Search PubMed⌕ Search

SEARCH · Search PubMed

Results for “adaptive sampling”

Search indexed PubMed citations on genomics, clinical trials, systematic reviews and public health. Explore titles, authors and supplied subject terms, then open the PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 1,459 records · Page 81Linked to original sources

Determination of hepatitis B virus subtypes by an enzyme immunoassay method using monoclonal antibodies to type-specific epitopes of HBsAg.

We described a Hepatitis B surface antigen (HBsAg) subtyping method based on a commercial enzyme immunoassay (EIA) for detection of HBsAg in which the procedure was modified to include the use of monoclonal antibodies with restricted anti-HBs specificities. This method, which was able to classify HBsAg as: ayw1, ayw2, ayw3, ayw3* (intermediate between ayw3 and ayw4), ayw4, ayr, adw2, adw4 and adr, was compared to counter electrophoresis procedure (CEP) by testing HBsAg positive sera from blood donors included in a prospective national epidemiological survey. Among the 256 HBsAg positive samples tested with both techniques, 111 (43.3%) could not be subtyped with CEP vs 10 (3.9%) with our modified EIA. This difference was related to the serum HBsAg concentration which must be greater than 3000 ng/mL and 100 ng/mL for CEP and EIA, respectively. The results obtained from 145 sera with both methods were concordant. Seventeen out of 18 samples partially classified as ay with CEP were completely determined with EIA. This reliable procedure, derived from commercially available reagents, can be easily used in several applications such as large epidemiologic studies and as a substitute for nucleotide sequencing genotyping which is not adapted for large-scale screening and not applicable on samples from nonviremic hepatitis B virus (HBV) carriers.

Amino Acid Sequence↗

p130CAS forms a signaling complex with the adapter protein CRKL in hematopoietic cells transformed by the BCR/ABL oncogene.

The Philadelphia chromosome (Ph) translocation generates a chimeric tyrosine kinase oncogene, BCR/ABL, which causes chronic myelogenous leukemia (CML) and a type of acute lymphoblastic leukemia (ALL). In primary samples from virtually all patients with CML or Ph+ALL, the CRKL adapter protein is tyrosine phosphorylated and physically associated with p210(BCR/ABL). CRKL has one SH2 domain and two SH3 domains and is structurally related to c-CRK-II (CRK) and the v-Crk oncoprotein. We have previously shown that CRKL, but not the related adapter protein c-CRK, is tyrosine phosphorylated in cell lines transformed by BCR/ABL, and that CRKL binds to BCR/ABL through the CRKL-SH3 domains. Furthermore, the CRKL-SH2 domain has been shown to bind one or more cellular proteins, one of which is p120(CBL). Here we demonstrate that another cellular protein linked to BCR/ABL through the CRKL-SH2 domain is p130(CAS). p130(CAS) was found to be tyrosine phosphorylated and associated with CRKL in BCR/ABL expressing cell lines and in samples obtained from CML and ALL patients, but not in samples from controls. In both normal and BCR/ABL transformed cells, p130(CAS) was detected in focal adhesion-like structures, as was BCR/ABL. In normal cells, the focal adhesion proteins tensin, p125(FAK), and paxillin constitutively associated with p130(CAS). However, in BCR/ABL transformed cells, the interaction between p130(CAS) and tensin was disrupted, while the associations between p130(CAS), p125(FAK), and paxillin were unaffected. These results suggest that the BCR/ABL oncogene could alter the function of p130(CAS) in at least three ways: tyrosine phosphorylation, inducing constitutive binding of CRKL to a domain in p130(CAS) containing Tyr-X-X-Pro motifs (substrate domain), and disrupting the normal interaction of p130(CAS) with the focal adhesion protein tensin. These alterations in the structure of signaling proteins in focal adhesion like structures could contribute to the known adhesion abnormalities in CML cells.

Adaptor Proteins, Signal Transducing↗

Influence of Er:YAG laser on tensile bond strength of a self-etching system and a flowable resin in different dentin depths.

