Methods for isolation and viability assessment of biological organisms

Science.gov (United States)

Letant, Sonia Edith; Baker, Sarah Elyse; Bond, Tiziana; Chang, Allan Shih-Ping

2015-02-03

Isolation of biological or chemical organisms can be accomplished using a surface enhanced Raman scattering (SERS) system. The SERS system can be a single or a stacked plurality of photonic crystal membranes with noble-metal lined through pores for flowing analyte potentially containing the biological or chemical organisms. The through pores can be adapted to trap individual biological or chemical organisms and emit SERS spectra, which can then be detected by a detector and further analyzed for viability of the biological or chemical organism.

Green Jobs: Definition and Method of Appraisal of Chemical and Biological Risks.

Science.gov (United States)

Cheneval, Erwan; Busque, Marc-Antoine; Ostiguy, Claude; Lavoie, Jacques; Bourbonnais, Robert; Labrèche, France; Bakhiyi, Bouchra; Zayed, Joseph

2016-04-01

In the wake of sustainable development, green jobs are developing rapidly, changing the work environment. However a green job is not automatically a safe job. The aim of the study was to define green jobs, and to establish a preliminary risk assessment of chemical substances and biological agents for workers in Quebec. An operational definition was developed, along with criteria and sustainable development principles to discriminate green jobs from regular jobs. The potential toxicity or hazard associated with their chemical and biological exposures was assessed, and the workers' exposure appraised using an expert assessment method. A control banding approach was then used to assess risks for workers in selected green jobs. A double entry model allowed us to set priorities in terms of chemical or biological risk. Among jobs that present the highest risk potential, several are related to waste management. The developed method is flexible and could be adapted to better appraise the risks that workers are facing or to propose control measures. © The Author 2015. Published by Oxford University Press on behalf of the British Occupational Hygiene Society.

Interpretation of biological and mechanical variations between the Lowry versus Bradford method for protein quantification.

Science.gov (United States)

Lu, Tzong-Shi; Yiao, Szu-Yu; Lim, Kenneth; Jensen, Roderick V; Hsiao, Li-Li

2010-07-01

The identification of differences in protein expression resulting from methodical variations is an essential component to the interpretation of true, biologically significant results. We used the Lowry and Bradford methods- two most commonly used methods for protein quantification, to assess whether differential protein expressions are a result of true biological or methodical variations. MATERIAL #ENTITYSTARTX00026; Differential protein expression patterns was assessed by western blot following protein quantification by the Lowry and Bradford methods. We have observed significant variations in protein concentrations following assessment with the Lowry versus Bradford methods, using identical samples. Greater variations in protein concentration readings were observed over time and in samples with higher concentrations, with the Bradford method. Identical samples quantified using both methods yielded significantly different expression patterns on Western blot. We show for the first time that methodical variations observed in these protein assay techniques, can potentially translate into differential protein expression patterns, that can be falsely taken to be biologically significant. Our study therefore highlights the pivotal need to carefully consider methodical approaches to protein quantification in techniques that report quantitative differences.

Nonlinear dimensionality reduction methods for synthetic biology biobricks' visualization.

Science.gov (United States)

Yang, Jiaoyun; Wang, Haipeng; Ding, Huitong; An, Ning; Alterovitz, Gil

2017-01-19

Visualizing data by dimensionality reduction is an important strategy in Bioinformatics, which could help to discover hidden data properties and detect data quality issues, e.g. data noise, inappropriately labeled data, etc. As crowdsourcing-based synthetic biology databases face similar data quality issues, we propose to visualize biobricks to tackle them. However, existing dimensionality reduction methods could not be directly applied on biobricks datasets. Hereby, we use normalized edit distance to enhance dimensionality reduction methods, including Isomap and Laplacian Eigenmaps. By extracting biobricks from synthetic biology database Registry of Standard Biological Parts, six combinations of various types of biobricks are tested. The visualization graphs illustrate discriminated biobricks and inappropriately labeled biobricks. Clustering algorithm K-means is adopted to quantify the reduction results. The average clustering accuracy for Isomap and Laplacian Eigenmaps are 0.857 and 0.844, respectively. Besides, Laplacian Eigenmaps is 5 times faster than Isomap, and its visualization graph is more concentrated to discriminate biobricks. By combining normalized edit distance with Isomap and Laplacian Eigenmaps, synthetic biology biobircks are successfully visualized in two dimensional space. Various types of biobricks could be discriminated and inappropriately labeled biobricks could be determined, which could help to assess crowdsourcing-based synthetic biology databases' quality, and make biobricks selection.

Progeny Clustering: A Method to Identify Biological Phenotypes

Science.gov (United States)

Hu, Chenyue W.; Kornblau, Steven M.; Slater, John H.; Qutub, Amina A.

2015-01-01

Estimating the optimal number of clusters is a major challenge in applying cluster analysis to any type of dataset, especially to biomedical datasets, which are high-dimensional and complex. Here, we introduce an improved method, Progeny Clustering, which is stability-based and exceptionally efficient in computing, to find the ideal number of clusters. The algorithm employs a novel Progeny Sampling method to reconstruct cluster identity, a co-occurrence probability matrix to assess the clustering stability, and a set of reference datasets to overcome inherent biases in the algorithm and data space. Our method was shown successful and robust when applied to two synthetic datasets (datasets of two-dimensions and ten-dimensions containing eight dimensions of pure noise), two standard biological datasets (the Iris dataset and Rat CNS dataset) and two biological datasets (a cell phenotype dataset and an acute myeloid leukemia (AML) reverse phase protein array (RPPA) dataset). Progeny Clustering outperformed some popular clustering evaluation methods in the ten-dimensional synthetic dataset as well as in the cell phenotype dataset, and it was the only method that successfully discovered clinically meaningful patient groupings in the AML RPPA dataset. PMID:26267476

Statistical issues in biological radiation dosimetry for risk assessment using stable chromosome aberrations

International Nuclear Information System (INIS)

Cologne, J.B.; Preston, D.L.

1998-01-01

Biological dosimeters are useful for epidemiologic risk assessment in populations exposed to catastrophic nuclear events and as a means of validating physical dosimetry in radiation workers. Application requires knowledge of the magnitude of uncertainty in the biological dose estimates and an understanding of potential statistical pitfalls arising from their use. This paper describes the statistical aspects of biological dosimetry in general and presents a detailed analysis in the specific case of dosimetry for risk assessment using stable chromosome aberration frequency. Biological dose estimates may be obtained from a dose-response curve, but negative estimates can result and adjustment must be made for regression bias due to imprecise estimation when the estimates are used in regression analyses. Posterior-mean estimates, derived as the mean of the distribution of true doses compatible with a given value of the biological endpoint, have several desirable properties: they are nonnegative, less sensitive to extreme skewness in the true dose distribution, and implicitly adjusted to avoid regression bias. The methods necessitate approximating the true-dose distribution in the population in which biological dosimetry is being applied, which calls for careful consideration of this distribution through other information. An important question addressed here is to what extent the methods are robust to misspecification of this distribution, because in many applications of biological dosimetry it cannot be characterized well. The findings suggest that dosimetry based solely on stable chromosome aberration frequency may be useful for population-based risk assessment

ABSCISSA ASSESSMENT WITH ALGAE: A COMPARISON OF LOCAL AND LANDSCAPE IMPAIRMENT MEASURES FOR BIOLOGICAL ASSESSMENT USING BENTHIC DIATOMS

Science.gov (United States)

The development of rigorous biological assessments is dependent upon well-constructed abscissa, and various methods, both subjective and objective, exist to measure expected impairment at both the landscape and local scale. A new, landscape-scale method has recently been offered...

Analysis and assessment of the detriment in interventional radiology using biological dosimetry methods

International Nuclear Information System (INIS)

Montoro, A.; Almonacid, M.; Villaescusa, J.I.; Barquinero, J.F.; Rodriguez, P.; Barrios, L.; Verdu, G.; Ramos, M.

2006-01-01

Interventional radiologist and staff members usually are exposed to high levels of scattered radiation. As a result, the exposition to radiation procedures can produce detrimental effects that we would have to know. Effective dose is the quantity that better estimates the radiation risk. For this study we have realized an estimation of the radiological detriment to exposed workers of the Hospital la Fe de Valencia. For it, have been used physical doses registered in detectors T.L.D., and doses estimated by biological dosimetry in lymphocytes of peripheral blood. There has been estimated for every case the probability of effect of skin cancer and of non-solid cancers (leukaemia, lymphoma and myeloma), being compared with the baseline probability of natural effect. Biological doses were obtained by extrapolating the yield of dicentrics and translocations to their respective dose -effect curves. The discrepancies observed between physically recorded doses and biological estimated doses indicate that workers did not always wear their dosimeters or the dosimeters were not always in the radiation field. Cytogenetic studies should be extended to more workers to assess the risk derived from their occupational exposure. (authors)

Analysis and assessment of the detriment in interventional radiology using biological dosimetry methods

Energy Technology Data Exchange (ETDEWEB)

Montoro, A.; Almonacid, M.; Villaescusa, J.I. [Hospital Univ. la Fe de Valen cian, Servicio de Proteccion Radiologica, Valencia (Spain); Barquinero, J.F.; Rodriguez, P. [Universitat Autonom a de Barcelona, Servicio de Dosimetria Biologica, Unidad de Antropologia, Departamento de Biologia Animal, Vegetal y Ecologia., Barcelona (Spain); Barrios, L. [Universidad Autonoma de Barcelona, Dept. de Biologia Celular y Fisiologia. Unidad de Biologia Celular, Barcelona (Spain); Verdu, G.; Ramos, M. [Universidad Politecnica de Valencia, Dept. de Ingenieria Quimica y Nuclear, Valencia, (Spain)

2006-07-01

Interventional radiologist and staff members usually are exposed to high levels of scattered radiation. As a result, the exposition to radiation procedures can produce detrimental effects that we would have to know. Effective dose is the quantity that better estimates the radiation risk. For this study we have realized an estimation of the radiological detriment to exposed workers of the Hospital la Fe de Valencia. For it, have been used physical doses registered in detectors T.L.D., and doses estimated by biological dosimetry in lymphocytes of peripheral blood. There has been estimated for every case the probability of effect of skin cancer and of non-solid cancers (leukaemia, lymphoma and myeloma), being compared with the baseline probability of natural effect. Biological doses were obtained by extrapolating the yield of dicentrics and translocations to their respective dose -effect curves. The discrepancies observed between physically recorded doses and biological estimated doses indicate that workers did not always wear their dosimeters or the dosimeters were not always in the radiation field. Cytogenetic studies should be extended to more workers to assess the risk derived from their occupational exposure. (authors)

Mathematical methods in biology and neurobiology

CERN Document Server

Jost, Jürgen

2014-01-01

Mathematical models can be used to meet many of the challenges and opportunities offered by modern biology. The description of biological phenomena requires a range of mathematical theories. This is the case particularly for the emerging field of systems biology. Mathematical Methods in Biology and Neurobiology introduces and develops these mathematical structures and methods in a systematic manner. It studies:   • discrete structures and graph theory • stochastic processes • dynamical systems and partial differential equations • optimization and the calculus of variations.   The biological applications range from molecular to evolutionary and ecological levels, for example:   • cellular reaction kinetics and gene regulation • biological pattern formation and chemotaxis • the biophysics and dynamics of neurons • the coding of information in neuronal systems • phylogenetic tree reconstruction • branching processes and population genetics • optimal resource allocation • sexual recombi...

Assessment of variable application rates of biological amendment ...

African Journals Online (AJOL)

Assessment of variable application rates of biological amendment substances on establishment and growth characteristics of maize plants. ... Hence, a greenhouse experiment was conducted in 2008 to assess the effects of variable rates (50, 75 and 100% of the recommended rates) of industrial manufactured biological ...

Skill Assessment in Ocean Biological Data Assimilation

Science.gov (United States)

Gregg, Watson W.; Friedrichs, Marjorie A. M.; Robinson, Allan R.; Rose, Kenneth A.; Schlitzer, Reiner; Thompson, Keith R.; Doney, Scott C.

2008-01-01

There is growing recognition that rigorous skill assessment is required to understand the ability of ocean biological models to represent ocean processes and distributions. Statistical analysis of model results with observations represents the most quantitative form of skill assessment, and this principle serves as well for data assimilation models. However, skill assessment for data assimilation requires special consideration. This is because there are three sets of information in the free-run model, data, and the assimilation model, which uses Data assimilation information from both the flee-run model and the data. Intercom parison of results among the three sets of information is important and useful for assessment, but is not conclusive since the three information sets are intertwined. An independent data set is necessary for an objective determination. Other useful measures of ocean biological data assimilation assessment include responses of unassimilated variables to the data assimilation, performance outside the prescribed region/time of interest, forecasting, and trend analysis. Examples of each approach from the literature are provided. A comprehensive list of ocean biological data assimilation and their applications of skill assessment, in both ecosystem/biogeochemical and fisheries efforts, is summarized.

Treatment of laundry wastewater by biological and electrocoagulation methods.

