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1.
Int J Behav Nutr Phys Act ; 21(1): 93, 2024 Aug 26.
Article in English | MEDLINE | ID: mdl-39187858

ABSTRACT

BACKGROUND: Teachers are recognized as 'key agents' for the delivery of physical activity programs and policies in schools. The aim of our study was to develop and evaluate a tool to assess teachers' capability, opportunity, and motivation to deliver school-based physical activity interventions. METHODS: The development and evaluation of the Capability, Opportunity, and Motivation to deliver Physical Activity in School Scale (COM-PASS) involved three phases. In Phase 1, we invited academic experts to participate in a Delphi study to rate, provide recommendations, and achieve consensus on questionnaire items that were based on the Capability, Opportunity, and Motivation Behavior (COM-B) model. Each item was ranked on the degree to which it matched the content of the COM-B model, using a 5-point scale ranging from '1 = Poor match' to '5 = Excellent match'. In Phase 2, we interviewed primary and secondary school teachers using a 'think-aloud' approach to assess their understanding of the items. In Phase 3, teachers (n = 196) completed the COM-PASS to assess structural validity using confirmatory factor analysis (CFA). RESULTS: Thirty-eight academic experts from 14 countries completed three rounds of the Delphi study. In the first round, items had an average rating score of 4.04, in the second round 4.51, and in the third (final) round 4.78. The final tool included 14 items, which related to the six constructs of the COM-B model: physical capability, psychological capability, physical opportunity, social opportunity, reflective motivation, and automatic motivation. In Phase 2, ten teachers shared their interpretation of COM-PASS via a 20-min interview, which resulted in minor changes. In Phase 3, CFA of the 3-factor model (i.e., capability, opportunity, and motivation) revealed an adequate fit to the data (χ2 = 122.6, p < .001, CFI = .945, TLI = .924, RMSEA = .066). The internal consistencies of the three subscale scores were acceptable (i.e., capability: α = .75, opportunity: α = .75, motivation: α = .81). CONCLUSION: COM-PASS is a valid and reliable tool for assessing teachers' capability, opportunity, and motivation to deliver physical activity interventions in schools. Further studies examining additional psychometric properties of the COM-PASS are warranted.


Subject(s)
Delphi Technique , Exercise , Motivation , School Teachers , Schools , Humans , Exercise/psychology , Surveys and Questionnaires , School Teachers/psychology , Female , Male , Health Promotion/methods , School Health Services , Adult , Middle Aged , Reproducibility of Results , Health Behavior , Factor Analysis, Statistical
2.
J Sports Sci ; 40(13): 1532-1541, 2022 Jul.
Article in English | MEDLINE | ID: mdl-35762911

ABSTRACT

The aims of this secular trend design study were: 1) to investigate whether the continuous leaping performance of Finnish adolescents (mean age 14.99 ± .61 years) changed between 6 data sets collected between 1979 and 2020, and 2) to analyse if variation in leaping performance increased from 1979 to 2020. The data for this secular trend study of 6 cohorts were collected in 1979 (n = 599), 1995 (n = 498), 1998 (n = 796), 2003 (n = 2383), 2010 (n = 1383), and 2020 (n = 719). All cohorts performed the 5-leaps test, following the same protocol. Between-cohort differences in scores were analysed using a General Linear Contrast Model. Between-cohort differences in variance were tested using Chi-square-based between-group tests. Sex, age, and BMI were used as covariates in the secular trend analyses. Continuous leaping performance demonstrated a decreasing trend in both girls and boys. Specifically, girls' scores were stable between 1979 and 1995, decreased from 1995 to 2010 and remained stable thereafter. Boys leaping performance improved from 1979 to 1995, was stable until 2003, and had declined by 2020. Within-group variation in continuous leaping was greater in girls and boys during the first decades of the 21st century than previously.


