tasks (general intelligence, higher-order reasoning, and language) at the end of kindergarten. Word recognition and reading comprehension were assessed at the end of Grade 1. Whereas the kindergarten domain-specific measures accounted for significant and substantial variance in word recognition (33%), the domain-general measures explained only 5% of the variance. Furthermore, the contribution of domain-specific variables to word recognition remained unaltered even after controlling for all domain-general and higher-order language tasks. Reading comprehension, in contrast, was predicted by both print-specific skills (51%) and domain-general abilities (44%). These findings strongly support the notion of word recognition modularity in a well-encapsulated orthography.

Child↗

Testing for additivity at select mixture groups of interest based on statistical equivalence testing methods.

Several assumptions, defined and undefined, are used in the toxicity assessment of chemical mixtures. In scientific practice mixture components in the low-dose region, particularly subthreshold doses, are often assumed to behave additively (i.e., zero interaction) based on heuristic arguments. This assumption has important implications in the practice of risk assessment, but has not been experimentally tested. We have developed methodology to test for additivity in the sense of Berenbaum (Advances in Cancer Research, 1981), based on the statistical equivalence testing literature where the null hypothesis of interaction is rejected for the alternative hypothesis of additivity when data support the claim. The implication of this approach is that conclusions of additivity are made with a false positive rate controlled by the experimenter. The claim of additivity is based on prespecified additivity margins, which are chosen using expert biological judgment such that small deviations from additivity, which are not considered to be biologically important, are not statistically significant. This approach is in contrast to the usual hypothesis-testing framework that assumes additivity in the null hypothesis and rejects when there is significant evidence of interaction. In this scenario, failure to reject may be due to lack of statistical power making the claim of additivity problematic. The proposed method is illustrated in a mixture of five organophosphorus pesticides that were experimentally evaluated alone and at relevant mixing ratios. Motor activity was assessed in adult male rats following acute exposure. Four low-dose mixture groups were evaluated. Evidence of additivity is found in three of the four low-dose mixture groups. The proposed method tests for additivity of the whole mixture and does not take into account subset interactions (e.g., synergistic, antagonistic) that may have occurred and cancelled each other out.

Animals↗

Low cost of locomotion in the banded Gecko: a test of the nocturnality hypothesis.

This study tested the hypothesis that there has been an evolutionary increase in locomotor performance capacity at low temperature in nocturnal lizards. Nocturnal lizards are often active at low and suboptimal body temperatures. An evolutionary decrease in the minimum cost of locomotion could increase endurance capacity at low temperature, partially offsetting the thermal handicap of nocturnality. In support of the nocturnality hypothesis, we discovered that minimum cost of locomotion of a nocturnal gecko, Coleonyx variegatus (4.2 g), was only 58% of the minimum cost of locomotion of Phrynosoma douglassii, a diurnal lizard (4.5 g). As a result, maximum aerobic speed was 2.3 times as great in the nocturnal lizard compared to the diurnal lizard. By using the method of phylogenetically independent contrasts at the species level, we showed that the relationship between mass and minimum cost of locomotion in diurnal lizards was similar to that of the ahistorical standard allometry and that low minimum cost of locomotion in geckos represents a significant evolutionary change from the ancestral diurnal pattern. The decrease in the minimum cost of locomotion concordant with the evolution of nocturnality suggests that geckos evolved a greater capacity for sustained locomotion at low temperature.

Animals↗

Comparative microarray analysis.

Microarrays enable high-throughput parallel gene expression analysis, and their use has grown exponentially during the past decade. We are now in a position where individual experiments could benefit from using the swelling public data repositories to allow microarrays to progress from being a hypothesis-generating tool to a powerful resource that can be used to test hypothesis about biology. Comparative microarray analysis could better distinguish phenotypes from associated phenotypes; identify valid differentially expressed genes by combining many studies; test new hypothesis; and discover fundamental patterns of gene regulation. This review aims to describe the additional methodology needed for such comparative microarray analysis, and we identify and discuss a number of problems such as loss of published data, lack of annotations, and variable array quality, which need to be solved before comparative microarray analysis can be used in a more systematic and powerful manner.

Animals↗

Modelling the probability distribution of the number of DNA double-strand breaks due to sporadic alkylation of nucleotide bases.