Science.gov (United States)

Ramcharan, Terelle; Bissessur, Ajay

2017-01-01

The present study describes an improvement in the current electrocoagulation treatment process and focuses on a comparative study for the clean-up of laundry wastewater (LWW) after each wash and rinse cycle by biological and electrocoagulation treatment methods. For biological treatment, the wastewater was treated with a Bacillus strain of aerobic bacteria especially suited for the degradation of fats, lipids, protein, detergents and hydrocarbons. Treatment of the LWW by electrocoagulation involved the oxidation of aluminium metal upon the application of a controlled voltage which produces various aluminium hydroxy species capable of adsorbing pollutants from the wastewater. The efficiency of the clean-up of LWW using each method was assessed by determination of surfactant concentration, chemical oxygen demand and total dissolved solids. A rapid decrease in surfactant concentration was noted within 0.5 hour of electrocoagulation, whereas a notable decrease in the surfactant concentration was observed only after 12 hour of biological treatment. The rapid generation of aluminium hydroxy species in the electrocoagulation cell allowed adsorption of pollutants at a faster rate when compared to the aerobic degradation of the surfactant; hence a reduced period of time is required for treatment of LWW by electrocoagulation.

DREAM: a method for semi-quantitative dermal exposure assessment

NARCIS (Netherlands)

Wendel de Joode, B. van; Brouwer, D.H.; Kromhout, H.; Hemmen, J.J. van

2003-01-01

This paper describes a new method (DREAM) for structured, semi-quantitative dermal exposure assessment for chemical or biological agents that can be used in occupational hygiene or epidemiology. It is anticipated that DREAM could serve as an initial assessment of dermal exposure, amongst others,

Methods for land use impact assessment: A review

International Nuclear Information System (INIS)

Perminova, Tataina; Sirina, Natalia; Laratte, Bertrand; Baranovskaya, Natalia; Rikhvanov, Leonid

2016-01-01

Many types of methods to assess land use impact have been developed. Nevertheless a systematic synthesis of all these approaches is necessary to highlight the most commonly used and most effective methods. Given the growing interest in this area of research, a review of the different methods of assessing land use impact (LUI) was performed using bibliometric analysis. One hundred eighty seven articles of agricultural and biological science, and environmental sciences were examined. According to our results, the most frequently used land use assessment methods are Life-Cycle Assessment, Material Flow Analysis/Input–Output Analysis, Environmental Impact Assessment and Ecological Footprint. Comparison of the methods allowed their specific features to be identified and to arrive at the conclusion that a combination of several methods is the best basis for a comprehensive analysis of land use impact assessment. - Highlights: • We identified the most frequently used methods in land use impact assessment. • A comparison of the methods based on several criteria was carried out. • Agricultural land use is by far the most common area of study within the methods. • Incentive driven methods, like LCA, arouse the most interest in this field.

Methods for land use impact assessment: A review

Energy Technology Data Exchange (ETDEWEB)

Perminova, Tataina, E-mail: tatiana.perminova@utt.fr [Research Centre for Environmental Studies and Sustainability, University of Technology of Troyes, CNRS UMR 6281, 12 Rue Marie Curie CS 42060, F-10004 Troyes Cedex (France); Department of Geoecology and Geochemistry, Institute of Natural Resources, National Research Tomsk Polytechnic University, 30 Lenin Avenue, 634050 Tomsk (Russian Federation); Sirina, Natalia, E-mail: natalia.sirina@utt.fr [Research Centre for Environmental Studies and Sustainability, University of Technology of Troyes, CNRS UMR 6281, 12 Rue Marie Curie CS 42060, F-10004 Troyes Cedex (France); Laratte, Bertrand, E-mail: bertrand.laratte@utt.fr [Research Centre for Environmental Studies and Sustainability, University of Technology of Troyes, CNRS UMR 6281, 12 Rue Marie Curie CS 42060, F-10004 Troyes Cedex (France); Baranovskaya, Natalia, E-mail: natalya.baranovs@mail.ru [Department of Geoecology and Geochemistry, Institute of Natural Resources, National Research Tomsk Polytechnic University, 30 Lenin Avenue, 634050 Tomsk (Russian Federation); Rikhvanov, Leonid, E-mail: rikhvanov@tpu.ru [Department of Geoecology and Geochemistry, Institute of Natural Resources, National Research Tomsk Polytechnic University, 30 Lenin Avenue, 634050 Tomsk (Russian Federation)

2016-09-15

Many types of methods to assess land use impact have been developed. Nevertheless a systematic synthesis of all these approaches is necessary to highlight the most commonly used and most effective methods. Given the growing interest in this area of research, a review of the different methods of assessing land use impact (LUI) was performed using bibliometric analysis. One hundred eighty seven articles of agricultural and biological science, and environmental sciences were examined. According to our results, the most frequently used land use assessment methods are Life-Cycle Assessment, Material Flow Analysis/Input–Output Analysis, Environmental Impact Assessment and Ecological Footprint. Comparison of the methods allowed their specific features to be identified and to arrive at the conclusion that a combination of several methods is the best basis for a comprehensive analysis of land use impact assessment. - Highlights: • We identified the most frequently used methods in land use impact assessment. • A comparison of the methods based on several criteria was carried out. • Agricultural land use is by far the most common area of study within the methods. • Incentive driven methods, like LCA, arouse the most interest in this field.

Quantifying biological integrity by taxonomic completeness: its utility in regional and global assessments.

Science.gov (United States)

Hawkins, Charles P

2006-08-01

Water resources managers and conservation biologists need reliable, quantitative, and directly comparable methods for assessing the biological integrity of the world's aquatic ecosystems. Large-scale assessments are constrained by the lack of consistency in the indicators used to assess biological integrity and our current inability to translate between indicators. In theory, assessments based on estimates of taxonomic completeness, i.e., the proportion of expected taxa that were observed (observed/expected, O/E) are directly comparable to one another and should therefore allow regionally and globally consistent summaries of the biological integrity of freshwater ecosystems. However, we know little about the true comparability of O/E assessments derived from different data sets or how well O/E assessments perform relative to other indicators in use. I compared the performance (precision, bias, and sensitivity to stressors) of O/E assessments based on five different data sets with the performance of the indicators previously applied to these data (three multimetric indices, a biotic index, and a hybrid method used by the state of Maine). Analyses were based on data collected from U.S. stream ecosystems in North Carolina, the Mid-Atlantic Highlands, Maine, and Ohio. O/E assessments resulted in very similar estimates of mean regional conditions compared with most other indicators once these indicators' values were standardized relative to reference-site means. However, other indicators tended to be biased estimators of O/E, a consequence of differences in their response to natural environmental gradients and sensitivity to stressors. These results imply that, in some cases, it may be possible to compare assessments derived from different indicators by standardizing their values (a statistical approach to data harmonization). In situations where it is difficult to standardize or otherwise harmonize two or more indicators, O/E values can easily be derived from existing

Use of Biological Methods in Criminology

OpenAIRE

Müllerová, Nikola

2014-01-01

Criminology is a science dealing with the protection of citizens and state from infringement. Criminology uses mostly biological or genetic methods for crime detection. Forensic traces which are collected by forensic experts on the scene are the key items of those methods. Forensic genetics is among the most important forensic subdisciplines. Forensic genetics uses DNA analysis for identification. The main aims of this study are description and importance of biological, anthropological and ge...

A Diagnostic Assessment for Introductory Molecular and Cell Biology

Science.gov (United States)

Shi, Jia; Wood, William B.; Martin, Jennifer M.; Guild, Nancy A.; Vicens, Quentin; Knight, Jennifer K.

2010-01-01

We have developed and validated a tool for assessing understanding of a selection of fundamental concepts and basic knowledge in undergraduate introductory molecular and cell biology, focusing on areas in which students often have misconceptions. This multiple-choice Introductory Molecular and Cell Biology Assessment (IMCA) instrument is designed…

Uncertainty of fast biological radiation dose assessment for emergency response scenarios.

Science.gov (United States)

Ainsbury, Elizabeth A; Higueras, Manuel; Puig, Pedro; Einbeck, Jochen; Samaga, Daniel; Barquinero, Joan Francesc; Barrios, Lleonard; Brzozowska, Beata; Fattibene, Paola; Gregoire, Eric; Jaworska, Alicja; Lloyd, David; Oestreicher, Ursula; Romm, Horst; Rothkamm, Kai; Roy, Laurence; Sommer, Sylwester; Terzoudi, Georgia; Thierens, Hubert; Trompier, Francois; Vral, Anne; Woda, Clemens

2017-01-01

Reliable dose estimation is an important factor in appropriate dosimetric triage categorization of exposed individuals to support radiation emergency response. Following work done under the EU FP7 MULTIBIODOSE and RENEB projects, formal methods for defining uncertainties on biological dose estimates are compared using simulated and real data from recent exercises. The results demonstrate that a Bayesian method of uncertainty assessment is the most appropriate, even in the absence of detailed prior information. The relative accuracy and relevance of techniques for calculating uncertainty and combining assay results to produce single dose and uncertainty estimates is further discussed. Finally, it is demonstrated that whatever uncertainty estimation method is employed, ignoring the uncertainty on fast dose assessments can have an important impact on rapid biodosimetric categorization.

Mathematical methods in systems biology.

Science.gov (United States)

Kashdan, Eugene; Duncan, Dominique; Parnell, Andrew; Schattler, Heinz

2016-12-01

The editors of this Special Issue of Mathematical Biosciences and Engineering were the organizers for the Third International Workshop "Mathematical Methods in System Biology" that took place on June 15-18, 2015 at the University College Dublin in Ireland. As stated in the workshop goals, we managed to attract a good mix of mathematicians and statisticians working on biological and medical applications with biologists and clinicians interested in presenting their challenging problems and looking to find mathematical and statistical tools for their solutions.

Biological Methods and Manual Development

Science.gov (United States)

EPA scientists conduct research to develop and evaluate analytical methods for the identification, enumeration, evaluation of aquatic organisms exposed to environmental stressors and to correlate exposures with effects on chemical and biological indicators

Statistical assessment of crosstalk enrichment between gene groups in biological networks.

Science.gov (United States)

McCormack, Theodore; Frings, Oliver; Alexeyenko, Andrey; Sonnhammer, Erik L L

2013-01-01

Analyzing groups of functionally coupled genes or proteins in the context of global interaction networks has become an important aspect of bioinformatic investigations. Assessing the statistical significance of crosstalk enrichment between or within groups of genes can be a valuable tool for functional annotation of experimental gene sets. Here we present CrossTalkZ, a statistical method and software to assess the significance of crosstalk enrichment between pairs of gene or protein groups in large biological networks. We demonstrate that the standard z-score is generally an appropriate and unbiased statistic. We further evaluate the ability of four different methods to reliably recover crosstalk within known biological pathways. We conclude that the methods preserving the second-order topological network properties perform best. Finally, we show how CrossTalkZ can be used to annotate experimental gene sets using known pathway annotations and that its performance at this task is superior to gene enrichment analysis (GEA). CrossTalkZ (available at http://sonnhammer.sbc.su.se/download/software/CrossTalkZ/) is implemented in C++, easy to use, fast, accepts various input file formats, and produces a number of statistics. These include z-score, p-value, false discovery rate, and a test of normality for the null distributions.

Biological dosimetry: chromosomal aberration analysis for dose assessment

International Nuclear Information System (INIS)

1986-01-01

In view of the growing importance of chromosomal aberration analysis as a biological dosimeter, the present report provides a concise summary of the scientific background of the subject and a comprehensive source of information at the technical level. After a review of the basic principles of radiation dosimetry and radiation biology basic information on the biology of lymphocytes, the structure of chromosomes and the classification of chromosomal aberrations are presented. This is followed by a presentation of techniques for collecting blood, storing, transporting, culturing, making chromosomal preparations and scaring of aberrations. The physical and statistical parameters involved in dose assessment are discussed and examples of actual dose assessments taken from the scientific literature are given

Method to detect biological particles

International Nuclear Information System (INIS)

Giaever, I.

1976-01-01

A medical-diagnostic method to detect immunological as well as other specific reactions is described. According to the invention, first reactive particles (e.g. antibodies) are adsorbed on the surface of a solid, non-reactive substrate. The coated substrate is subjected to a solution which one assumes to contain the second biological particles (e.g. antigens) which are specific to the first and form complexes with these. A preferential radioactive labelling (e.g. with iodine 125) of the second biological particle is then directly or indirectly carried out. Clearage follows labelling in order to separate the second biological particles from the first ones. A specific splitting agent can selectively break the bond of both types of particle. The splitting agent solution is finally separated off and its content is investigated for the presence of labelling. (VJ) [de

Creative design inspired by biological knowledge: Technologies and methods

Science.gov (United States)

Tan, Runhua; Liu, Wei; Cao, Guozhong; Shi, Yuan

2018-05-01

Biological knowledge is becoming an important source of inspiration for developing creative solutions to engineering design problems and even has a huge potential in formulating ideas that can help firms compete successfully in a dynamic market. To identify the technologies and methods that can facilitate the development of biologically inspired creative designs, this research briefly reviews the existing biological-knowledge-based theories and methods and examines the application of biological-knowledge-inspired designs in various fields. Afterward, this research thoroughly examines the four dimensions of key technologies that underlie the biologically inspired design (BID) process. This research then discusses the future development trends of the BID process before presenting the conclusions.

Microautoradiographic methods and their applications in biology

International Nuclear Information System (INIS)

Benes, L.