Subject(s)
Cohort Studies , Physical Fitness , Adolescent , Female , Finland , Humans , Male
3.
J Sci Med Sport ; 22(11): 1243-1248, 2019 Nov.
Article in English | MEDLINE | ID: mdl-31303558

ABSTRACT

OBJECTIVES: This study aimed to investigate cross-lagged associations in motor competence, cardiorespiratory fitness, muscular fitness and accelerometer-based moderate-to-vigorous physical activity (MVPA) engagement. DESIGN: One-year prospective follow-up study. METHODS: A sample was 491 (275 girls; M at baseline=11.27, SD=.32) Finnish physical education students. Students' motor competence was assessed by (1) two-legged jumping from side to side test, (2) throwing-catching combination test and (3) 5-leaps test. Their cardiorespiratory fitness was analyzed by a 20-m shuttle run test and muscular fitness by curl-up and push-up tests. Additionally, students' MVPA was measured objectively by hip-worn accelerometers. RESULTS: Results demonstrated that: (1) cardiorespiratory fitness measured at Grade 5 was the only significant predictor of later MVPA and this association appeared only in the boys' group, (2) MVPA assessed at Grade 5 significantly predicted cardiorespiratory fitness in the girls' group, (3) cardiorespiratory fitness collected at Grade 5 associated with muscular fitness, locomotor and stability skills in both girls and boys, and (4) locomotor skills measured at Grade 5 predicted significantly muscular fitness, locomotor and manipulative skills in both sex groups. CONCLUSIONS: Elementary school years are important in providing students with experiences in physical activity (PA) which leads to improvements s in cardiorespiratory health. Additionally, this study showed that cardiorespiratory fitness collected at Grade 5 associated with later muscular fitness, and locomotor and stability skills in both sex groups. These findings are noteworthy because muscular fitness in youth has several health-related benefits and motor competence in childhood and adolescence has positive association with later PA engagement.


Subject(s)
Cardiorespiratory Fitness , Exercise , Muscle, Skeletal/physiology , Child , Female , Finland , Follow-Up Studies , Humans , Male , Motor Skills , Prospective Studies , Students
4.
Scand J Med Sci Sports ; 28(3): 1121-1129, 2018 Mar.
Article in English | MEDLINE | ID: mdl-29197119

ABSTRACT

The aim of this study was to examine the secular trends in fundamental movement skills (FMS) among 15- to 16-year-old adolescents at 2 assessment points scheduled in 2003 and 2010 and to investigate the associations between FMS, physical activity (PA), and body mass index (BMI). In 2003, self-reported PA, weight and height, and objective FMS scores were collected from 2390 students, and in 2010, similar data were generated from a second sample of 1346 students. FMS were assessed during both assessment phases using 3 identical objective FMS tests that were figure 8 dribbling, jumping laterally, and coordination track tests. This study indicated that the sum index of FMS did not change among the boys and the girls between 2 data collection points. However, findings demonstrated a secular decline in coordination test scores in both gender groups between 2 measurement points but an improvement in girls' object control skills between 2003 and 2010. The results also showed that FMS had a significant main effect on BMI in both gender groups, whereas the main effect of PA on BMI was not significant for either gender group. Results also demonstrated that there was no significant interaction effect between FMS and PA on BMI in either of the girls' or the boys' groups.


Subject(s)
Body Mass Index , Exercise , Motor Skills , Adolescent , Body Height , Body Weight , Exercise Test , Female , Humans , Male , Movement
5.
Epidemiol Infect ; 144(8): 1622-33, 2016 06.
Article in English | MEDLINE | ID: mdl-26732801

ABSTRACT

Children encounter repeated respiratory tract infections during their early life. We conducted a prospective clinical and serological follow-up study to estimate the respiratory syncytial virus (RSV) primary infection and reinfection rates in early childhood. Sera were collected from 291 healthy children at the ages of 13, 24 and 36 months and antibody levels against RSV antigens were determined by enzyme immunoassay. The RT-PCR method was also used for identifying the possible presence of RSV in symptomatic patients. At ages 1, 2 and 3 years, 37%, 68% and 86%, respectively, of studied children were seropositive for RSV. In children seropositive at age 1 year, RSV reinfection rate was at least 37%. Only one of reinfected children showed evidence for a third reinfection by age 3 years. Of children who turned RSV seropositive between ages 1 and 2 years, the reinfection rate was 32% during the third year of life. The mean antibody levels at primary infection were very similar in all age groups. The average decrease of antibody levels was 25-30% within a year. In 66 cases RSV infection was identified by RT-PCR. RSV infection rate in early childhood is 86% and reinfection rate is around 35%. This prospective serological follow-up study also provided evidence for the presence of RSV infections in children that did not show clinical signs warranting RSV RNA detection.