Metabolites and certain chemical agents (for example methyl methanesulfonate) can induce nucleotide bases on chromosomal strands to become alkylated. These alkylated sites have the potential to become single-strand chromosomal breaks, a form of DNA damage, if they are exposed to a sufficient temperature in vitro. It has been proposed that a single-strand break (SSB) sufficiently close to another SSB on the opposite chromosomal strand will form a double-strand break (DSB). DNA repair mechanisms are less able to repair DSBs compared to SSBs. Because of the complex three-dimensional structure of DNA, some chromosomal regions are more susceptible to alkylation than others. A question of interest is therefore whether these alkylated bases are randomly distributed or tend to be clustered. Pulsed-field gel electrophoresis allows the number of DNA fragments (and hence the number of DSBs) to be observed directly. The randomness of alkylation events can therefore be tested using the standard statistical hypothesis-testing framework. Under the null hypothesis, that the SSBs are randomly distributed on each of the strands, we can calculate the probability of observing a number of DSBs at least as large as that observed and hence the associated p-value. Previously, the probability distribution of the number of DSBs has been determined by Monte Carlo simulations; when considering the whole genome this can be very time consuming. In this paper, we theoretically derive an approximation to the distribution enabling appropriate probabilities to be calculated quickly. Based on previous findings we assume that the number of breaks on each strand is small compared to the number of nucleotide bases. We show that our method can give the correct probability distribution when alkylation events are relatively rare, discuss how rare these events have to be and suggest potential extensions to the model when a greater proportion of bases are alkylated.

Alkylation↗

Dimensions of perfectionism, daily stress, and depression: a test of the specific vulnerability hypothesis.

We tested whether perfectionism dimensions interact with specific stressors to predict depression. A depressed patient sample (N = 51) and a general psychiatric sample (N = 94) completed measures of perfectionism, hassles, and depression. Subjects in Sample 2 also completed other personality measures to assess the amount of unique variance in depression. Partial support was obtained in that in both samples self-oriented perfectionism interacted only with achievement stressors to predict depression. Socially prescribed perfectionism interacted with interpersonal stress in Sample 1 and with achievement stress in Sample 2 to predict depression. Several personality variables, including socially prescribed perfectionism, accounted for unique variance in depression. The results suggest that perfectionism dimensions are associated with depression and may constitute specific vulnerability factors.

Achievement↗

Function of the blood-cerebrospinal fluid barrier in human cerebral malaria: rejection of the permeability hypothesis.

We tested the hypothesis that cerebral malaria is caused by blood-brain barrier inflammation and cerebral edema. In a group of 157 Thai patients with strictly defined cerebral malaria, cerebrospinal fluid (CSF) opening pressures were normal in 79% and were lower in fatal cases than in survivors (means +/- 1 SD, 144 +/- 58 and 167 +/- 51 mm CSF, respectively, P = 0.051). CSF: serum albumin ratios (X 10(3)) in 39 of them were significantly higher than in 61 British controls (medians 8.5 and 5.5, respectively, P = 0.04), but were no higher in 7 fatal cases. In a group of 12 patients this ratio was not significantly higher during coma than after full recovery (means +/- 1 SD, 9.0 +/- 6.2 and 6.7 +/- 4.2, respectively, P greater than 0.1). CSF alpha 2-macroglobulin concentrations were always normal. CSF : serum 77Br- ratios were elevated in 11/19 comatose cases but fell to normal 4 to 9 days later in 11/11 cases. Dexamethasone treatment had no significant effect on bromide partition. The percentage of an intravenously administered dose of 125I-human serum albumin detectable per ml of CSF 6 hr after intravenous injection was 2.4 +/- 1.3 X 10(-5) in 14 comatose patients and 4.4 +/- 4.0 X 10(-5) in 9 of them during convalescence (P greater than 0.1). These results demonstrate that the blood-CSF barrier is essentially intact in patients with cerebral malaria and give no support to the idea that cerebral edema is the cause of coma.

Blood-Brain Barrier↗

Thermolabile enzymes in progeria and Werner syndrome: evidence contrary to the protein error hypothesis.

To test the hypothesis that widespread errors in protein synthesis underlie diseases with features resembling premature aging, we examined the thermostability of two erythrocyte enzymes in three unrelated progeria families and in two Werner syndrome patients. Unlike previous reports, no increased heat-labile component of glucose-6-phosphate dehydrogenase (G6PD) or 6-phosphogluconate dehydrogenase (6PGD) was found. Our results do not support the protein error hypothesis. Our data raise questions regarding the usefulness of thermolabile enzyme level as a proposed marker for progeria or Werner syndrome.

Adult↗

Comparative hemolytic effectiveness of 1 MHz ultrasound on human and rabbit blood in vitro.

This project continued testing of the general working hypothesis that cell size is a physical determinant in extent of ultrasound (US)-induced hemolysis, the larger the cell the greater the lysis. For this project, the specific hypothesis tested was that human erythrocytes, being larger than rabbit erythrocytes, would be the more sensitive to sonolysis induced by inertial cavitation in the presence of Albunex, a US contrast agent. The rationale behind this hypothesis was 1. an earlier-published analytic construct indicating an inverse relation between particle size and the shear force required for deformation, and 2. a number of independent demonstrations that, among sized populations of erythrocytes, an inverse relation exists between erythrocyte volume and mechanically-induced shear forces in the cell-bathing medium; namely, the larger the cell, the less shear force required to rupture the cell's membrane. The present data support the hypothesis; over six independent trials, the mean corpuscular volumes of human (H) and rabbit (R) erythrocytes were 89.5 and 64.1 microm(3), respectively, H > R (p << 0.001), and the ratio of US-induced hemolysis in H to R blood in vitro was 1.12:1.0 (p < 0.004).