1978-01-01

A survey of microautoradiographic methods and of their application in biology is given. The current state of biological microautoradiography is shown, focusing on the efficiency of techniques and on special problems proceeding in autoradiographic investigations in biology. Four more or less independent fields of autoradiography are considered. In describing autoradiographic techniques two methodological tasks are emphasized: The further development of the labelling technique in all metabolic studies and of instrumentation and automation of autoradiograph evaluation. (author)

Assessment of network perturbation amplitudes by applying high-throughput data to causal biological networks

Directory of Open Access Journals (Sweden)

Martin Florian

2012-05-01

Full Text Available Abstract Background High-throughput measurement technologies produce data sets that have the potential to elucidate the biological impact of disease, drug treatment, and environmental agents on humans. The scientific community faces an ongoing challenge in the analysis of these rich data sources to more accurately characterize biological processes that have been perturbed at the mechanistic level. Here, a new approach is built on previous methodologies in which high-throughput data was interpreted using prior biological knowledge of cause and effect relationships. These relationships are structured into network models that describe specific biological processes, such as inflammatory signaling or cell cycle progression. This enables quantitative assessment of network perturbation in response to a given stimulus. Results Four complementary methods were devised to quantify treatment-induced activity changes in processes described by network models. In addition, companion statistics were developed to qualify significance and specificity of the results. This approach is called Network Perturbation Amplitude (NPA scoring because the amplitudes of treatment-induced perturbations are computed for biological network models. The NPA methods were tested on two transcriptomic data sets: normal human bronchial epithelial (NHBE cells treated with the pro-inflammatory signaling mediator TNFα, and HCT116 colon cancer cells treated with the CDK cell cycle inhibitor R547. Each data set was scored against network models representing different aspects of inflammatory signaling and cell cycle progression, and these scores were compared with independent measures of pathway activity in NHBE cells to verify the approach. The NPA scoring method successfully quantified the amplitude of TNFα-induced perturbation for each network model when compared against NF-κB nuclear localization and cell number. In addition, the degree and specificity to which CDK

Biology, Philosophy, and Scientific Method.

Science.gov (United States)

Hill, L.

1985-01-01

The limits of falsification are discussed and the historically based models of science described by Lakatos and Kuhn are shown to offer greater insights into the practice of science. The theory of natural selection is used to relate biology to philosophy and scientific method. (Author/JN)

Scientific Opinion on Risk Assessment of Synthetic Biology.

Science.gov (United States)

Epstein, Michelle M; Vermeire, Theo

2016-08-01

In 2013, three Scientific Committees of the European Commission (EC) drafted Scientific Opinions on synthetic biology that provide an operational definition and address risk assessment methodology, safety aspects, environmental risks, knowledge gaps, and research priorities. These Opinions contribute to the international discussions on the risk governance for synthetic biology developments. Copyright © 2016 Elsevier Ltd. All rights reserved.

Critical temperature: A quantitative method of assessing cold tolerance

Science.gov (United States)

D.H. DeHayes; M.W., Jr. Williams

1989-01-01

Critical temperature (Tc), defined as the highest temperature at which freezing injury to plant tissues can be detected, provides a biologically meaningful and statistically defined assessment of the relative cold tolerance of plant tissues. A method is described for calculating critical temperatures in laboratory freezing studies that use...

Simple Calculation Programs for Biology Immunological Methods

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. Simple Calculation Programs for Biology Immunological Methods. Computation of Ab/Ag Concentration from EISA data. Graphical Method; Raghava et al., 1992, J. Immuno. Methods 153: 263. Determination of affinity of Monoclonal Antibody. Using non-competitive ...

Biological indicators for the assessment of a radiation exposure

International Nuclear Information System (INIS)

Feinendegen, L.E.

1980-01-01

Measurement of the incidence of chromosomal aberrations in the peripheral lymphocytes, though a useful method of biological dosimetry, is techious, difficult to carry out, and time-consuming. It is most appropriate for an assessment of the probability of late damage of low doses up to 20 rad. The many attempts at using biochemical indicators for the absorbed dose have not had satisfactory results so far. Morphological changes especially of the peripheral blood cells and bone narrow cells are a sure sign of a radiolesion. However, there is the problem of quantitative measurement of these processes which has made it impossible so far to elaborate a useful biological dosimetry on this basis. Apart from the analysis of peripheral lymphocytes and leucocythes, there are three new approaches of potential value: 1. Analysis of up to 19 clinical and chemical parameters of the blood serum, - it gives a rough estimate of the probability of lethality of high prognostic value. 2. Observation of the peripheral reticulocyte count - a quick and rather uncomplicated method that does not require specific laboratories. 3. Measurement of the rate of incorporation of labelled iododeoxyuridine in bone narrow cells of radiation-exposed persons or in cell cultures in a medium containing serum of radiation-exposed persons; this method appears promising for the narrow dose range and also raises same questions concerning basic research into intercellular signal substances. (orig./MG) [de

Assessment of network inference methods: how to cope with an underdetermined problem.

Directory of Open Access Journals (Sweden)

Caroline Siegenthaler

Full Text Available The inference of biological networks is an active research area in the field of systems biology. The number of network inference algorithms has grown tremendously in the last decade, underlining the importance of a fair assessment and comparison among these methods. Current assessments of the performance of an inference method typically involve the application of the algorithm to benchmark datasets and the comparison of the network predictions against the gold standard or reference networks. While the network inference problem is often deemed underdetermined, implying that the inference problem does not have a (unique solution, the consequences of such an attribute have not been rigorously taken into consideration. Here, we propose a new procedure for assessing the performance of gene regulatory network (GRN inference methods. The procedure takes into account the underdetermined nature of the inference problem, in which gene regulatory interactions that are inferable or non-inferable are determined based on causal inference. The assessment relies on a new definition of the confusion matrix, which excludes errors associated with non-inferable gene regulations. For demonstration purposes, the proposed assessment procedure is applied to the DREAM 4 In Silico Network Challenge. The results show a marked change in the ranking of participating methods when taking network inferability into account.

Bigheaded carps : a biological synopsis and environmental risk assessment

Science.gov (United States)

Kolar, Cindy S.; Chapman, Duane C.; Courtenay, Walter R.; Housel, Christine M.; Williams, James D.; Jennings, Dawn P.

2007-01-01

The book is a detailed risk assessment and biological synopsis of the bigheaded carps of the genus Hypophthalmichthys, which includes the bighead, silver, and largescale silver carps. It summarizes the scientific literature describing their biology, ecology, uses, ecological effects, and risks to the environment.

Development of tools for integrated monitoring and assessment of hazardous substances and their biological effects in the Baltic Sea.

Science.gov (United States)

Lehtonen, Kari K; Sundelin, Brita; Lang, Thomas; Strand, Jakob

2014-02-01

The need to develop biological effects monitoring to facilitate a reliable assessment of hazardous substances has been emphasized in the Baltic Sea Action Plan of the Helsinki Commission. An integrated chemical-biological approach is vitally important for the understanding and proper assessment of anthropogenic pressures and their effects on the Baltic Sea. Such an approach is also necessary for prudent management aiming at safeguarding the sustainable use of ecosystem goods and Services. The BEAST project (Biological Effects of Anthropogenic Chemical Stress: Tools for the Assessment of Ecosystem Health) set out to address this topic within the BONUS Programme. BEAST generated a large amount of quality-assured data on several biological effects parameters (biomarkers) in various marine species in different sub-regions of the Baltic Sea. New indicators (biological response measurement methods) and management tools (integrated indices) with regard to the integrated monitoring approach were suggested.

Assessing Student Behaviors and Motivation for Actively Learning Biology

Science.gov (United States)

Moore, Michael Edward

Vision and Change states that one of the major changes in the way we design biology courses should be a switch in approach from teacher-centered learning to student-centered learning and identifies active learning as a recommended methods. Studies show performance benefits for students taking courses that use active learning. What is unknown is why active learning is such an effective instructional tool and the limits of this instructional method’s ability to influence performance. This dissertation builds a case in three steps for why active learning is an effective instructional tool. In step one, I assessed the influence of different types of active learning (clickers, group activities, and whole class discussions) on student engagement behavior in one semester of two different introductory biology courses and found that active learning positively influenced student engagement behavior significantly more than lecture. For step two, I examined over four semesters whether student engagement behavior was a predictor of performance and found participation (engagement behavior) in the online (video watching) and in-class course activities (clicker participation) that I measure were significant predictors of performance. In the third, I assessed whether certain active learning satisfied the psychological needs that lead to students’ intrinsic motivation to participate in those activities when compared over two semesters and across two different institutions of higher learning. Findings from this last step show us that student’s perceptions of autonomy, competency, and relatedness in doing various types of active learning are significantly higher than lecture and consistent across two institutions of higher learning. Lastly, I tie everything together, discuss implications of the research, and address future directions for research on biology student motivation and behavior.

Shoreline clean-up methods : biological treatments

Energy Technology Data Exchange (ETDEWEB)

Massoura, S.T. [Oil Spill Response Limited, Southampton (United Kingdom)

2009-07-01

The cleanup of oil spills in shoreline environments is a challenging issue worldwide. Oil spills receive public and media attention, particularly in the event of a coastal impact. It is important to evaluate the efficiency and effectiveness of cleanup methods when defining the level of effort and consequences that are appropriate to remove or treat different types of oil on different shoreline substrates. Of the many studies that have compared different mechanical, chemical and biological treatments for their effectiveness on various types of oil, biological techniques have received the most attention. For that reason, this paper evaluated the effectiveness and effects of shoreline cleanup methods using biological techniques. It summarized data from field experiments and oil spill incidents, including the Exxon Valdez, Sea Empress, Prestige, Grand Eagle, Nakhodka, Guanabara Bay and various Gulf war oil spills. Five major shoreline types were examined, notably rocky intertidal, cobble/pebble/gravel, sand/mud, saltmarsh, and mangrove/sea-grass. The biological techniques that were addressed were nutrient enrichment, hydrocarbon-utilizing bacteria, vegetable oil biosolvents, plants, surf washing, oil-particle interactions and natural attenuation. The study considered the oil type, volume and fate of stranded oil, location of coastal materials, extent of pollution and the impact of biological techniques. The main factors that affect biodegradation of hydrocarbons are the volume, chemical composition and weathering state of the petroleum product as well as the temperature, oxygen availability of nutrients, water salinity, pH level, water content, and microorganisms in the shoreline environment. The interaction of these factors also affect the biodegradation of oil. It was concluded that understanding the fate of stranded oil can help in the development of techniques that improve the weathering and degradation of oil on complex shoreline substrates. 39 refs.

Strategies for Assessment of the Biological Performance and Design of Hydroturbines

Energy Technology Data Exchange (ETDEWEB)

Carlson, Thomas J.; Richmond, Marshall C.

2011-05-05

The biological response of fish to turbine passage has been of concern for several decades and emphasized recently by consideration of hydro as a 'green' power source. The current state-of-the-art of hydro-turbine biological performance assessment, while still inadequate, has advanced considerably the past 10 years. For example, the importance of assessment of exposure to pressure changes during turbine passage has been emphasized by findings of laboratory studies of rapid decompression. It is now very clear that hydroturbine biological assessment must consider the physiological state and behavior of fish at turbine entry and changes in physiological state that drive aspects of behavior during tailrace passage. Such considerations are in addition to concerns about exposure of fish to mechanical and pressure sources of injury during turbine passage. Experimental designs and assessment tools have evolved for acclimation of test fish, observation of test fish behavior at approach and upon exit from the turbine environment, and precise estimation of turbine passage mortality. Fish condition assessment continues to improve permitting better classification of observed injuries to injury mechanisms. Computational fluid dynamics (CFD) models and other computer models permit detailed investigation of the turbine passage environment and development of hypotheses that can be tested in field studies using live fish. Risk assessment techniques permit synthesis of laboratory and in-field study findings and estimation of population level effects over a wide range of turbine operation scenarios. Risk assessment is also evolving to provide input to turbine runner design. These developments, and others, have resulted in more productive biological performance assessment studies and will continue to evolve and improve the quantity and quality of information obtained from costly live fish hydroturbine passage studies. This paper reviews the history of hydro-turbine biological

Biological methods for assessment of budbreak in apple trees for modeling dormancy

Directory of Open Access Journals (Sweden)

Rafael Anzanello

2014-06-01

Full Text Available A biological method was developed to evaluate the dormancy state of apple buds under controlled conditions. Cuttings (20-25 cm long of ‘Castel Gala’ and ‘Royal Gala’ were sampled during the winter period, evaluating different cold and heat regimes to induce budbreak. Contrasts were tested in plant material processing (single node x intact cuttings, cold storage method to break dormancy in incubator chambers (planted in pots with floral foam x wrapped in plastic film, vertically or horizontally and budbreak method in plant growth chambers (base immersed in water x planted in floral foam. Intact cuttings stored vertically in the cold represented better the natural interactions between buds than single node cuttings. Budbreak of lateral buds was strongly influenced by apical dominance. Wrapping cuttings in plastic film optimized internal space usage in the incubators and the number of evaluated buds, compared to planting cuttings in pots. During the warm period in the growth chambers, intact cuttings on floral foam resulted in better bud preservation and survival throughout the evaluation period, compared to cuttings with bases immersed in water. The most suitable conditions to evaluate dormancy evolution in apple buds used plastic-wrapped intact cuttings stored vertically during the cold period, with budbreak evaluation in the warm period after planting the cuttings in floral foam. Standardization of methodology helps to obtain better results in the development of physiological models of dormancy.