Subject(s)
Antibodies, Viral/blood , Asymptomatic Infections/epidemiology , Respiratory Syncytial Virus Infections/epidemiology , Child, Preschool , Enzyme-Linked Immunosorbent Assay , Female , Follow-Up Studies , Humans , Infant , Male , Prospective Studies , Recurrence , Reverse Transcriptase Polymerase Chain Reaction , Seroepidemiologic Studies
6.
Scand J Med Sci Sports ; 26(1): 74-81, 2016 Jan.
Article in English | MEDLINE | ID: mdl-25644386

ABSTRACT

The purpose of this study was to examine the extent to which fundamental movement skills and physical fitness scores assessed in early adolescence predict self-reported physical activity assessed 6 years later. The sample comprised 333 (200 girls, 133 boys; M age = 12.41) students. The effects of previous physical activity, sex, and body mass index (BMI) were controlled in the main analyses. Adolescents' fundamental movement skills, physical fitness, self-report physical activity, and BMI were collected at baseline, and their self-report energy expenditure (metabolic equivalents: METs) and intensity of physical activity were collected using the International Physical Activity Questionnaire 6 years later. Results showed that fundamental movement skills predicted METs, light, moderate, and vigorous intensity physical activity levels, whereas fitness predicted METs, moderate, and vigorous physical activity levels. Hierarchical regression analyses also showed that after controlling for previous levels of physical activity, sex, and BMI, the size of the effect of fundamental movement skills and physical fitness on energy expenditure and physical activity intensity was moderate (R(2) change between 0.06 and 0.15), with the effect being stronger for high intensity physical activity.


Subject(s)
Energy Metabolism/physiology , Motor Activity/physiology , Motor Skills/physiology , Movement/physiology , Physical Fitness/physiology , Adolescent , Body Mass Index , Child , Female , Follow-Up Studies , Forecasting/methods , Humans , Linear Models , Male , Self Report , Sex Distribution , Surveys and Questionnaires
7.
Scand J Med Sci Sports ; 26(1): 109-15, 2016 Jan.
Article in English | MEDLINE | ID: mdl-25648198

ABSTRACT

The aim of this study was to investigate the relations among situational motivational climate, dispositional approach and avoidance achievement goals, perceived sport ability, and enjoyment in Finnish male junior ice hockey players. The sample comprised 265 junior B-level male players with a mean age of 17.03 years (SD = 0.63). Players filled questionnaires tapping their perceptions of coach motivational climate, achievement goals, perceived sport ability, and enjoyment. For the statistical analysis, players were divided into high and low perceived sport ability groups. Multigroup structural equation modeling (SEM) revealed an indirect path from task-involving motivational climate via task-approach goal to enjoyment. Additionally, SEM demonstrated four other direct associations, which existed in both perceived ability groups: from ego-involving motivational climate to ego-approach and ego-avoidance goals; from ego-approach goal to ego-avoidance goal; and from task-avoidance goal to ego-avoidance goal. Additionally, in the high perceived sport ability group, there was an association from task-involving motivational climate to enjoyment. The results of this study reveal that motivational climate emphasizing effort, personal development and improvement, and achievement goal mastering tasks are significant elements of enjoyment in junior ice hockey.