OBJECTIVE: The aim of this study was to evaluate the tensile resistance of a flowable resin in different dentin depths, after superficial treatment with Er:YAG laser. METHODS: Eighteen molars were selected and roots were removed. Crowns were bisected in half, embedded in polyester resin and ground until dentin was exposed. The bonding site was delimited and samples were randomly assigned into two groups: superficial dentin (SD--1 mm from amelodentinal junction) and deep dentin (DD--2 mm from amelodentinal junction). The samples were subdivided in three groups according to superficial treatment: non-rinsing conditioner (NRC) solely; Er:YAG laser (80 mJ/2 Hz)+NRC; Er:YAG laser solely. After conditioning, Prime and Bond NT/Dyract flow (Dentsply) was used for the manufacture of specimens. They were adapted to a metallic device, where resin cones were prepared. Samples were stored for 24 h and subjected to a bond strength test (50 kgf at 0.5 mm/min). RESULTS: Means in MPa were: SD-NRC solely 12.29 (+/-4.40); laser+NRC 12.11(+/-3.23); laser solely 5.74(+/-3.01) and DD-NRC solely 9.60 (+/-3.13); laser+NRC 10.44(+/-2.23); laser solely 3.50(+/-1.70). Data were submitted to statistical analysis by ANOVA and Scheffé test (p < 0.05). CONCLUSIONS: SD produced better results and tensile bond strength, while on DD the treatment with NRC or Laser+NRC had higher tensile bond strength. The results suggest that when Er:YAG laser for dentin treatment is used, it is mandatory to associate it to a conditioning agent.

Acid Etching, Dental↗

Adaptive designs for pivotal trials: discussion points from the PSI Adaptive Design Expert Group.

The Committee for Medicinal Products for Human Use (CHMP) is currently preparing a guideline on 'methodological issues in confirmatory clinical trials with flexible design and analysis plan'. PSI (Statisticians in the Pharmaceutical Industry) sponsored a meeting of pharmaceutical statisticians with an interest in the area to share experiences and identify potential opportunities for adaptive designs in late-phase clinical drug development. This article outlines the issues raised, resulting discussions and consensus views reached. Adaptive designs have potential utility in late-phase clinical development. Sample size re-estimation seems to be valuable and widely accepted, but should be made independent of the observed treatment effect where possible. Where unblinding is necessary, careful consideration needs to be given to preserving the integrity of the trial. An area where adaptive designs can be particularly beneficial is to allow dose selection in pivotal trials via adding/dropping treatment arms; for example, combining phase II and III of the drug development program. The more adaptations made during a late-phase clinical trial, the less likely that the clinical trial would be considered as a confirmatory trial. In all cases it would be advisable to consult with regulatory agencies at the protocol design stage. All involved should remain open to scientifically valid opportunities to improve drug development.

Clinical Trials as Topic↗

RT-PCR-ELOSA tests on pooled sample units for the detection of virus Y in potato tubers.

A highly sensitive RT-PCR protocol able to detect potato virus Y (PVY) in pooled sample units (tubers) was developed. PVY-specific primers selected in the coat protein gene were found to amplify a 359 bp fragment from diluted crude extract of infected tubers. For the detection of the amplification products, a colorimetric detection procedure in microtiter plates was established. The amplicons are hybridized between a covalently linked capture probe and a specific biotinylated detection probe ELOSA tests. This detection method detects at least 50 pg of virus per reaction for the four cultivars tested. The RT-PCR-ELOSA assay was adapted to pooled units in order to increase the sample size while reducing the number of tests.

DNA Primers↗

Predictors of parenting behavior trajectories among families of young adolescents with and without spina bifida.

OBJECTIVE: To evaluate the utility of familial and parental variables in predicting trajectories of parenting behaviors among families of young adolescents with and without spina bifida (SB). METHOD: Sixty-eight families with a child with SB and a demographically matched comparison group (CG) of 68 families of an able-bodied child participated. Observational and questionnaire assessments of parenting behavior were collected via home visits at three time points, as were reports of parent and family functioning. RESULTS: Family conflict was negatively associated with adaptive parenting behavior at Time 1 (T1), but positively associated with adaptive parenting change. Although the direction of this effect was the same across both groups, findings were more robust for the SB sample. Among fathers of children with SB, parenting stress was positively associated with adaptive parenting at T1 but negatively associated with adaptive parenting change. In contrast, within the CG, paternal parenting stress was negatively associated with adaptive parenting at T1 but showed no enduring negative effects in longitudinal analyses. CONCLUSIONS: Family conflict and parenting stress were significant predictors of parenting behaviors and longitudinal parenting change. Findings are interpreted within a developmental context such that variables associated with maladaptive (or adaptive) parenting in the short run, may facilitate adaptive (or maladaptive) parenting over time based on young adolescents' changing developmental needs.

Adaptation, Psychological↗

Extraction-free, filter-based template preparation for rapid and sensitive PCR detection of pathogenic parasitic protozoa.