Simple Calculation Programs for Biology Methods in Molecular ...

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. Simple Calculation Programs for Biology Methods in Molecular Biology. GMAP: A program for mapping potential restriction sites. RE sites in ambiguous and non-ambiguous DNA sequence; Minimum number of silent mutations required for introducing a RE sites; Set ...

Aquatic ecosystem protection and restoration: Advances in methods for assessment and evaluation

Science.gov (United States)

Bain, M.B.; Harig, A.L.; Loucks, D.P.; Goforth, R.R.; Mills, K.E.

2000-01-01

Many methods and criteria are available to assess aquatic ecosystems, and this review focuses on a set that demonstrates advancements from community analyses to methods spanning large spatial and temporal scales. Basic methods have been extended by incorporating taxa sensitivity to different forms of stress, adding measures linked to system function, synthesizing multiple faunal groups, integrating biological and physical attributes, spanning large spatial scales, and enabling simulations through time. These tools can be customized to meet the needs of a particular assessment and ecosystem. Two case studies are presented to show how new methods were applied at the ecosystem scale for achieving practical management goals. One case used an assessment of biotic structure to demonstrate how enhanced river flows can improve habitat conditions and restore a diverse fish fauna reflective of a healthy riverine ecosystem. In the second case, multitaxonomic integrity indicators were successful in distinguishing lake ecosystems that were disturbed, healthy, and in the process of restoration. Most methods strive to address the concept of biological integrity and assessment effectiveness often can be impeded by the lack of more specific ecosystem management objectives. Scientific and policy explorations are needed to define new ways for designating a healthy system so as to allow specification of precise quality criteria that will promote further development of ecosystem analysis tools.

Simple Calculation Programs for Biology Other Methods

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. Simple Calculation Programs for Biology Other Methods. Hemolytic potency of drugs. Raghava et al., (1994) Biotechniques 17: 1148. FPMAP: methods for classification and identification of microorganisms 16SrRNA. graphical display of restriction and fragment map of ...

Assessing Probabilistic Risk Assessment Approaches for Insect Biological Control Introductions.

Science.gov (United States)

Kaufman, Leyla V; Wright, Mark G

2017-07-07

The introduction of biological control agents to new environments requires host specificity tests to estimate potential non-target impacts of a prospective agent. Currently, the approach is conservative, and is based on physiological host ranges determined under captive rearing conditions, without consideration for ecological factors that may influence realized host range. We use historical data and current field data from introduced parasitoids that attack an endemic Lepidoptera species in Hawaii to validate a probabilistic risk assessment (PRA) procedure for non-target impacts. We use data on known host range and habitat use in the place of origin of the parasitoids to determine whether contemporary levels of non-target parasitism could have been predicted using PRA. Our results show that reasonable predictions of potential non-target impacts may be made if comprehensive data are available from places of origin of biological control agents, but scant data produce poor predictions. Using apparent mortality data rather than marginal attack rate estimates in PRA resulted in over-estimates of predicted non-target impact. Incorporating ecological data into PRA models improved the predictive power of the risk assessments.

Mixed-Methods Design in Biology Education Research: Approach and Uses.

Science.gov (United States)

Warfa, Abdi-Rizak M

Educational research often requires mixing different research methodologies to strengthen findings, better contextualize or explain results, or minimize the weaknesses of a single method. This article provides practical guidelines on how to conduct such research in biology education, with a focus on mixed-methods research (MMR) that uses both quantitative and qualitative inquiries. Specifically, the paper provides an overview of mixed-methods design typologies most relevant in biology education research. It also discusses common methodological issues that may arise in mixed-methods studies and ways to address them. The paper concludes with recommendations on how to report and write about MMR. © 2016 L. A.-R. M. Warfa. CBE—Life Sciences Education © 2016 The American Society for Cell Biology. This article is distributed by The American Society for Cell Biology under license from the author(s). It is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

A New Method for Post-introduction Risk Assessment of Biological Invasions Among Introduced Shrubs in Developing Countries.

Science.gov (United States)

Seburanga, J L; Bizuru, E; Mwavu, E N; Kampungu, K G; Gatesire, T; Kaplin, B A

2016-03-01

Risk-assessment methods are useful in collecting data that can help decision making to prevent the introduction of new species that have the potential of invading as well as in management of established taxa. Not only the complexity and unaffordability of available pre-introduction risk-assessment models make them rarely or inconsistently applied in the least-developed countries, but also there is lack of tools to assess the status of already introduced plant species. In this study, an affordable and rapid method of assessment of invasiveness among introduced plant species was developed and tested in Rwanda. This method defines three invasion stages (potential, effective, and suppressive invaders) and four levels of risk assessment: post-introduction assessment of species inherent invasive potential (Level 1), post-establishment assessment of species capacity of regeneration (Level 2), post-naturalization assessment of species range of occurrence and ability for long-distance dispersal (Level 3), and post-naturalization assessment of species ability to outcompete other plants in the community and transform the landscape (Level 4). A review of invasive species in Rwanda was developed through desk review, examination of herbarium records, and vegetation surveys. This method should be applicable in other countries that lack the means for a more conventional scientific investigation or under any circumstance where a quick and inexpensive assessment is needed. The method could be useful to environmental managers for timely intervention with strategies specific to different stages of invasion (post-introduction, post-establishment, or post-naturalization) and allocate resources accordingly.

A Test of the Relationship between Reading Ability & Standardized Biology Assessment Scores

Science.gov (United States)

Allen, Denise A.

2014-01-01

Little empirical evidence suggested that independent reading abilities of students enrolled in biology predicted their performance on the Biology I Graduation End-of-Course Assessment (ECA). An archival study was conducted at one Indiana urban public high school in Indianapolis, Indiana, by examining existing educational assessment data to test…

Comparative systems biology between human and animal models based on next-generation sequencing methods.

Science.gov (United States)

Zhao, Yu-Qi; Li, Gong-Hua; Huang, Jing-Fei

2013-04-01

Animal models provide myriad benefits to both experimental and clinical research. Unfortunately, in many situations, they fall short of expected results or provide contradictory results. In part, this can be the result of traditional molecular biological approaches that are relatively inefficient in elucidating underlying molecular mechanism. To improve the efficacy of animal models, a technological breakthrough is required. The growing availability and application of the high-throughput methods make systematic comparisons between human and animal models easier to perform. In the present study, we introduce the concept of the comparative systems biology, which we define as "comparisons of biological systems in different states or species used to achieve an integrated understanding of life forms with all their characteristic complexity of interactions at multiple levels". Furthermore, we discuss the applications of RNA-seq and ChIP-seq technologies to comparative systems biology between human and animal models and assess the potential applications for this approach in the future studies.

Assessing Probabilistic Risk Assessment Approaches for Insect Biological Control Introductions

Directory of Open Access Journals (Sweden)

Leyla V. Kaufman

2017-07-01

Full Text Available The introduction of biological control agents to new environments requires host specificity tests to estimate potential non-target impacts of a prospective agent. Currently, the approach is conservative, and is based on physiological host ranges determined under captive rearing conditions, without consideration for ecological factors that may influence realized host range. We use historical data and current field data from introduced parasitoids that attack an endemic Lepidoptera species in Hawaii to validate a probabilistic risk assessment (PRA procedure for non-target impacts. We use data on known host range and habitat use in the place of origin of the parasitoids to determine whether contemporary levels of non-target parasitism could have been predicted using PRA. Our results show that reasonable predictions of potential non-target impacts may be made if comprehensive data are available from places of origin of biological control agents, but scant data produce poor predictions. Using apparent mortality data rather than marginal attack rate estimates in PRA resulted in over-estimates of predicted non-target impact. Incorporating ecological data into PRA models improved the predictive power of the risk assessments.

Using biological and physico-chemical test methods to assess the role of concrete mixture design in resistance to microbially induced corrosion

Science.gov (United States)

House, Mitchell Wayne

Concrete is the most widely used material for construction of wastewater collection, storage, and treatment infrastructure. The chemical and physical characteristics of hydrated portland cement make it susceptible to degradation under highly acidic conditions. As a result, some concrete wastewater infrastructure may be susceptible to a multi-stage degradation process known as microbially induced corrosion, or MIC. MIC begins with the production of aqueous hydrogen sulfide (H2S(aq)) by anaerobic sulfate reducing bacteria present below the waterline. H2S(aq) partitions to the gas phase where it is oxidized to sulfuric acid by the aerobic sulfur oxidizing bacteria Thiobacillus that resides on concrete surfaces above the waterline. Sulfuric acid then attacks the cement paste portion of the concrete matrix through decalcification of calcium hydroxide and calcium silica hydrate coupled with the formation of expansive corrosion products. The attack proceeds inward resulting in reduced service life and potential failure of the concrete structure. There are several challenges associated with assessing a concrete's susceptibility to MIC. First, no standard laboratory tests exist to assess concrete resistance to MIC. Straightforward reproduction of MIC in the laboratory is complicated by the use of microorganisms and hydrogen sulfide gas. Physico-chemical tests simulating MIC by immersing concrete specimens in sulfuric acid offer a convenient alternative, but do not accurately capture the damage mechanisms associated with biological corrosion. Comparison of results between research studies is difficult due to discrepancies that can arise in experimental methods even if current ASTM standards are followed. This thesis presents two experimental methods to evaluate concrete resistance to MIC: one biological and one physico-chemical. Efforts are made to address the critical aspects of each testing method currently absent in the literature. The first method presented is a new test

The use of drawing as an alternative assessment tool in biology teaching

Science.gov (United States)

Nugraha, I.

2018-05-01

Science required the recording of data to build knowledge. The act of drawing an illustration is one of the oldest methods to record the data in science. Illustration in science provides information that the written word cannot, hence the old adage “A picture is worth a thousand words” is very important for studying science. Drawings an illustration is not only valuable for artists but also for scientists because some aspects of science process skills can also be developed through drawing. In terms of science teaching, applying the act of drawing can also be used as an assessment tool. In this study, we assessed drawing of human internal organs of 38 student teachers who enrolled human physiology course and its correlation to their final exam achievement. Guidance of biological drawing was employed to assess the quality, labelling, and annotations of the drawing. The finding of this study showed that there was a positive correlation between the quality of drawing and final exam achievement. It is suggested that using the method of drawing in combination with written responses assessment would provide a more complete information about student’s understanding of human internal organs.

Prospective Technology Assessment of Synthetic Biology: Fundamental and Propaedeutic Reflections in Order to Enable an Early Assessment.

Science.gov (United States)

Schmidt, Jan Cornelius

2016-08-01

Synthetic biology is regarded as one of the key technosciences of the future. The goal of this paper is to present some fundamental considerations to enable procedures of a technology assessment (TA) of synthetic biology. To accomplish such an early "upstream" assessment of a not yet fully developed technology, a special type of TA will be considered: Prospective TA (ProTA). At the center of ProTA are the analysis and the framing of "synthetic biology," including a characterization and assessment of the technological core. The thesis is that if there is any differentia specifica giving substance to the umbrella term "synthetic biology," it is the idea of harnessing self-organization for engineering purposes. To underline that we are likely experiencing an epochal break in the ontology of technoscientific systems, this new type of technology is called "late-modern technology." -I start this paper by analyzing the three most common visions of synthetic biology. Then I argue that one particular vision deserves more attention because it underlies the others: the vision of self-organization. I discuss the inherent limits of this new type of late-modern technology in the attempt to control and monitor possible risk issues. I refer to Hans Jonas' ethics and his early anticipation of the risks of a novel type of technology. I end by drawing conclusions for the approach of ProTA towards an early societal shaping of synthetic biology.

Mixed-Methods Design in Biology Education Research: Approach and Uses

Science.gov (United States)

Warfa, Abdi-Rizak M.

2016-01-01

Educational research often requires mixing different research methodologies to strengthen findings, better contextualize or explain results, or minimize the weaknesses of a single method. This article provides practical guidelines on how to conduct such research in biology education, with a focus on mixed-methods research (MMR) that uses both quantitative and qualitative inquiries. Specifically, the paper provides an overview of mixed-methods design typologies most relevant in biology education research. It also discusses common methodological issues that may arise in mixed-methods studies and ways to address them. The paper concludes with recommendations on how to report and write about MMR. PMID:27856556

Field Application of the Micro Biological Survey Method for a Simple and Effective Assessment of the Microbiological Quality of Water Sources in Developing Countries.

Science.gov (United States)

Arienzo, Alyexandra; Sobze, Martin Sanou; Wadoum, Raoul Emeric Guetiya; Losito, Francesca; Colizzi, Vittorio; Antonini, Giovanni

2015-08-25

According to the World Health Organization (WHO) guidelines, "safe drinking-water must not represent any significant risk to health over a lifetime of consumption, including different sensitivities that may occur between life stages". Traditional methods of water analysis are usually complex, time consuming and require an appropriately equipped laboratory, specialized personnel and expensive instrumentation. The aim of this work was to apply an alternative method, the Micro Biological Survey (MBS), to analyse for contaminants in drinking water. Preliminary experiments were carried out to demonstrate the linearity and accuracy of the MBS method and to verify the possibility of using the evaluation of total coliforms in 1 mL of water as a sufficient parameter to roughly though accurately determine water microbiological quality. The MBS method was then tested "on field" to assess the microbiological quality of water sources in the city of Douala (Cameroon, Central Africa). Analyses were performed on both dug and drilled wells in different periods of the year. Results confirm that the MBS method appears to be a valid and accurate method to evaluate the microbiological quality of many water sources and it can be of valuable aid in developing countries.