Subject(s)
Athletic Performance/psychology , Ego , Hockey/psychology , Personal Satisfaction , Adolescent , Chi-Square Distribution , Finland , Goals , Humans , Male , Motivation , Self Concept
8.
J Environ Radioact ; 100(6): 468-76, 2009 Jun.
Article in English | MEDLINE | ID: mdl-19362758

ABSTRACT

The concentrations and vertical distribution of (239,240)Pu, (241)Am and (137)Cs in the bottom sediments and water samples of Lake Päijänne were investigated. This lake is important, since the Päijänne area received a significant deposition from the Chernobyl fallout. Furthermore Lake Päijänne is the raw water source for the Helsinki metropolitan area. In addition no previous data on the distribution of plutonium and americium in the sediment profiles of Lake Päijänne exist. Only data covering the surface layer (0-1cm) of the sediments are previously available. In the sediments the average total activities were 45+/-15Bq/m(2) and 20+/-7Bq/m(2) for (239,240)Pu and (241)Am, respectively. The average (241)Am/(239,240)Pu ratio was 0.45+/-0.14. The (241)Am/(239,240)Pu ratio is lowest in the surface layer of the sediments and increases as a function of depth. The (238)Pu/(239,240)Pu ratio of the sediment samples varied between 0.012+/-0.025 and 0.162+/-0.079, decreasing as a function of depth. The average activity in water was 4.9+/-0.9mBq/m(3) and 4.1+/-0.2mBq/m(3) for (239,240)Pu and (241)Am, respectively. The (241)Am/(239,240)Pu ratio of water samples was 0.82+/-0.17. (239,240)Pu originating from the Chernobyl fallout calculated from the average total activities covers approximately 1.95+/-0.01% of the total (239,240)Pu activity in the bottom sediments. The average total (137)Cs activity of sediment profiles was 100+/-15kBq/m(2) and 19.3+/-1.4Bq/m(3) in water samples.


Subject(s)
Americium/analysis , Cesium Radioisotopes/analysis , Fresh Water/analysis , Geologic Sediments/analysis , Plutonium/analysis , Water Pollutants, Radioactive/analysis , Finland , Fresh Water/chemistry , Geologic Sediments/chemistry
9.
Sci Total Environ ; 366(1): 206-17, 2006 Jul 31.
Article in English | MEDLINE | ID: mdl-16197982

ABSTRACT

Weekly air samples of 25000 m(3) volume were taken with two air samplers over a period of one year in 2000-2001 in the town of Kurchatov in Kazakhstan. For another three-month period in 2001, the samplers were run in the city of Astana, about 500 km west of Kurchatov. (137)Cs, Pu and U concentrations were determined from the filters. Pu activities in Kurchatov varied in a 100-fold range; median (239,240)Pu activities were 100 nBq/m(3) and (238)Pu activities 34 nBq/m(3). The corresponding values for Astana were considerably lower: 29 and 9 nBq/m(3), respectively, and in half of the filters the (238)Pu activity was below the detection limit. Plutonium concentration correlated with the amount of dust retained on the filters only at the highest dust loads. Also no correlation between wind speed and the plutonium activity in the filters was observed. Thus, resuspension does not seem to be the mechanism responsible for the airborne plutonium. No clear seasonal variation of Pu air concentration was observed, though levels were somewhat elevated in February to April. There was no correlation between the plutonium and (137)Cs concentrations. In most of the filters the cesium concentration was below the detection limit, but in those filters where it could be detected the cesium concentration was practically constant at 3.9+/-1.6 microBq/m(3). Dose estimation for the inhalation of the airborne plutonium gave a low value of 0.018 microSv/a for the inhabitants in Kurchatov, which is about a thousand times lower than the dose caused by the naturally occurring (210)Po. Air parcel trajectory analysis indicated that the observed Pu activities in the air could not unambiguously be attributed to the most contaminated areas at the Semipalatinsk Test Site.


Subject(s)
Air Pollutants, Radioactive/analysis , Dust/analysis , Plutonium/analysis , Power Plants , Radioactive Fallout/analysis , Cesium Radioisotopes/analysis , Filtration , Kazakhstan , Radioactive Hazard Release , Risk Assessment , Time Factors , Uranium/analysis
10.
Biomaterials ; 25(4): 575-81, 2004 Feb.
Article in English | MEDLINE | ID: mdl-14607495