Within the last several years, the protozoan parasites Cyclospora cayetanensis, Cryptosporidium parvum, and microsporidia have become recognized as important, rapidly emerging human pathogens in immunocompromised and immunocompetent individuals. Since the early 1990s, many of the reported outbreaks of enteric illness caused by these microorganisms have been attributed to food- and water-borne contamination. Many inherent obstacles affect the success of current surveillance and detection methods used to monitor and control levels of contamination by these pathogens. Unlike methods that incorporate preenrichment for easier and unambiguous identification of bacterial pathogens, similar methods for the detection of parasitic protozoa either are not currently available or cannot be performed in a timely manner. We have developed an extraction-free, filter-based protocol to prepare DNA templates for use in PCR to identify C. cayetanensis and C. parvum oocysts and microsporidia spores. This method requires only minimal preparation to partially purify and concentrate isolates prior to filter application. DNA template preparation is rapid, efficient, and reproducible. As few as 3 to 10 parasites could be detected by PCR from direct application to the filters. In studies, as few 10 to 50 Encephalitozoon intestinalis spores could be detected when seeded in a 100-microliter stool sample and 10 to 30 C. cayetanensis oocysts could be detected per 100 g of fresh raspberries. This protocol can easily be adapted to detect parasites from a wide variety of food, clinical, and environmental samples and can be used in multiplex PCR applications.

Animals↗

[Genetic monitoring of natural Drosophila populations in radiation contaminated regions of Belarus].

Genetic monitoring of natural Drosophila melanogaster populations inhabiting regions of Belarus with different radiation background (Vetka and Svetilovichi villages), radonuclide-contaminated after the Chernobyl accident, compared with populations from the Berezinsky biosphere reserve (the control area) were conducted. The dominant and recessive lethal mutation levels and genetic structure of the populations were analyzed for frequencies of F- and S-alleles of Adh (alcohol dehydrogenase) of Gpdh (glycerinophosphate dehydrogenase) and Sod (superoxide dismutase) loci. Populations inhabiting the regions with high radiation background exhibited higher frequency of lethal mutations and higher heterozygosity than those from the control area. Moreover, higher frequency of polymorphous Sod locus S-allele was detected in these populations. Apparently, Sod S-alleles are more adaptively valuable under conditions of high radiation background, because as is known, superoxide dismutase is an effective radioprotector at all levels molecular, cellular and organism. Adaptation of populations to stress impacts was analyzed, since 1998. Nonspecific adaptation of natural Drosophila melanogaster populations from Vetka and Svetilovichi villages of Gomel region was reveled. They are higher adapted than the control population from the Berezinsky biosphere reserve to both ionizing radiation effect and to chemical mutagen EMS. After laboratory cultivation within 6-8 generations without irradiation adaptation to radiation in the population from radiocontaminated regions remained. The content of samples from the control natural drosophila population in the laboratory conditions is an environmental stress that led to the formation of nonspecific adaptation within 6-8 generations to unfavorable factors, including ionizing radiation. It should be taken into account that the population adaptation is formed via death of sensitive genotypes at various ontogenesis stages.

Adaptation, Physiological↗

Estimating the cost of cervical cancer screening in five developing countries.

BACKGROUND: Cost-effectiveness analyses (CEAs) can provide useful information to policymakers concerned with the broad allocation of resources as well as to local decision makers choosing between different options for reducing the burden from a single disease. For the latter, it is important to use country-specific data when possible and to represent cost differences between countries that might make one strategy more or less attractive than another strategy locally. As part of a CEA of cervical cancer screening in five developing countries, we supplemented limited primary cost data by developing other estimation techniques for direct medical and non-medical costs associated with alternative screening approaches using one of three initial screening tests: simple visual screening, HPV DNA testing, and cervical cytology. Here, we report estimation methods and results for three cost areas in which data were lacking. METHODS: To supplement direct medical costs, including staff, supplies, and equipment depreciation using country-specific data, we used alternative techniques to quantify cervical cytology and HPV DNA laboratory sample processing costs. We used a detailed quantity and price approach whose face validity was compared to an adaptation of a US laboratory estimation methodology. This methodology was also used to project annual sample processing capacities for each laboratory type. The cost of sample transport from the clinic to the laboratory was estimated using spatial models. A plausible range of the cost of patient time spent seeking and receiving screening was estimated using only formal sector employment and wages as well as using both formal and informal sector participation and country-specific minimum wages. Data sources included primary data from country-specific studies, international databases, international prices, and expert opinion. Costs were standardized to year 2000 international dollars using inflation adjustment and purchasing power parity. RESULTS: Cervical cytology laboratory processing costs were I$1.57-3.37 using the quantity and price method compared to I$1.58-3.02 from the face validation method. HPV DNA processing costs were I$6.07-6.59. Rural laboratory transport costs for cytology were I$0.12-0.64 and I$0.14-0.74 for HPV DNA laboratories. Under assumptions of lower resource efficiency, these estimates increased to I$0.42-0.83 and I$0.54-1.06. Estimates of the value of an hour of patient time using only formal sector participation were I$0.07-4.16, increasing to I$0.30-4.80 when informal and unpaid labor was also included. The value of patient time for traveling, waiting, and attending a screening visit was I$0.68-17.74. With the total cost of screening for cytology and HPV DNA testing ranging from I$4.85-40.54 and I$11.30-48.77 respectively, the cost of the laboratory transport, processing, and patient time accounted for 26-66% and 33-65% of the total costs. From a payer perspective, laboratory transport and processing accounted for 18-48% and 25-60% of total direct medical costs of I$4.11-19.96 and I$10.57-28.18 respectively. CONCLUSION: Cost estimates of laboratory processing, sample transport, and patient time account for a significant proportion of total cervical cancer screening costs in five developing countries and provide important inputs for CEAs of alternative screening modalities.