Biologic data, models, and dosimetric methods for internal emitters

International Nuclear Information System (INIS)

Weber, D.A.

1990-01-01

The absorbed radiation dose from internal emitters has been and will remain a pivotal factor in assessing risk and therapeutic utility in selecting radiopharmaceuticals for diagnosis and treatment. Although direct measurements of absorbed dose and dose distributions in vivo have been and will continue to be made in limited situations, the measurement of the biodistribution and clearance of radiopharmaceuticals in human subjects and the use of this data is likely to remain the primary means to approach the calculation and estimation of absorbed dose from internal emitters over the next decade. Since several approximations are used in these schema to calculate dose, attention must be given to inspecting and improving the application of this dosimetric method as better techniques are developed to assay body activity and as more experience is gained in applying these schema to calculating absorbed dose. Discussion of the need for considering small scale dosimetry to calculate absorbed dose at the cellular level will be presented in this paper. Other topics include dose estimates for internal emitters, biologic data mathematical models and dosimetric methods employed. 44 refs

Quantitative assessment of biological impact using transcriptomic data and mechanistic network models

International Nuclear Information System (INIS)

Thomson, Ty M.; Sewer, Alain; Martin, Florian; Belcastro, Vincenzo; Frushour, Brian P.; Gebel, Stephan; Park, Jennifer; Schlage, Walter K.; Talikka, Marja; Vasilyev, Dmitry M.; Westra, Jurjen W.; Hoeng, Julia; Peitsch, Manuel C.

2013-01-01

Exposure to biologically active substances such as therapeutic drugs or environmental toxicants can impact biological systems at various levels, affecting individual molecules, signaling pathways, and overall cellular processes. The ability to derive mechanistic insights from the resulting system responses requires the integration of experimental measures with a priori knowledge about the system and the interacting molecules therein. We developed a novel systems biology-based methodology that leverages mechanistic network models and transcriptomic data to quantitatively assess the biological impact of exposures to active substances. Hierarchically organized network models were first constructed to provide a coherent framework for investigating the impact of exposures at the molecular, pathway and process levels. We then validated our methodology using novel and previously published experiments. For both in vitro systems with simple exposure and in vivo systems with complex exposures, our methodology was able to recapitulate known biological responses matching expected or measured phenotypes. In addition, the quantitative results were in agreement with experimental endpoint data for many of the mechanistic effects that were assessed, providing further objective confirmation of the approach. We conclude that our methodology evaluates the biological impact of exposures in an objective, systematic, and quantifiable manner, enabling the computation of a systems-wide and pan-mechanistic biological impact measure for a given active substance or mixture. Our results suggest that various fields of human disease research, from drug development to consumer product testing and environmental impact analysis, could benefit from using this methodology. - Highlights: • The impact of biologically active substances is quantified at multiple levels. • The systems-level impact integrates the perturbations of individual networks. • The networks capture the relationships between

Biological detector and method

Science.gov (United States)

Sillerud, Laurel; Alam, Todd M; McDowell, Andrew F

2013-02-26

A biological detector includes a conduit for receiving a fluid containing one or more magnetic nanoparticle-labeled, biological objects to be detected and one or more permanent magnets or electromagnet for establishing a low magnetic field in which the conduit is disposed. A microcoil is disposed proximate the conduit for energization at a frequency that permits detection by NMR spectroscopy of whether the one or more magnetically-labeled biological objects is/are present in the fluid.

Synthetic Methods and Exploring Biological Potential of Various Substituted Quinoxalin-2-one Derivatives

OpenAIRE

Mohammad Asif

2016-01-01

Substituted quinoxaline have considerable interest in chemistry, biology and pharmacology. Quinoxaline derivatives are capable with variety of biological activities and possess different biological activities, of which the most potent are anti-microbial, analgesic and anti-inflammatory activities. It facilitated the researchers to develop various methods for their synthesis and their applications. In this review represented different methods of synthesis, reactivity and various biological act...

Assessing Students' Performances in Decision-Making: Coping Strategies of Biology Teachers

Science.gov (United States)

Steffen, Benjamin; Hößle, Corinna

2017-01-01

Decision-making in socioscientific issues (SSI) constitutes a real challenge for both biology teachers and learners. The assessment of students' performances in SSIs constitutes a problem, especially for biology teachers. The study at hand was conducted in Germany and uses a qualitative approach following the research procedures of grounded theory…

Grays River Watershed and Biological Assessment Final Report 2006.

Energy Technology Data Exchange (ETDEWEB)

May, Christopher W.; McGrath, Kathleen E.; Geist, David R. [Pacific Northwest National Laboratory; Abbe, Timothy; Barton, Chase [Herrera Environmental Consultants, Inc.

2008-02-04

The Grays River Watershed and Biological Assessment was funded to address degradation and loss of spawning habitat for chum salmon (Onchorhynchus keta) and fall Chinook salmon (Onchoryhnchus tshawytscha). In 1999, the National Marine Fisheries Service listed lower Columbia River chum salmon as a threatened Evolutionarily Significant Unit (ESU) under the Endangered Species Act of 1973 (ESA). The Grays River watershed is one of two remaining significant chum salmon spawning locations in this ESU. Runs of Grays River chum and Chinook salmon have declined significantly during the past century, largely because of damage to spawning habitat associated with timber harvest and agriculture in the watershed. In addition, approximately 20-25% of the then-remaining chum salmon spawning habitat was lost during a 1999 channel avulsion that destroyed an important artificial spawning channel operated by the Washington Department of Fish and Wildlife (WDFW). Although the lack of stable, high-quality spawning habitat is considered the primary physical limitation on Grays River chum salmon production today, few data are available to guide watershed management and channel restoration activities. The objectives of the Grays River Watershed and Biological Assessment project were to (1) perform a comprehensive watershed and biological analysis, including hydrologic, geomorphic, and ecological assessments; (2) develop a prioritized list of actions that protect and restore critical chum and Chinook salmon spawning habitat in the Grays River based on comprehensive geomorphic, hydrologic, and stream channel assessments; and (3) gain a better understanding of chum and Chinook salmon habitat requirements and survival within the lower Columbia River and the Grays River. The watershed-based approach to river ecosystem restoration relies on a conceptual framework that describes general relationships between natural landscape characteristics, watershed-scale habitat-forming processes, aquatic

Grays River Watershed and Biological Assessment, 2006 Final Report.

Energy Technology Data Exchange (ETDEWEB)

May, Christopher; Geist, David [Pacific Northwest National Laboratory

2007-04-01

The Grays River Watershed and Biological Assessment was funded to address degradation and loss of spawning habitat for chum salmon (Onchorhynchus keta) and fall Chinook salmon (Onchoryhnchus tshawytscha). In 1999, the National Marine Fisheries Service listed lower Columbia River chum salmon as a threatened Evolutionarily Significant Unit (ESU) under the Endangered Species Act of 1973 (ESA). The Grays River watershed is one of two remaining significant chum salmon spawning locations in this ESU. Runs of Grays River chum and Chinook salmon have declined significantly during the past century, largely because of damage to spawning habitat associated with timber harvest and agriculture in the watershed. In addition, approximately 20-25% of the then-remaining chum salmon spawning habitat was lost during a 1999 channel avulsion that destroyed an important artificial spawning channel operated by the Washington Department of Fish and Wildlife (WDFW). Although the lack of stable, high-quality spawning habitat is considered the primary physical limitation on Grays River chum salmon production today, few data are available to guide watershed management and channel restoration activities. The objectives of the Grays River Watershed and Biological Assessment project were to (1) perform a comprehensive watershed and biological analysis, including hydrologic, geomorphic, and ecological assessments; (2) develop a prioritized list of actions that protect and restore critical chum and Chinook salmon spawning habitat in the Grays River based on comprehensive geomorphic, hydrologic, and stream channel assessments; and (3) gain a better understanding of chum and Chinook salmon habitat requirements and survival within the lower Columbia River and the Grays River. The watershed-based approach to river ecosystem restoration relies on a conceptual framework that describes general relationships between natural landscape characteristics, watershed-scale habitat-forming processes, aquatic

Evaluation of the Teaching Methods Used in Secondary School Biology Lessons

Directory of Open Access Journals (Sweden)

Porozovs Juris

2015-06-01

Full Text Available The teacher’s skills in conducting the lesson and choice of teaching methods play an essential role in creating students’ interest in biology. The aim of the research was to study the opinion of secondary school students and biology teachers regarding the most successful teaching methods used in biology lessons and viable options to make biology lessons more interesting. The research comprised polling students and biology teachers from several schools, namely: 2 secondary schools in Jelgava, 2 in Riga and 1 in Vecumnieki. The responses revealed that 58% of students find biology lessons interesting. 56% of students indicated that their ability to focus attention during biology lessons depends on the task presented to them. Most of all they prefer watching the teacher’s presentations, listening to their teacher telling about the actual topic as well as performing laboratory work and group-work. Many students like participating in discussions, whereas a far smaller number would do various exercises, individual tasks, fill out worksheets or complete projects. Least of all students wish to work with the textbook. The methods most frequently applied by teachers are as follows: lecture, explanation, demonstration, and discussion. Teachers believe that their students prefer laboratory work and discussions as well as listening to their teacher and watching presentations or films. They also indicate at the necessity to link theory with practice and to involve information technologies. While teaching their subject biology teachers try to establish relationship between theory and real life in order to develop their students’ interest in natural processes.

Using the Scientific Method to Motivate Biology Students to Study Precalculus

Science.gov (United States)

Fulton, James P.; Sabatino, Linda

2008-01-01

During the last two years we have developed a precalculus course customized around biology by using the scientific method as a framework to engage and motivate biology students. Historically, the precalculus and calculus courses required for the Suffolk County Community College biology curriculum were designed using examples from the physical…

Quantum mechanical simulation methods for studying biological systems

International Nuclear Information System (INIS)

Bicout, D.; Field, M.

1996-01-01

Most known biological mechanisms can be explained using fundamental laws of physics and chemistry and a full understanding of biological processes requires a multidisciplinary approach in which all the tools of biology, chemistry and physics are employed. An area of research becoming increasingly important is the theoretical study of biological macromolecules where numerical experimentation plays a double role of establishing a link between theoretical models and predictions and allowing a quantitative comparison between experiments and models. This workshop brought researchers working on different aspects of the development and application of quantum mechanical simulation together, assessed the state-of-the-art in the field and highlighted directions for future research. Fourteen lectures (theoretical courses and specialized seminars) deal with following themes: 1) quantum mechanical calculations of large systems, 2) ab initio molecular dynamics where the calculation of the wavefunction and hence the energy and forces on the atoms for a system at a single nuclear configuration are combined with classical molecular dynamics algorithms in order to perform simulations which use a quantum mechanical potential energy surface, 3) quantum dynamical simulations, electron and proton transfer processes in proteins and in solutions and finally, 4) free seminars that helped to enlarge the scope of the workshop. (N.T.)

Ultrasound viscoelasticity assessment using an adaptive torsional shear wave propagation method

Energy Technology Data Exchange (ETDEWEB)

Ouared, Abderrahmane [Laboratory of Biorheology and Medical Ultrasonics, University of Montréal Hospital Research Center (CRCHUM), Montréal, Québec H2X 0A9, Canada and Institute of Biomedical Engineering, University of Montréal, Montréal, Québec H3T 1J4 (Canada); Kazemirad, Siavash; Montagnon, Emmanuel [Laboratory of Biorheology and Medical Ultrasonics, University of Montréal Hospital Research Center (CRCHUM), Montréal, Québec H2X 0A9 (Canada); Cloutier, Guy, E-mail: guy.cloutier@umontreal.ca [Laboratory of Biorheology and Medical Ultrasonics, University of Montréal Hospital Research Center (CRCHUM), Montréal, Québec H2X 0A9 (Canada); Department of Radiology, Radio-Oncology and Nuclear Medicine, University of Montréal, Montréal, Québec H3T 1J4 (Canada); Institute of Biomedical Engineering, University of Montréal, Montréal, Québec H3T 1J4 (Canada)

2016-04-15

Purpose: Different approaches have been used in dynamic elastography to assess mechanical properties of biological tissues. Most techniques are based on a simple inversion based on the measurement of the shear wave speed to assess elasticity, whereas some recent strategies use more elaborated analytical or finite element method (FEM) models. In this study, a new method is proposed for the quantification of both shear storage and loss moduli of confined lesions, in the context of breast imaging, using adaptive torsional shear waves (ATSWs) generated remotely with radiation pressure. Methods: A FEM model was developed to solve the inverse wave propagation problem and obtain viscoelastic properties of interrogated media. The inverse problem was formulated and solved in the frequency domain and its robustness to noise and geometric constraints was evaluated. The proposed model was validated in vitro with two independent rheology methods on several homogeneous and heterogeneous breast tissue-mimicking phantoms over a broad range of frequencies (up to 400 Hz). Results: Viscoelastic properties matched benchmark rheology methods with discrepancies of 8%–38% for the shear modulus G′ and 9%–67% for the loss modulus G″. The robustness study indicated good estimations of storage and loss moduli (maximum mean errors of 19% on G′ and 32% on G″) for signal-to-noise ratios between 19.5 and 8.5 dB. Larger errors were noticed in the case of biases in lesion dimension and position. Conclusions: The ATSW method revealed that it is possible to estimate the viscoelasticity of biological tissues with torsional shear waves when small biases in lesion geometry exist.