ABSTRACT

Bioactive properties of composites containing poly(epsilon-caprolactone-co-DL-lactide) with molar ratio 96/4 and bioactive glass (BAG), S53P4, were tested in vitro. The glass content in the tested materials was 40, 60 or 70 wt%, and two granule size ranges (<45 and 90-315 microm) were used. The composites were analysed for their apatite-forming ability. This was determined as a function of time by the dissolution pattern of Si and Ca ions and structural changes on the specimen surfaces. Composite specimens were immersed in simulated body fluid at 37 degrees C for up to 6 months. The changes in Si and Ca concentrations of the immersion medium were determined with UV-Vis and atomic absorption spectrophotometry. The calcium phosphate precipitation and apatite formation were evaluated by scanning electron microscopy (SEM) and infra-red spectroscopy (IR) using the attenuated total reflectance (ATR) system. The SEM and SEM-EDX analysis of the depositions formed on the composite surfaces was in line with the changes in ion concentrations. The clearest results with IR were seen in the material containing 60 wt% small glass particles. The results indicate that composites containing over 40 wt% BAG granules are bioactive, and that a higher BAG surface area/volume ratio favors the apatite formation in vitro.


Subject(s)
Absorbable Implants , Body Fluids/chemistry , Bone Substitutes/chemistry , Calcium Phosphates/chemistry , Glass/chemistry , Materials Testing/methods , Polyesters/chemistry , Adsorption , Chemical Precipitation , Manufactured Materials , Plastics/chemistry , Surface Properties
11.
Sci Total Environ ; 278(1-3): 161-70, 2001 Oct 20.
Article in English | MEDLINE | ID: mdl-11669264

ABSTRACT

Plutonium in a forest ecosystem was studied at different distances from the copper and nickel smelter at Monchegorsk, Kola Peninsula, Russia. Soil and plant samples were collected 7 (site A), 16 (B), 21 (C) and 28 (D) km from the smelter and at a reference site situated in Finland, 152 km from Monchegorsk. The deposition of Cu in litter and in the organic layer decreased from 10700 mg/m2 at site A to 33 mg/m2 at the reference site, the deposition of Ni from 14300 to 29 mg/m2. From the reference site to site A, the volume of the litter layer increased almost five-fold. Most of the 239,241Pu in soil was found in the organic layer and in the litter layer. When industrial pollution increased, the content of 239,240Pu in the litter layer increased (from approx. 0.5 at site D to 15 Bq/m2 at site A) whereas, that in the organic layer decreased (from approx. 20 at site D to 5 Bq/m2 at site A). Four different plant species typical for the subarctic environment were collected at each sampling site: Deschampsia flexuosa (forest hair grass); Empetrum nigrum (crowberry); Vaccinium myrtillus (blueberry); and Vaccinium citis idaea (lingonberry). The concentration of 239,241Pu increased with pollution in Deschampsia flexuosa (from approx. 2 at site D to 7 mBq/kg at site A), Empetrum nigrum (from approx. 3 at site D to 14 mBq/kg at site A) and Vaccinium myrtillus (from approx. 1 at site D to 8 mBq/kg at site A). In Vaccinium vitis idaea, the Pu concentration did not have any clear trend of association with pollution. With the exception of Vaccinium vitis idaea, the aggregated transfer factors of plutonium (m2/kg) for the plants studied increased almost ten-fold from site D to site A, the range being 3 x 10(-5)-3 x 10(-4) m2/kg for Deschampsia flexuosa, 7 x 10(-5)-5 x 10(-4) m2/kg for Empetrum nigrum and 3 x 10(-5)-3 x 10(-4) m2/kg for Vaccinium myrtillus. The most likely explanation for the higher transfer factors of plutonium near the smelter is contamination of the plants by litter rather than root uptake.


Subject(s)
Plants/chemistry , Plutonium/pharmacokinetics , Soil Pollutants/pharmacokinetics , Trees , Biological Availability , Environmental Monitoring , Industry , Tissue Distribution
12.
Cell ; 106(6): 697-708, 2001 Sep 21.
Article in English | MEDLINE | ID: mdl-11572776

ABSTRACT

Genome-wide location analysis was used to determine how the yeast cell cycle gene expression program is regulated by each of the nine known cell cycle transcriptional activators. We found that cell cycle transcriptional activators that function during one stage of the cell cycle regulate transcriptional activators that function during the next stage. This serial regulation of transcriptional activators forms a connected regulatory network that is itself a cycle. Our results also reveal how the nine transcriptional regulators coordinately regulate global gene expression and diverse stage-specific functions to produce a continuous cycle of cellular events. This information forms the foundation for a complete map of the transcriptional regulatory network that controls the cell cycle.