Journal Article↗

Adolescent pregnancy prevention strategies used by school nurses.

This survey identified a range of adolescent pregnancy prevention activities used by school nurses in selected Mid-Atlantic public schools. A purposive sample of 224 public school nurses completed the School Nurse Questionnaire adapted from an instrument used previously to survey school nurses. Based on a 54% response rate, a task analysis revealed that respondents performed only one pregnancy prevention activity frequently. A sub-sample of nurses, serving students in grades 6-12, used seven of 21 pregnancy prevention activities frequently. Though nurses did not actually perform the remaining activities, they felt prepared to do so. However, the structure of school nursing services often does not allow adequate time or opportunity to engage in adolescent pregnancy prevention activities.

Adolescent↗

Micro-determination of phosphate in enamel biopsy samples using the malachite green method.

A simple and sensitive malachite green method was adapted for the determination of phosphate in enamel demineralizing solutions. Comparison with other methods indicates that malachite green was about 60 times more sensitive than Fiske and Subbarow's method and 10 times more than that of Chen et al. The high sensitivity of this method allows very small biopsy samples to be used. The linearity is good between the tested range of 0.025-3.0 mM P. The relative standard deviation was low and amounted to 1.4% in duplicate determinations. No statistical differences in phosphate concentration of enamel biopsy samples determined by the three methods were found. Fluoride concentration up to 80 micrograms/ml did not interfere with phosphate determined by the malachite green. For sampling enamel, the acid-etch technique was used, and the fluoride concentration at successive demineralization runs was monitored using fluoride-ion electrode.

Calcium↗

Conceptual problem-solving in highly verbal, nonretarded autistic men.

Nine highly verbal, nonretarded men, ages 18 to 39, with clearly documented childhood diagnoses of infantile autism were studied with the Wisconsin Card Sorting Test, a measure of conceptual problem solving sensitive to frontal system dysfunction, and with a measure of social-adaptive functioning. Their performances were compared with 10 controls matched for age, sex, education, and IQ, as well as with published norms for various groups of brain-damaged patients. Significant deficits in the formulation of rules and significant perseverative tendencies were documented in the autistic sample. No significant correlation between these deficits and social-adaptive deficits was seen. These findings were discussed with respect to the heterogeneity of the autistic disorder and Damasio's hypothesis concerning frontal-subcortical dysfunction in autism.

Adolescent↗

An experimental test of local adaptation in soil bacteria.

We extracted bacterial isolates of similar colony morphology from spatially located soil samples within 1 ha of old-growth forest. The same soil samples were used to prepare growth medium. Each isolate was then cultured in each medium and its growth recorded. There was no overall tendency for isolates to grow more successfully in their home site (i.e., the medium derived from the soil sample from which they had been extracted). Most isolates grew very poorly, however, and when the analysis was restricted to the minority of vigorous isolates there was clear evidence of local adaptation: isolates tended to grow better at their home site than did isolates from elsewhere and grew better at their home site than they did at other sites. The variation of growth within the 1-ha plot made up a complex fitness landscape of peaks, ridges, and valleys. Most of the vigorous isolates were found at or near a local fitness (growth) peak, although seldom at a global peak. In consequence, there was a tendency for growth to diminish away from the home site. The home isolate was about 50% more fit than average at its home site; fitness diminished exponentially away from the home site at a rate of 0.0577 per meter. These figures are similar to those previously reported for plants. This selection gradient has matched the bacterial assemblage to the edaphic structure of the environment, although the fit is far from perfect.

Adaptation, Physiological↗

Psychosocial competence of unselected young adults with sex chromosome abnormalities.