Revised Methods for Characterizing Stream Habitat in the National Water-Quality Assessment Program

Science.gov (United States)

Fitzpatrick, Faith A.; Waite, Ian R.; D'Arconte, Patricia J.; Meador, Michael R.; Maupin, Molly A.; Gurtz, Martin E.

1998-01-01

Stream habitat is characterized in the U.S. Geological Survey's National Water-Quality Assessment (NAWQA) Program as part of an integrated physical, chemical, and biological assessment of the Nation's water quality. The goal of stream habitat characterization is to relate habitat to other physical, chemical, and biological factors that describe water-quality conditions. To accomplish this goal, environmental settings are described at sites selected for water-quality assessment. In addition, spatial and temporal patterns in habitat are examined at local, regional, and national scales. This habitat protocol contains updated methods for evaluating habitat in NAWQA Study Units. Revisions are based on lessons learned after 6 years of applying the original NAWQA habitat protocol to NAWQA Study Unit ecological surveys. Similar to the original protocol, these revised methods for evaluating stream habitat are based on a spatially hierarchical framework that incorporates habitat data at basin, segment, reach, and microhabitat scales. This framework provides a basis for national consistency in collection techniques while allowing flexibility in habitat assessment within individual Study Units. Procedures are described for collecting habitat data at basin and segment scales; these procedures include use of geographic information system data bases, topographic maps, and aerial photographs. Data collected at the reach scale include channel, bank, and riparian characteristics.

Ethics and methods for biological rhythm research on animals and human beings.

Science.gov (United States)

Portaluppi, Francesco; Smolensky, Michael H; Touitou, Yvan

2010-10-01

This article updates the ethical standards and methods for the conduct of high-quality animal and human biological rhythm research, which should be especially useful for new investigators of the rhythms of life. The editors of Chronobiology International adhere to and endorse the Code of Conduct and Best Practice Guidelines of the Committee On Publication Ethics (COPE), which encourages communication of such updates at regular intervals in the journal. The journal accepts papers representing original work, no part of which was previously submitted for publication elsewhere, except as brief abstracts, as well as in-depth reviews. The majority of research papers published in Chronobiology International entails animal and human investigations. The editors and readers of the journal expect authors of submitted manuscripts to have made an important contribution to the research of biological rhythms and related phenomena using ethical methods/procedures and unbiased, accurate, and honest reporting of findings. Authors of scientific papers are required to declare all potential conflicts of interest. The journal and its editors endorse compliance of investigators to the Guide for the Care and Use of Laboratory Animals of the Institute for Laboratory Animal Research of the National Research Council, relating to the conduct of ethical research on laboratory and other animals, and the principles of the Declaration of Helsinki of the World Medical Association, relating to the conduct of ethical research on human beings. The peer review of manuscripts by Chronobiology International thus includes judgment as to whether or not the protocols and methods conform to ethical standards. Authors are expected to show mastery of the basic methods and procedures of biological rhythm research and proper statistical assessment of data, including the appropriate application of time series data analyses, as briefly reviewed in this article. The journal editors strive to consistently achieve

The problem of assessing landmark error in geometric morphometrics: theory, methods, and modifications.

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von Cramon-Taubadel, Noreen; Frazier, Brenda C; Lahr, Marta Mirazón

2007-09-01

Geometric morphometric methods rely on the accurate identification and quantification of landmarks on biological specimens. As in any empirical analysis, the assessment of inter- and intra-observer error is desirable. A review of methods currently being employed to assess measurement error in geometric morphometrics was conducted and three general approaches to the problem were identified. One such approach employs Generalized Procrustes Analysis to superimpose repeatedly digitized landmark configurations, thereby establishing whether repeat measures fall within an acceptable range of variation. The potential problem of this error assessment method (the "Pinocchio effect") is demonstrated and its effect on error studies discussed. An alternative approach involves employing Euclidean distances between the configuration centroid and repeat measures of a landmark to assess the relative repeatability of individual landmarks. This method is also potentially problematic as the inherent geometric properties of the specimen can result in misleading estimates of measurement error. A third approach involved the repeated digitization of landmarks with the specimen held in a constant orientation to assess individual landmark precision. This latter approach is an ideal method for assessing individual landmark precision, but is restrictive in that it does not allow for the incorporation of instrumentally defined or Type III landmarks. Hence, a revised method for assessing landmark error is proposed and described with the aid of worked empirical examples. (c) 2007 Wiley-Liss, Inc.

Assessing biological invasions in European Seas: Biological traits of the most widespread non-indigenous species

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Cardeccia, Alice; Marchini, Agnese; Occhipinti-Ambrogi, Anna; Galil, Bella; Gollasch, Stephan; Minchin, Dan; Narščius, Aleksas; Olenin, Sergej; Ojaveer, Henn

2018-02-01

The biological traits of the sixty-eight most widespread multicellular non-indigenous species (MWNIS) in European Seas: Baltic Sea, Western European Margin of the Atlantic Ocean and the Mediterranean Sea were examined. Data for nine biological traits was analyzed, and a total of 41 separate categories were used to describe the biological and ecological functions of these NIS. Our findings show that high dispersal ability, high reproductive rate and ecological generalization are the biological traits commonly associated with MWNIS. The functional groups that describe most of the 68 MWNIS are: photoautotrophic, zoobenthic (both sessile and motile) and nektonic predatory species. However, these 'most widespread' species comprise a wide range of taxa and biological trait profiles; thereby a clear "identikit of a perfect invader" for marine and brackish environments is difficult to define. Some traits, for example: "life form", "feeding method" and "mobility", feature multiple behaviours and strategies. Even species introduced by a single pathway, e.g. vessels, feature diverse biological trait profiles. MWNIS likely to impact community organization, structure and diversity are often associated with brackish environments. For many traits ("life form", "sociability", "reproductive type", "reproductive frequency", "haploid and diploid dispersal" and "mobility"), the categories mostly expressed by the impact-causing MWNIS do not differ substantially from the whole set of MWNIS.

2010 Diffraction Methods in Structural Biology

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Dr. Ana Gonzalez

2011-03-10

Advances in basic methodologies have played a major role in the dramatic progress in macromolecular crystallography over the past decade, both in terms of overall productivity and in the increasing complexity of the systems being successfully tackled. The 2010 Gordon Research Conference on Diffraction Methods in Structural Biology will, as in the past, focus on the most recent developments in methodology, covering all aspects of the process from crystallization to model building and refinement, complemented by examples of structural highlights and complementary methods. Extensive discussion will be encouraged and it is hoped that all attendees will participate by giving oral or poster presentations, the latter using the excellent poster display area available at Bates College. The relatively small size and informal atmosphere of the meeting provides an excellent opportunity for all participants, especially younger scientists, to meet and exchange ideas with leading methods developers.

ACTIVE AND PARTICIPATORY METHODS IN BIOLOGY: PROBLEM-SOLVING

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Adela NEMEŞ

2010-01-01

Full Text Available We face with considerable challenge of developing students’ problem solving skills in our difficult environment. Good problem solving skills empower managers in their professional and personal lives. Problem solving skills are valued by academics and employers. The informations in Biology are often presented in abstract forms without contextualisation. Creative problem-solving process involves a few steps, which together provide a structured procedure for identifying challenges, generating ideas and implementing innovative solutions: identifying the problem, searching for possible solutions, selecting the most optimal solution and implementing a possible solution. Each aspect of personality has a different orientation to problem solving, different criteria for judging the effectiveness of the process and different associated strengths. Using real-world data in sample problems will also help facilitate the transfer process, since students can more easily identify with the context of a given situation. The paper describes the use of the Problem-Solving in Biology and the method of its administration. It also presents the results of a study undertaken to evaluate the value in teaching Biology. Problem-solving is seen as an essential skill that is developed in biology education.

Comparison Between Water Quality Index (WQI) and Biological Water Quality Index (BWQI) for Water Quality Assessment: Case Study of Melana River, Johor

International Nuclear Information System (INIS)

Nor Zaiha Arman; Mohd Ismid Mohd Said; Shamila Azman; Muhammad Hazim Mat Hussin

2013-01-01

A study of water quality in Melana River, Johor was carried out in three consecutive months (March - May 2012). This study aims to determine the comparative results through biological monitoring as well as conventional method (physical and chemical analysis). Assessment is carried out through collection and identification of the biological indicator which comprises of macro benthos based on Biological Water Quality Index (BWQI). Comparison was done based on two methods namely invertebrate analysis and also laboratory analysis. For invertebrate analysis, Melana River consist of three types of Family groups namely Nymphs, Larvae and Molluscs. The result for Water Quality Index (WQI) and also Biological Water Quality Index (BWQI) analysis showed that the level of Melana River is polluted and classified in Class III. This study shows that even though different methods were used, the similar results were obtained for both rivers and can be applied to any river to identify their level of cleanliness. (author)

Comprehension of complex biological processes by analytical methods: how far can we go using mass spectrometry?

International Nuclear Information System (INIS)

Gerner, C.

2013-01-01

Comprehensive understanding of complex biological processes is the basis for many biomedical issues of great relevance for modern society including risk assessment, drug development, quality control of industrial products and many more. Screening methods provide means for investigating biological samples without research hypothesis. However, the first boom of analytical screening efforts has passed and we again need to ask whether and how to apply screening methods. Mass spectrometry is a modern tool with unrivalled analytical capacities. This applies to all relevant characteristics of analytical methods such as specificity, sensitivity, accuracy, multiplicity and diversity of applications. Indeed, mass spectrometry qualifies to deal with complexity. Chronic inflammation is a common feature of almost all relevant diseases challenging our modern society; these diseases are apparently highly diverse and include arteriosclerosis, cancer, back pain, neurodegenerative diseases, depression and other. The complexity of mechanisms regulating chronic inflammation is the reason for the practical challenge to deal with it. The presentation shall give an overview of capabilities and limitations of the application of this analytical tool to solve critical questions with great relevance for our society. (author)

Systems-based biological concordance and predictive reproducibility of gene set discovery methods in cardiovascular disease.

Science.gov (United States)

Azuaje, Francisco; Zheng, Huiru; Camargo, Anyela; Wang, Haiying

2011-08-01

The discovery of novel disease biomarkers is a crucial challenge for translational bioinformatics. Demonstration of both their classification power and reproducibility across independent datasets are essential requirements to assess their potential clinical relevance. Small datasets and multiplicity of putative biomarker sets may explain lack of predictive reproducibility. Studies based on pathway-driven discovery approaches have suggested that, despite such discrepancies, the resulting putative biomarkers tend to be implicated in common biological processes. Investigations of this problem have been mainly focused on datasets derived from cancer research. We investigated the predictive and functional concordance of five methods for discovering putative biomarkers in four independently-generated datasets from the cardiovascular disease domain. A diversity of biosignatures was identified by the different methods. However, we found strong biological process concordance between them, especially in the case of methods based on gene set analysis. With a few exceptions, we observed lack of classification reproducibility using independent datasets. Partial overlaps between our putative sets of biomarkers and the primary studies exist. Despite the observed limitations, pathway-driven or gene set analysis can predict potentially novel biomarkers and can jointly point to biomedically-relevant underlying molecular mechanisms. Copyright © 2011 Elsevier Inc. All rights reserved.

Biological exposure assessment to tetrachloroethylene for workers in the dry cleaning industry

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Ashley David L

2008-04-01

Full Text Available Abstract Background The purpose of this study was to assess the feasibility of conducting biological tetrachloroethylene (perchloroethylene, PCE exposure assessments of dry cleaning employees in conjunction with evaluation of possible PCE health effects. Methods Eighteen women from four dry cleaning facilities in southwestern Ohio were monitored in a pilot study of workers with PCE exposure. Personal breathing zone samples were collected from each employee on two consecutive work days. Biological monitoring included a single measurement of PCE in blood and multiple measurements of pre- and post-shift PCE in exhaled breath and trichloroacetic acid (TCA in urine. Results Post-shift PCE in exhaled breath gradually increased throughout the work week. Statistically significant correlations were observed among the exposure indices. Decreases in PCE in exhaled breath and TCA in urine were observed after two days without exposure to PCE. A mixed-effects model identified statistically significant associations between PCE in exhaled breath and airborne PCE time weighted average (TWA after adjusting for a random participant effect and fixed effects of time and body mass index. Conclusion Although comprehensive, our sampling strategy was challenging to implement due to fluctuating work schedules and the number (pre- and post-shift on three consecutive days and multiplicity (air, blood, exhaled breath, and urine of samples collected. PCE in blood is the preferred biological index to monitor exposures, but may make recruitment difficult. PCE TWA sampling is an appropriate surrogate, although more field intensive. Repeated measures of exposure and mixed-effects modeling may be required for future studies due to high within-subject variability. Workers should be monitored over a long enough period of time to allow the use of a lag term.