Subject(s)
Cell Cycle/genetics , Gene Expression Regulation, Fungal , Saccharomyces cerevisiae/cytology , Saccharomyces cerevisiae/genetics , Trans-Activators/metabolism , Transcription Factors/metabolism , Cyclin-Dependent Kinases/genetics , Cyclins/genetics , Genome, Fungal
13.
Bioinformatics ; 17 Suppl 1: S22-9, 2001.
Article in English | MEDLINE | ID: mdl-11472989

ABSTRACT

We present the first practical algorithm for the optimal linear leaf ordering of trees that are generated by hierarchical clustering. Hierarchical clustering has been extensively used to analyze gene expression data, and we show how optimal leaf ordering can reveal biological structure that is not observed with an existing heuristic ordering method. For a tree with n leaves, there are 2(n-1) linear orderings consistent with the structure of the tree. Our optimal leaf ordering algorithm runs in time O(n(4)), and we present further improvements that make the running time of our algorithm practical.


Subject(s)
Algorithms , Cluster Analysis , Computational Biology , Cell Cycle/genetics , Databases, Genetic , Gene Expression Profiling/statistics & numerical data , Genes, Fungal , Multigene Family , Saccharomyces cerevisiae/cytology , Saccharomyces cerevisiae/genetics
14.
Pac Symp Biocomput ; : 422-33, 2001.
Article in English | MEDLINE | ID: mdl-11262961

ABSTRACT

We propose a model-driven approach for analyzing genomic expression data that permits genetic regulatory networks to be represented in a biologically interpretable computational form. Our models permit latent variables capturing unobserved factors, describe arbitrarily complex (more than pair-wise) relationships at varying levels of refinement, and can be scored rigorously against observational data. The models that we use are based on Bayesian networks and their extensions. As a demonstration of this approach, we utilize 52 genomes worth of Affymetrix GeneChip expression data to correctly differentiate between alternative hypotheses of the galactose regulatory network in S. cerevisiae. When we extend the graph semantics to permit annotated edges, we are able to score models describing relationships at a finer degree of specification.


Subject(s)
Gene Expression Profiling/statistics & numerical data , Models, Genetic , Bayes Theorem , Galactose/metabolism , Gene Expression Regulation, Fungal , Genome, Fungal , Models, Statistical , Oligonucleotide Array Sequence Analysis/statistics & numerical data , Saccharomyces cerevisiae/genetics , Saccharomyces cerevisiae/metabolism
15.
J Environ Radioact ; 52(1): 17-29, 2001.
Article in English | MEDLINE | ID: mdl-11202683

ABSTRACT

The aim of the present study was to determine the forms of 137Cs, 90Sr and 239,240Pu occurring in different soil horizons using sequential extraction of samples taken from four sites located along a pollution gradient from the copper-nickel smelter at Monchegorsk in the Kola Peninsula, Russia, and from a reference site in Finnish Lapland in 1997. A selective sequential-leaching procedure was employed using a modification of the method of Tessier, Cambell and Bisson ((1979). Analytical Chemistry, 51, 844-851). For 137Cs the organic (O) and uppermost mineral (E1) layer were studied, for 90Sr and 239,240Pu only the uppermost organic layer (Of). The fraction of 137Cs occurring in readily exchangeable form in the organic layer was about 50% at the reference site and decreased as a function of pollution, being 15% at the most polluted site in the Kola Peninsula. There was a clear positive correlation in the O layer between the distance from the smelter and the percentage of 137Cs extracted in the readily exchangeable fraction (Spearman correlation rsp = 0.7805, p = 0.0001), whereas in the E1 layer no correlation was evident. The distribution of 90Sr in the Of layer was similar at all sites, with the highest amounts occurring in exchangeable form and bound to organic matter, whereas stable Sr showed a somewhat different distribution with the highest amount in the oxide fraction. Most of the 239,240Pu was bound to organic matter. Chemical pollution affected the exchangeable fraction of 239,240Pu, which was about 1% at the most polluted site and 4-6% at the other sites.