Animals↗

Directional asymmetry of body dimensions among white adolescents.

Asymmetry of paired dimensions has been recognized as a methodological problem in anthropometry and more recently as an indicator of environmental stress. This study seeks to determine the extent of directional asymmetry for some of the measurements commonly made in anthropometry. Upper arm circumference, biepicondylar breadth, triceps and subscapular skinfolds, bicondylar breadth of the femur, and calf circumference were measured on right and left sides among 135 white adolescents from suburban Philadelphia. Handedness (right or nonright) was subject-assessed. Body composition was estimated through underwater weighing. Asymmetry was evaluated using a paired t test. Arm measurements are significantly asymmetric in favor of the right side; subscapular skinfolds and leg measurements are not significantly asymmetric. Among the sample of right-handed subjects (n = 116), upper arm circumference and biepicondylar breadth were significantly larger on the right side, and, among the males of this subsample, triceps was as well. The nonright-handed subjects (n = 19) did not show statistically significant asymmetry. Asymmetry was negatively but weakly related to body composition. These results are consistent with an explanation in terms of preferred use of one side of the body and consequent muscle hypertrophy, but an adequate test of this explanation requires hypothesis testing in larger samples of nonright-handed subjects.

Adolescent↗

On sample size for sensitivity and specificity in prospective diagnostic accuracy studies.

The design of a study of disease screening tests may be based on hypothesis tests for the sensitivity and specificity of the tests. The case-control study requires knowledge of the disease status of patients at the time of enrollment. This may not be possible in a prospective setting, when the gold standard is obtained subsequent to the initial screening and the number of diseased individuals is random and can not be fixed by design. Several ad hoc procedures for determining the total sample size are commonly used by practitioners, for example, the prevalence inflation method. The properties of these methods are not well understood. We develop a formal method for sample size and power calculations based on the unconditional power properties of the test statistics. The approach provides novel insights into the behaviour of the commonly used methods. We find that the ad hoc prevalence inflation method may serve as a useful approximation to our rigorous framework for sample size determination in the prospective set-up. The design of a large population-based study of mammography for breast cancer screening illustrates the key issues.

Breast Neoplasms↗

Understanding implicit memory. A cognitive neuroscience approach.

Dissociations between implicit and explicit memory have attracted considerable attention in recent memory research. A central issue concerns whether such dissociations require the postulation of separate memory systems or are best understood in terms of different processes operating within a single system. This article presents a cognitive neuroscience approach to implicit memory in general and the systems-processes debate in particular, which draws on evidence from research with brain-damaged patients, neuroimaging techniques, and nonhuman primates. The article illustrates how a cognitive neuroscience orientation can help to supply a basis for postulating memory systems, can provide useful constraints for processing views, and can encourage the use of research strategies that the author refers to as cross-domain hypothesis testing and cross-domain hypothesis generation, respectively. The cognitive neuroscience orientation suggests a complementary role for multiple systems and processing approaches.

Animals↗

Augenblickdiagnose.

The process of making a diagnosis is integral to the practice of medicine, but diagnostic reasoning is rarely taught as a specific point. In most instances, experienced clinicians use a method of generating and testing hypotheses, finally selecting the hypothesis that best explains the clinical picture. Occasionally, especially distinctive physical signs allow augenblickdiagnose, a term that means "diagnosis in the blink of an eye." The process is too rapid to have followed a hypothesis testing method. Similarly, key fragments of history often permit very rapid diagnosis. The ability to make a snap diagnosis based on characteristic physical signs or snippets of clinical information relies on familiarity with certain critical clinical information. The reader is invited to try to augenblickdiagnose several cases.

Adult↗

Simultaneous inference in epidemiological studies.

Some difficulties encountered in using and interpreting significance tests in both exploratory and hypothesis testing epidemiological studies are discussed. Special consideration is given to the problems of simultaneous statistical inference--how are inferences to be modified when many significance tests are performed on the same set of data? Although some partial solutions are available, greater emphasis on estimation methods and less use of and reliance on significance testing in epidemiological studies is more appropriate.

Epidemiology↗

Common genetic variation in IGF1 and prostate cancer risk in the Multiethnic Cohort.