Application of expert-notice dialogue (END) method to assess students’ science communication ability on biology

Science.gov (United States)

Sriyati, S.; Amelia, D. N.; Soniyana, G. T.

2018-05-01

Student’s science communication ability can be assessed by the Expert-Notice Dialogue (END) method which focusing on verbal explanations using graphs or images as a tool. This study aims to apply the END method to assess students’ science communication ability. The study was conducted in two high schools with each sample of one class at each school (A and B). The number of experts in class A is 8 students and 7 in class B, the number of notice in class A 24 students and 30 in class B. The material chosen for explanation by expert is Ecosystem in class A and plant classification in class B. Research instruments are rubric of science communication ability, observation rubric, notice concept test and notice questionnaire. The implementation recorded with a video camera and then transcribed based on rubric science communication ability. The results showed that the average of science communication ability in class A and B was 60% and 61.8%, respectively, in enough categories. Mastery of the notice concept is in good category with 79.10 averages in class A and 94.64 in class B. Through the questionnaire notice it is known that the END method generally helps notice in understanding the concept.

Chitin Extraction from Crustacean Shells Using Biological Methods – A Review

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Wassila Arbia

2013-01-01

Full Text Available After cellulose, chitin is the most widespread biopolymer in nature. Chitin and its derivatives have great economic value because of their biological activities and their industrial and biomedical applications. It can be extracted from three sources, namely crustaceans, insects and microorganisms. However, the main commercial sources of chitin are shells of crustaceans such as shrimps, crabs, lobsters and krill that are supplied in large quantities by the shellfish processing industries. Extraction of chitin involves two steps, demineralisation and deproteinisation, which can be conducted by two methods, chemical or biological. The chemical method requires the use of acids and bases, while the biological method involves microorganisms. Although lactic acid bacteria are mainly applied, other microbial species including proteolytic bacteria have also been successfully implemented, as well as mixed cultures involving lactic acid-producing bacteria and proteolytic microorganisms. The produced lactic acid allows shell demineralisation, since lactic acid reacts with calcium carbonate, the main mineral component, to form calcium lactate.

A comparative analysis of multiple-choice and student performance-task assessment in the high school biology classroom

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Cushing, Patrick Ryan

This study compared the performance of high school students on laboratory assessments. Thirty-four high school students who were enrolled in the second semester of a regular biology class or had completed the biology course the previous semester participated in this study. They were randomly assigned to examinations of two formats, performance-task and traditional multiple-choice, from two content areas, using a compound light microscope and diffusion. Students were directed to think-aloud as they performed the assessments. Additional verbal data were obtained during interviews following the assessment. The tape-recorded narrative data were analyzed for type and diversity of knowledge and skill categories, and percentage of in-depth processing demonstrated. While overall mean scores on the assessments were low, elicited statements provided additional insight into student cognition. Results indicated that a greater diversity of knowledge and skill categories was elicited by the two microscope assessments and by the two performance-task assessments. In addition, statements demonstrating in-depth processing were coded most frequently in narratives elicited during clinical interviews following the diffusion performance-task assessment. This study calls for individual teachers to design authentic assessment practices and apply them to daily classroom routines. Authentic assessment should be an integral part of the learning process and not merely an end result. In addition, teachers are encouraged to explicitly identify and model, through think-aloud methods, desired cognitive behaviors in the classroom.

A biologically relevant method for considering patterns of oceanic retention in the Southern Ocean

Science.gov (United States)

Mori, Mao; Corney, Stuart P.; Melbourne-Thomas, Jessica; Klocker, Andreas; Sumner, Michael; Constable, Andrew

2017-12-01

Many marine species have planktonic forms - either during a larval stage or throughout their lifecycle - that move passively or are strongly influenced by ocean currents. Understanding these patterns of movement is important for informing marine ecosystem management and for understanding ecological processes generally. Retention of biological particles in a particular area due to ocean currents has received less attention than transport pathways, particularly for the Southern Ocean. We present a method for modelling retention time, based on the half-life for particles in a particular region, that is relevant for biological processes. This method uses geostrophic velocities at the ocean surface, derived from 23 years of satellite altimetry data (1993-2016), to simulate the advection of passive particles during the Southern Hemisphere summer season (from December to March). We assess spatial patterns in the retention time of passive particles and evaluate the processes affecting these patterns for the Indian sector of the Southern Ocean. Our results indicate that the distribution of retention time is related to bathymetric features and the resulting ocean dynamics. Our analysis also reveals a moderate level of consistency between spatial patterns of retention time and observations of Antarctic krill (Euphausia superba) distribution.

Synthetic biology ethics: a deontological assessment.

Science.gov (United States)

Heavey, Patrick

2013-10-01

In this article I discuss the ethics of synthetic biology from a broadly deontological perspective, evaluating its morality in terms of the integrity of nature, the dignity of life and the relationship between God and his creation. Most ethical analyses to date have been largely consequentialist in nature; they reveal a dual use dilemma, showing that synbio has potential for great good and great evil, possibly more so than any step humanity has taken before. A deontological analysis may help to resolve this dilemma, by evaluating whether synbio is right or wrong in itself. I also assess whether deontology alone is a sufficient methodological paradigm for the proper evaluation of synbio ethics. © 2013 John Wiley & Sons Ltd.

Method for increasing nuclear magnetic resonance signals in living biological tissue

International Nuclear Information System (INIS)

Krongrad, A.

1995-01-01

A method of enhancing a magnetic resonance comprising the steps of administering a quantity of a selected magnetic isotope to a living biological tissue at a concentration greater than the naturally occurring concentration of such isotope and detecting magnetic resonance signal from the administered magnetic isotope in the living biological tissue. (author)

Assessing the Soil Physiological Potential Using Pedo-Biological Diagnosis Under Minimum-Tillage System and Mineral Fertilization

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Lazar Bireescu

2014-11-01

Full Text Available The main objective of sustainable agriculture is the protection of environment and natural vegetal and soil resources. Accordingly, the objective of this research was to assess the impact of technological systems by minimum tillage on soil biological activity, using the Pedo-Biological Diagnosis of Soil Resources. Our research was conducted on haplic chernozem from Experimental Station of UASVM of Iasi, Romania, during the seasonal dynamic, to the soybean crop, on unfertilized and fertilized agrofond, using moderate mineral doses (N80P80 as average of 2009–2010 period, under minimum tillage (2x disk, paraplow, chisel compared to conventional (plugging at 20 cm and 30 cm. In the case of soil works with chisel and paraplow without return of furrow, the Pedo-Biological Diagnosis highlights an increase of soil physiological potential, in the both variants (unfertilized and fertilized, unlike the method of alternating the depth of plugging that proved to be ineffective.

Compression-based classification of biological sequences and structures via the Universal Similarity Metric: experimental assessment.

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Ferragina, Paolo; Giancarlo, Raffaele; Greco, Valentina; Manzini, Giovanni; Valiente, Gabriel

2007-07-13

Similarity of sequences is a key mathematical notion for Classification and Phylogenetic studies in Biology. It is currently primarily handled using alignments. However, the alignment methods seem inadequate for post-genomic studies since they do not scale well with data set size and they seem to be confined only to genomic and proteomic sequences. Therefore, alignment-free similarity measures are actively pursued. Among those, USM (Universal Similarity Metric) has gained prominence. It is based on the deep theory of Kolmogorov Complexity and universality is its most novel striking feature. Since it can only be approximated via data compression, USM is a methodology rather than a formula quantifying the similarity of two strings. Three approximations of USM are available, namely UCD (Universal Compression Dissimilarity), NCD (Normalized Compression Dissimilarity) and CD (Compression Dissimilarity). Their applicability and robustness is tested on various data sets yielding a first massive quantitative estimate that the USM methodology and its approximations are of value. Despite the rich theory developed around USM, its experimental assessment has limitations: only a few data compressors have been tested in conjunction with USM and mostly at a qualitative level, no comparison among UCD, NCD and CD is available and no comparison of USM with existing methods, both based on alignments and not, seems to be available. We experimentally test the USM methodology by using 25 compressors, all three of its known approximations and six data sets of relevance to Molecular Biology. This offers the first systematic and quantitative experimental assessment of this methodology, that naturally complements the many theoretical and the preliminary experimental results available. Moreover, we compare the USM methodology both with methods based on alignments and not. We may group our experiments into two sets. The first one, performed via ROC (Receiver Operating Curve) analysis, aims at

Compression-based classification of biological sequences and structures via the Universal Similarity Metric: experimental assessment

Directory of Open Access Journals (Sweden)

Manzini Giovanni

2007-07-01

Full Text Available Abstract Background Similarity of sequences is a key mathematical notion for Classification and Phylogenetic studies in Biology. It is currently primarily handled using alignments. However, the alignment methods seem inadequate for post-genomic studies since they do not scale well with data set size and they seem to be confined only to genomic and proteomic sequences. Therefore, alignment-free similarity measures are actively pursued. Among those, USM (Universal Similarity Metric has gained prominence. It is based on the deep theory of Kolmogorov Complexity and universality is its most novel striking feature. Since it can only be approximated via data compression, USM is a methodology rather than a formula quantifying the similarity of two strings. Three approximations of USM are available, namely UCD (Universal Compression Dissimilarity, NCD (Normalized Compression Dissimilarity and CD (Compression Dissimilarity. Their applicability and robustness is tested on various data sets yielding a first massive quantitative estimate that the USM methodology and its approximations are of value. Despite the rich theory developed around USM, its experimental assessment has limitations: only a few data compressors have been tested in conjunction with USM and mostly at a qualitative level, no comparison among UCD, NCD and CD is available and no comparison of USM with existing methods, both based on alignments and not, seems to be available. Results We experimentally test the USM methodology by using 25 compressors, all three of its known approximations and six data sets of relevance to Molecular Biology. This offers the first systematic and quantitative experimental assessment of this methodology, that naturally complements the many theoretical and the preliminary experimental results available. Moreover, we compare the USM methodology both with methods based on alignments and not. We may group our experiments into two sets. The first one, performed via ROC

[Biosafety provision on handling pathogenic biological agents on the concept of biorisk assessment and management].

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Dobrokhotskiĭ, O N; Kolombet, L V

2010-01-01

The paper shows it urgent to realize the concept of biological risk assessment and management on handling pathogenic biological agents (PBA). It gives a number of objective reasons that impede development of a methodology to assess laboratory biological risks. A concept of continuous improvement (a process approach) is proposed for use as a biorisk management tool for biosafety assurance when handling PBA. It is demonstrated that development of international cooperation urgently requires that national concepts and standards be harmonized with international regulatory documents on biosafety assurance on handling PBA.

Assessment of salivary flow rate: biologic variation and measure error.

NARCIS (Netherlands)

Jongerius, P.H.; Limbeek, J. van; Rotteveel, J.J.

2004-01-01

OBJECTIVE: To investigate the applicability of the swab method in the measurement of salivary flow rate in multiple-handicap drooling children. To quantify the measurement error of the procedure and the biologic variation in the population. STUDY DESIGN: Cohort study. METHODS: In a repeated

Mixed-Methods Design in Biology Education Research: Approach and Uses

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Warfa, Abdi-Rizak M.

2016-01-01

Educational research often requires mixing different research methodologies to strengthen findings, better contextualize or explain results, or minimize the weaknesses of a single method. This article provides practical guidelines on how to conduct such research in biology education, with a focus on mixed-methods research (MMR) that uses both…

A discussion of molecular biology methods for protein engineering

CSIR Research Space (South Africa)

Zawaira, A

2011-09-01

Full Text Available A number of molecular biology techniques are available to generate variants from a particular start gene for eventual protein expression. The authors discuss the basic principles of these methods in a repertoire that may be used to achieve...

Evaluation of gene association methods for coexpression network construction and biological knowledge discovery.

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Sapna Kumari

Full Text Available BACKGROUND: Constructing coexpression networks and performing network analysis using large-scale gene expression data sets is an effective way to uncover new biological knowledge; however, the methods used for gene association in constructing these coexpression networks have not been thoroughly evaluated. Since different methods lead to structurally different coexpression networks and provide different information, selecting the optimal gene association method is critical. METHODS AND RESULTS: In this study, we compared eight gene association methods - Spearman rank correlation, Weighted Rank Correlation, Kendall, Hoeffding's D measure, Theil-Sen, Rank Theil-Sen, Distance Covariance, and Pearson - and focused on their true knowledge discovery rates in associating pathway genes and construction coordination networks of regulatory genes. We also examined the behaviors of different methods to microarray data with different properties, and whether the biological processes affect the efficiency of different methods. CONCLUSIONS: We found that the Spearman, Hoeffding and Kendall methods are effective in identifying coexpressed pathway genes, whereas the Theil-sen, Rank Theil-Sen, Spearman, and Weighted Rank methods perform well in identifying coordinated transcription factors that control the same biological processes and traits. Surprisingly, the widely used Pearson method is generally less efficient, and so is the Distance Covariance method that can find gene pairs of multiple relationships. Some analyses we did clearly show Pearson and Distance Covariance methods have distinct behaviors as compared to all other six methods. The efficiencies of different methods vary with the data properties to some degree and are largely contingent upon the biological processes, which necessitates the pre-analysis to identify the best performing method for gene association and coexpression network construction.