Subject(s)
Cesium Radioisotopes/analysis , Plutonium/analysis , Soil Pollutants, Radioactive/analysis , Strontium Radioisotopes/analysis , Arctic Regions , Cesium Radioisotopes/pharmacokinetics , Organic Chemicals/metabolism , Oxidation-Reduction , Plutonium/pharmacokinetics , Strontium Radioisotopes/pharmacokinetics
16.
J Comput Biol ; 7(1-2): 95-114, 2000.
Article in English | MEDLINE | ID: mdl-10890390

ABSTRACT

A new method for detecting remote protein homologies is introduced and shown to perform well in classifying protein domains by SCOP superfamily. The method is a variant of support vector machines using a new kernel function. The kernel function is derived from a generative statistical model for a protein family, in this case a hidden Markov model. This general approach of combining generative models like HMMs with discriminative methods such as support vector machines may have applications in other areas of biosequence analysis as well.


Subject(s)
Proteins/genetics , Sequence Alignment/statistics & numerical data , Sequence Analysis, Protein/statistics & numerical data , Biometry , Databases, Factual , GTP-Binding Proteins/genetics , Markov Chains , Models, Statistical
17.
Article in English | MEDLINE | ID: mdl-10786297

ABSTRACT

A new method, called the Fisher kernel method, for detecting remote protein homologies is introduced and shown to perform well in classifying protein domains by SCOP superfamily. The method is a variant of support vector machines using a new kernel function. The kernel function is derived from a hidden Markov model. The general approach of combining generative models like HMMs with discriminative methods such as support vector machines may have applications in other areas of biosequence analysis as well.


Subject(s)
Proteins/chemistry , Sequence Analysis, Protein/methods , Databases, Factual , GTP-Binding Proteins/chemistry , Markov Chains , Models, Statistical , Protein Structure, Tertiary , Reproducibility of Results , Software
18.
Environ Sci Pollut Res Int ; 4(1): 21-30, 1997.
Article in English | MEDLINE | ID: mdl-19002413

ABSTRACT

Sediment accumulation of organic halogen was studied in two forest lakes, one pristine and one which received 30 m(3) of biologically purified bleaching wastewater from a kraft pulp mill in 1979 equivalent to ca. 2 kg of adsorbable organic halogen (AOX). Lake sediments were dated with(210)Pb,(134)Cs and(137)Cs and the annual deposition rates of organic halogens and organic matter were calculated. Organic bound halogen contents of the sediment aged 150 years was 180 microg Cl g(-1) d.w. in both lakes. The concentration of organic bound halogen at the topmost 6 cm of the sediments (less than 20-years-old) ranged from 45 to 80 microg Cl g(-1) d.w. This suggests that solvent extractable halogen had enriched in the older sediment layers. The deposition of extractable organic halogen (EOX) in the lakes in 1950's was 4 to 5 mg Cl m(-2) a(-1). Since then, the deposition of EOX doubled in both lakes. The deposition of organic matter increased concomitantly from 50 g m(-2) a(-1) to 110 g m(-2) a(-1) in Lake Mustalampi and from 35 g m(-2) a(-1) to 62 g m(-2) a(-1) in Lake Pyylampi suggesting that the increase in the deposition of organic halogen followed the increase in the deposition of organic matter. Of the 2 kg of organic halogen discharged into the lake, 5% or less was detected in the sediment in tetrahydrofuran extractable form 15 years later.