Very little is known about the adult adaptation of individuals with sex chromosome abnormalities (SCA) except for a few reports based upon biased samples of clinically identified patients. This first report from the Denver SCA study on the adult psychosocial adaptation of 36 unselected propositi, identified at birth, shows a continuation of mild psychological and social problems. Psychiatric interviews and self-reported information revealed that adaptation is quite variable, with many of the nonmosaic propositi not faring as well as their siblings, but in a few instances exceeding the success of brothers and sisters. Within this group of SCA subjects a subset demonstrated more marked pathology and a tendency to over-rate their social adaptation relative to the psychiatric interviewer, suggesting that the exclusive use of self-report questionnaires may not provide accurate assessment of psychological characteristics in this and other special populations. The full adult SCA behavioral phenotype has not yet been established but is emerging through additional reports from this and other studies of unselected SCA adults.

Adaptation, Psychological↗

The Fear Survey Schedule for Children--II: a psychometric investigation with American data.

The Fear Survey Schedule for Children and Adolescents (FSSC-II) was introduced in 1992 as a revised and updated self-report fear scale by the Australian researchers Gullone and King. The present study examines the factor structure as well as age and gender differences using the FSSC-II with an American sample of youth. Two phases of data collection were completed. During phase I (the pilot study), an adapted American version of the FSCC-II was administered to 239 subjects. Following revisions of the adapted FSSC-II, phase II was completed. The second phase of the study involved a sample of 720 children and adolescents ranging from grades 2-12. Results were found to be very similar across the two countries. The FSSC-II factor structure with American youth was found to be almost identical to that reported for Australian youth. Eight of the 10 most common fears were the same across countries. Moreover, age and gender differences consistent with the Australian data were found with females and younger respondents reporting higher levels of fear.

Adolescent↗

Interactive feature finding in liquid chromatography mass spectrometry data.

We propose a method for finding features in liquid chromatography mass spectrometry data that is based on the isotopic pattern of peaks. Our interactive approach to feature finding is carried out across many samples simultaneously and aligns features concurrently. Our scale-independent approach prioritises potential features and is easily adaptable to look for features of a particular mass and charge, paired features in isotopically labeled samples, or differentially expressed features. We demonstrate this by identifying features from normal human adult plasma. We highlight properties of plasma data that illustrate the need to visually check the quality of features found prior to further statistical analysis.

Blood Proteins↗

Maternal cognitive themes during pregnancy.

This preliminary study explored possible cognitive themes endorsed by pregnant women. A goal was to ascertain whether a concept proposed by Reva Rubin known as "Cognitive Style of Pregnancy" had beginning empirical support. A sample of 50 women with normal pregnancies responded to a 56-item questionnaire known as the Cognitive Adaptation to Pregnancy Scale, specifically developed to assess three constructs based upon a conceptual model known as "Cognitive Adaptation." Items on this scale were obtained in a pilot study from open-ended interviews. Items endorsed suggest a process involving a search for meaning, sense of mastery, and self-enhancement as conceptualized in the model. Items suggestive of a search-for-meaning process supported Rubin's early descriptions of inconclusive questioning and a sense of uncertainty during the experience of being pregnant.

Adaptation, Psychological↗

Soluble histocompatibility class I antigens and beta 2-microglobulin in pregnant females and cord blood samples.

Pregnancy can be considered a successful transplantation of allogeneic paternal tissue to the mother. Soluble HLA class I serum levels have been found to increase during solid organ rejection episodes and during graft-versus-host disease after bone marrow transplantation. We wished to determine whether significant changes in sHLA class I and beta 2-microglobulin light chain levels occurred during pregnancy, because these may reflect adaptive changes permitting the acceptance of the fetal graft. Serum samples were obtained from women at different stages of pregnancy and in the postpartum period. Cord blood samples and serum samples from nonpregnant female and male controls living in the same geographic area in Southern Chile were also studied. The levels of sHLA class I heterodimers were determined by an ELISA sandwich technique; beta 2-microglobulin levels were measured by MEIA IMX-Abbott. There was a significant elevation of sHLA class I levels in the first 2 trimesters of pregnancy, followed by a significant drop below normal levels at the end of pregnancy, with normalization in the post-partum period. beta 2-microglobulin levels did not change significantly during pregnancy and did not correlate with sHLA class I levels. In cord blood samples, sHLA class I levels were lower and beta 2-microglobulin levels higher than those of adult controls and of mothers at the time of delivery. The variations in sHLA class I levels during pregnancy may reflect or contribute to immunoregulatory events related to the acceptance of the fetal graft.

Adult↗