BACKGROUND: Insulin-like growth factor I (IGF-I) appears to play a role in prostate development and carcinogenesis. We investigated whether genetic variation at the IGF1 locus is associated with prostate cancer risk. METHODS: We sequenced IGF1 exons in germline DNA from 95 men with advanced prostate cancer to identify missense variants. IGF1 linkage disequilibrium patterns and common haplotypes were characterized by genotyping 64 single-nucleotide polymorphisms (SNPs) spanning 156 kilobases in 349 control subjects. Associations between IGF1 haplotypes and genotypes were investigated among 2320 patients with prostate cancer and 2290 control subjects from the Multiethnic Cohort. Odds ratios (ORs) and 95% confidence intervals (CIs) were estimated by unconditional logistic regression to determine the association between prostate cancer and IGF1 haplotypes and genotypes. We used permutation testing to correct for multiple hypothesis testing. All statistical tests were two-sided. RESULTS: No IGF1 missense variants were observed. We identified four blocks of strong linkage disequilibrium and selected a subset of 29 tagging SNPs that could accurately predict both the common IGF1 haplotypes and the remaining SNPs. Haplotype analysis revealed nominally statistically significant associations with prostate cancer risk in each of the four haplotype blocks: haplotype 1B (OR = 1.21, 95% CI = 1.04 to 1.40), haplotype 2C (OR = 1.24, 95% CI = 1.06 to 1.44), haplotype 3C (OR = 1.25, 95% CI = 1.03 to 1.50), and haplotype 4D (OR = 1.19, 95% CI = 1.02 to 1.39). Two SNPs--rs7978742 (Ptrend = .002) and rs7965399 (Ptrend = .002)--were perfectly correlated (correlation coefficient = 1.0) with one another and also associated with prostate cancer risk. These two SNPs were strong proxies for haplotypes 1B, 2C, 3C, and 4D and could account for the haplotype findings. Permutation testing revealed that a similarly strong result would be observed by chance only 5.6% of the time. CONCLUSION: Inherited variation in IGF1 may play a role in the risk of prostate cancer.

Black or African American↗

Application of modelling techniques to the planning of in vitro arsenic kinetic studies.

A kinetic model describing the hepatic methylation of arsenite [As(III)] was developed on the basis of limited data from in vitro mechanistic studies. The model structure is as follows: sequential enzymic methylation of arsenite to its monomethylated (MMA) and dimethylated (DMA) products by first-order and Michaelis-Menten kinetics, respectively; uncompetitive inhibition of the formation of DMA by As(III); and first-order reversible binding of As(III), MMA and DMA to cytosolic proteins. Numerical sensitivity analysis was used to evaluate systematically the impact of changes in input parameters on model responses. Sensitivity analysis was used to investigate the possibility of designing experiments for robust testing of the uncompetitive inhibition hypothesis, and for further refining the model. Based on the sensitivity analysis, the MMA concentration is the most important response on which to focus. The parameters V(max) and k(i) can be reliably estimated by using the same concentration time-course data at intermediate initial arsenite concentrations of 1--5microM at 30 +/- 5 minutes. K(m) must be estimated independently of V(max), since the two parameters are highly correlated at all times, and the optimal experimental conditions would include lower initial concentrations of arsenite (0.1--0.5microM) and earlier time-points (about 8--18 minutes). The use of initial arsenite concentrations much above 5microM would not yield additional useful information, because the sensitivity coefficients for MMA, protein-bound MMA, DMA and protein-bound DMA tend to become extremely small or exhibit erratic trends. Overall trends in the sensitivity analysis indicated the desirability of performing measurements at times shorter than 60 minutes. This work demonstrates that physiological modelling and sensitivity analysis can be efficient tools for experimental planning and hypothesis testing when applied in the earliest phases of kinetic model development, thus allowing more-efficient and more-directed experimentation, and minimising the use of laboratory animals.

Animals↗

Monitoring a three-armed clinical trial with survival endpoints: Fisher's least significant difference approach.

Researchers have long recognized the importance of monitoring trials to determine whether to terminate a trial early or change a trial because of a substantial treatment effect. Fisher's least significant difference (LSD) procedure has been suggested by Proschan et al. [Proschan, M. A., Follmann, D. A., Geller, N. L. (1994). Monitoring multi-armed trials. Stat. Med. 13:1441-1452] to control the overall type I error rate for trials with three or more arms and survival endpoints. In this paper we propose an alternative Fisher's LSD interim monitoring procedure that uses the same adjusted significance levels for the pairwise tests as for the global test; it continues performing a global hypothesis test at looks subsequent to a look where a global null hypothesis was rejected. We also examine revised Proschan et al. approach that uses the O'Brien-Fleming two-armed trial boundaries for pairwise tests. A simulation study shows that compared to the approach proposed by Proschan et al., the procedure we propose is more powerful and produces overall type I error rates closer to the nominal values when all groups are truly equivalent. For the scenarios examined, the overall type I error rates and power of the proposed approach are virtually equivalent to those of the revised Proschan et al. approach.

Algorithms↗