19.
Appl Opt ; 31(17): 3320-36, 1992 Jun 10.
Article in English | MEDLINE | ID: mdl-20725286

ABSTRACT

Separable binary-phase array illuminators for fan-out up to 1024 x 1024 and ~65% two-dimensional efficiency are designed by simulated annealing with constraints for maximizing the minimum feature size. A new nonseparable trapezoidal coding technique is introduced and applied to design high-efficiency (~75%-80%) array generators for fan-out up to 16 x 16. A rigorous electromagnetic diffraction theory is used to evaluate the range of validity of the scalar designs (both grating period and input angle are considered), to analyze fabrication errors (slanted groove walls and undercutting), and to design binary resonance-domain one-dimensional array generators with 90%-100% efficiency. Trapezoidal gratings for low fan-out (8 x 8), separable gratings for high fan-out (up to 128 x 128), and a 1 x 5 resonance domain (100% efficient) reflection grating are demonstrated experimentally.

20.
J Clin Endocrinol Metab ; 70(6): 1496-505, 1990 Jun.
Article in English | MEDLINE | ID: mdl-2140831

ABSTRACT

Serum bioactive and immunoreactive LH and FSH were measured in clinical conditions with increased or decreased gonadotropin secretion. Gonadotropin immunoreactivity was measured using a conventional RIA (I) and an ultrasensitive immunofluorometric method (F). Bioactive (B) LH was assessed by the mouse interstitial cells in vitro bioassay, and B-FSH using the immature rat granulosa cell assay. Acute GnRH stimulation of adult men (n = 6) increased LH levels measured by the different methods 4.3- to 5.3-fold. The B/I ratio of LH increased from 2.34 +/- 0.21 to 3.71 +/- 0.36 (mean +/- SEM) at 120 min (P less than 0.05), but no change was found in the B/F ratio. After ovariectomy of premenopausal women (n = 6), the LH levels increased in 1 week 4- to 6-fold, the B/I ratio from 1.85 +/- 0.22 to 2.59 +/- 0.24, and the B/F ratio from 1.78 +/- 0.22 to 2.90 +/- 0.30 (P less than 0.05 for both). In addition, the LH levels were measured during GnRH agonist treatment of ovarian carcinoma (n = 8), endometriosis (n = 8), and prostatic carcinoma after orchiectomy (n = 8). In the two former groups, serum B-LH decreased in 1 month to undetectable levels (less than 0.5 IU/L), and in the prostate cancer patients to 1.2 (0.8-1.9) IU/L (log mean and range of +/- SEM). The concomitant decline of I-LH was to 1.5-1.9 IU/L in the agonist-treated female patients, and that of F-LH to 0.10-0.15 IU/L; in the prostate cancer patients, respectively, these values were 7-8 and 0.3-0.7 IU/L. The B/I and B/F ratios during the agonist treatments could only be calculated in the prostate cancer patients (in the others, B-LH became undetectable). The B/I ratio decreased from 2.34 +/- 0.5 to 0.14 +/- 0.03 (P less than 0.01), but no suppression was found in the B/F ratio from a pretreatment value of 3.6 +/- 0.8. B-, I-, and F-FSH levels were measured in the GnRH agonist-treated orchiectomized prostate cancer patients. The pretreatment level of B-FSH was 154 (137-175), that of I-FSH was 38.0 (34.4-42.0), and that of F-FSH was 39.8 (35.3-44.9) IU/L. The B/I ratio of FSH was 3.76 +/- 0.49, and the B/F ratio was 3.53 +/- 0.59. The mean B-FSH level decreased during treatment by 87-93.5%, that of I-FSH by 98%, and that of F-FSH by 91.5% (P less than 0.01 for all).(ABSTRACT TRUNCATED AT 400 WORDS)


Subject(s)
Fluorescent Antibody Technique , Follicle Stimulating Hormone/blood , Luteinizing Hormone/blood , Adult , Aged , Biological Assay , Buserelin/analogs & derivatives , Buserelin/pharmacokinetics , Endometriosis/drug therapy , Endometriosis/metabolism , Female , Gonadotropin-Releasing Hormone/analogs & derivatives , Gonadotropin-Releasing Hormone/pharmacokinetics , Goserelin , Humans , Male , Menopause/metabolism , Middle Aged , Nafarelin , Orchiectomy , Ovarian Neoplasms/drug therapy , Ovarian Neoplasms/metabolism , Ovariectomy , Prostatic Neoplasms/drug therapy , Prostatic Neoplasms/metabolism , Radioimmunoassay , Uterine Neoplasms/metabolism
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