Development of the Neuron Assessment for Measuring Biology Students' Use of Experimental Design Concepts and Representations

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Dasgupta, Annwesa P.; Anderson, Trevor R.; Pelaez, Nancy J.

2016-01-01

Researchers, instructors, and funding bodies in biology education are unanimous about the importance of developing students' competence in experimental design. Despite this, only limited measures are available for assessing such competence development, especially in the areas of molecular and cellular biology. Also, existing assessments do not…

Epidemiological methods for assessing dose-response and dose-effect relationships

DEFF Research Database (Denmark)

Kjellström, Tord; Grandjean, Philippe

2007-01-01

Selected Molecular Mechanisms of Metal Toxicity and Carcinogenicity General Considerations of Dose-Effect and Dose-Response Relationships Interactions in Metal Toxicology Epidemiological Methods for Assessing Dose-Response and Dose-Effect Relationships Essential Metals: Assessing Risks from Deficiency......Description Handbook of the Toxicology of Metals is the standard reference work for physicians, toxicologists and engineers in the field of environmental and occupational health. This new edition is a comprehensive review of the effects on biological systems from metallic elements...... access to a broad range of basic toxicological data and also gives a general introduction to the toxicology of metallic compounds. Audience Toxicologists, physicians, and engineers in the fields of environmental and occupational health as well as libraries in these disciplines. Will also be a useful...

Methods of Model Reduction for Large-Scale Biological Systems: A Survey of Current Methods and Trends.

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Snowden, Thomas J; van der Graaf, Piet H; Tindall, Marcus J

2017-07-01

Complex models of biochemical reaction systems have become increasingly common in the systems biology literature. The complexity of such models can present a number of obstacles for their practical use, often making problems difficult to intuit or computationally intractable. Methods of model reduction can be employed to alleviate the issue of complexity by seeking to eliminate those portions of a reaction network that have little or no effect upon the outcomes of interest, hence yielding simplified systems that retain an accurate predictive capacity. This review paper seeks to provide a brief overview of a range of such methods and their application in the context of biochemical reaction network models. To achieve this, we provide a brief mathematical account of the main methods including timescale exploitation approaches, reduction via sensitivity analysis, optimisation methods, lumping, and singular value decomposition-based approaches. Methods are reviewed in the context of large-scale systems biology type models, and future areas of research are briefly discussed.

Biological inquiry: a new course and assessment plan in response to the call to transform undergraduate biology.

Science.gov (United States)

Goldey, Ellen S; Abercrombie, Clarence L; Ivy, Tracie M; Kusher, Dave I; Moeller, John F; Rayner, Doug A; Smith, Charles F; Spivey, Natalie W

2012-01-01

We transformed our first-year curriculum in biology with a new course, Biological Inquiry, in which >50% of all incoming, first-year students enroll. The course replaced a traditional, content-driven course that relied on outdated approaches to teaching and learning. We diversified pedagogical practices by adopting guided inquiry in class and in labs, which are devoted to building authentic research skills through open-ended experiments. Students develop core biological knowledge, from the ecosystem to molecular level, and core skills through regular practice in hypothesis testing, reading primary literature, analyzing data, interpreting results, writing in disciplinary style, and working in teams. Assignments and exams require higher-order cognitive processes, and students build new knowledge and skills through investigation of real-world problems (e.g., malaria), which engages students' interest. Evidence from direct and indirect assessment has guided continuous course revision and has revealed that compared with the course it replaced, Biological Inquiry produces significant learning gains in all targeted areas. It also retains 94% of students (both BA and BS track) compared with 79% in the majors-only course it replaced. The project has had broad impact across the entire college and reflects the input of numerous constituencies and close collaboration among biology professors and students.

Method of assessing a lipid-related health risk based on ion mobility analysis of lipoproteins

Science.gov (United States)

Benner, W. Henry; Krauss, Ronald M.; Blanche, Patricia J.

2010-12-14

A medical diagnostic method and instrumentation system for analyzing noncovalently bonded agglomerated biological particles is described. The method and system comprises: a method of preparation for the biological particles; an electrospray generator; an alpha particle radiation source; a differential mobility analyzer; a particle counter; and data acquisition and analysis means. The medical device is useful for the assessment of human diseases, such as cardiac disease risk and hyperlipidemia, by rapid quantitative analysis of lipoprotein fraction densities. Initially, purification procedures are described to reduce an initial blood sample to an analytical input to the instrument. The measured sizes from the analytical sample are correlated with densities, resulting in a spectrum of lipoprotein densities. The lipoprotein density distribution can then be used to characterize cardiac and other lipid-related health risks.

Hazard identification and risk assessment for biologics targeting the immune system.

Science.gov (United States)

Weir, Andrea B

2008-01-01

Biologic pharmaceuticals include a variety of products, such as monoclonal antibodies, fusion proteins and cytokines. Products in those classes include immunomodulatory biologics, which are intended to enhance or diminish the activity of the immune system. Immunomodulatory biologics have been approved by the U.S. FDA for a variety of indications, including cancer and inflammatory conditions. Prior to gaining approval for marketing, sponsoring companies for all types of products must demonstrate a product's safety in toxicology studies conducted in animals and show safety and efficacy in clinical trials conducted in patients. The overall goal of toxicology studies, which applies to immunomodulatory and other product types, is to identify the hazards that products pose to humans. Because biologics are generally highly selective for specific targets (receptors/epitopes), conducting toxicology studies in animal models with the target is essential. Such animals are referred to as pharmacologically relevant. Endpoints routinely included in toxicology studies, such as hematology, organ weight and histopathology, can be used to assess the effect of a product on the structure of the immune system. Additionally, specialized endpoints, such as immunophenotyping and immune function tests, can be used to define effects of immunomodulatory products on the immune system. Following hazard identification, risks posed to patients are assessed and managed. Risks can be managed through clinical trial design and risk communication, a practice that applies to immunomodulatory and other product types. Examples of risk management in clinical trial design include establishing a safe starting dose, defining the appropriate patient population and establishing appropriate patient monitoring. Risk communication starts during clinical trials and continues after product approval. A combination of hazard identification, risk assessment and risk management allows for drug development to proceed

Effectiveness of Biology-Based Methods for Inhibiting Orthodontic Tooth Movement. A Systematic Review.

Science.gov (United States)

Cadenas de Llano-Pérula, M; Yañez-Vico, R M; Solano-Reina, E; Palma-Fernandez, J C; Iglesias-Linares, A

Several experimental studies in the literature have tested different biology-based methods for inhibiting or decreasing orthodontic tooth movement (OTM) in humans. This systematic review investigated the effects of these interventions on the rate of tooth movement. Electronic [MedLine; SCOPUS; Cochrane Library; OpenGrey;Web of Science] and manual searches were conducted up to January 26th, 2016 in order to identify publications of clinical trials that compared the decreasing or inhibiting effects of different biology-based methods over OTM in humans. A primary outcome (rate of OTM deceleration/inhibition) and a number of secondary outcomes were examined (clinical applicability, orthodontic force used, possible side effects). Two reviewers selected the studies complying with the eligibility criteria (PICO format) and assessed risk of bias [Cochrane Collaboration's tool]. Data collection and analysis were performed following the Cochrane recommendations. From the initial electronic search, 3726 articles were retrieved and 5 studies were finally included. Two types of biology-based techniques used to reduce the rate of OTM in humans were described: pharmacological and low-level laser therapy. In the first group, human Relaxin was compared to a placebo and administered orally. It was described as having no effect on the inhibition of OTM in humans after 32 days, while the drug tenoxicam, injected locally, inhibited the rate of OTM by up to 10% in humans after 42 days. In the second group, no statistically significant differences were reported, compared to placebo, for the rate of inhibition of OTM in humans after 90 days of observation when a 860 nm continuous wave GaAlA slow-level laser was used. The currently available data do not allow us to draw definitive conclusions about the use of various pharmacological substances and biology-based therapies in humans able to inhibit or decrease the OTM rate. There is an urgent need for more sound well-designed randomized

An overview of bioinformatics methods for modeling biological pathways in yeast.

Science.gov (United States)

Hou, Jie; Acharya, Lipi; Zhu, Dongxiao; Cheng, Jianlin

2016-03-01

The advent of high-throughput genomics techniques, along with the completion of genome sequencing projects, identification of protein-protein interactions and reconstruction of genome-scale pathways, has accelerated the development of systems biology research in the yeast organism Saccharomyces cerevisiae In particular, discovery of biological pathways in yeast has become an important forefront in systems biology, which aims to understand the interactions among molecules within a cell leading to certain cellular processes in response to a specific environment. While the existing theoretical and experimental approaches enable the investigation of well-known pathways involved in metabolism, gene regulation and signal transduction, bioinformatics methods offer new insights into computational modeling of biological pathways. A wide range of computational approaches has been proposed in the past for reconstructing biological pathways from high-throughput datasets. Here we review selected bioinformatics approaches for modeling biological pathways inS. cerevisiae, including metabolic pathways, gene-regulatory pathways and signaling pathways. We start with reviewing the research on biological pathways followed by discussing key biological databases. In addition, several representative computational approaches for modeling biological pathways in yeast are discussed. © The Author 2015. Published by Oxford University Press. All rights reserved. For permissions, please email: journals.permissions@oup.com.

The Biological Rhythms Interview of Assessment in Neuropsychiatry in patients with bipolar disorder: correlation with affective temperaments and schizotypy

Directory of Open Access Journals (Sweden)

Ewa Dopierala

Full Text Available Objective: To assess the relationship of biological rhythms, evaluated by the Biological Rhythms Interview of Assessment in Neuropsychiatry (BRIAN, with affective temperaments and schizotypy. Methods: The BRIAN assessment, along with the Temperament Evaluation of Memphis, Pisa, Paris, and San Diego-Autoquestionnaire (TEMPS-A and the Oxford-Liverpool Inventory for Feelings and Experiences (O-LIFE, was administered to 54 patients with remitted bipolar disorder (BD and 54 healthy control (HC subjects. Results: The TEMPS-A cyclothymic temperament correlated positively and the hyperthymic temperament correlated negatively with BRIAN scores in both the BD and HC groups, although the correlation was stronger in BD subjects. Depressive temperament was associated with BRIAN scores in BD but not in HC; conversely, the irritable temperament was associated with BRIAN scores in HC, but not in BD. Several positive correlations between BRIAN scores and the schizotypal dimensions of the O-LIFE were observed in both BD and HC subjects, especially with cognitive disorganization and less so with unusual experiences and impulsive nonconformity. A correlation with introversion/anhedonia was found only in BD subjects. Conclusion: Cyclothymic and depressive temperaments predispose to disturbances of biological rhythms in BD, while a hyperthymic temperament can be protective. Similar predispositions were also found for all schizotypal dimensions, mostly for cognitive disorganization.

Biosocial Conservation: Integrating Biological and Ethnographic Methods to Study Human-Primate Interactions.

Science.gov (United States)

Setchell, Joanna M; Fairet, Emilie; Shutt, Kathryn; Waters, Siân; Bell, Sandra

2017-01-01

Biodiversity conservation is one of the grand challenges facing society. Many people interested in biodiversity conservation have a background in wildlife biology. However, the diverse social, cultural, political, and historical factors that influence the lives of people and wildlife can be investigated fully only by incorporating social science methods, ideally within an interdisciplinary framework. Cultural hierarchies of knowledge and the hegemony of the natural sciences create a barrier to interdisciplinary understandings. Here, we review three different projects that confront this difficulty, integrating biological and ethnographic methods to study conservation problems. The first project involved wildlife foraging on crops around a newly established national park in Gabon. Biological methods revealed the extent of crop loss, the species responsible, and an effect of field isolation, while ethnography revealed institutional and social vulnerability to foraging wildlife. The second project concerned great ape tourism in the Central African Republic. Biological methods revealed that gorilla tourism poses risks to gorillas, while ethnography revealed why people seek close proximity to gorillas. The third project focused on humans and other primates living alongside one another in Morocco. Incorporating shepherds in the coproduction of ecological knowledge about primates built trust and altered attitudes to the primates. These three case studies demonstrate how the integration of biological and social methods can help us to understand the sustainability of human-wildlife interactions, and thus promote coexistence. In each case, an integrated biosocial approach incorporating ethnographic data produced results that would not otherwise have come to light. Research that transcends conventional academic boundaries requires the openness and flexibility to move beyond one's comfort zone to understand and acknowledge the legitimacy of "other" kinds of knowledge. It is

76 FR 3076 - Availability of an Environmental Assessment for a Biological Control Agent for Air Potato

Science.gov (United States)

2011-01-19

...] Availability of an Environmental Assessment for a Biological Control Agent for Air Potato AGENCY: Animal and... environmental assessment (EA) relative to the control of air potato (Dioscorea bulbifera). The EA considers the... States for use as a biological control agent to reduce the severity of air potato infestations. We are...

Teaching biology through statistics: application of statistical methods in genetics and zoology courses.

Science.gov (United States)

Colon-Berlingeri, Migdalisel; Burrowes, Patricia A

2011-01-01

Incorporation of mathematics into biology curricula is critical to underscore for undergraduate students the relevance of mathematics to most fields of biology and the usefulness of developing quantitative process skills demanded in modern biology. At our institution, we have made significant changes to better integrate mathematics into the undergraduate biology curriculum. The curricular revision included changes in the suggested course sequence, addition of statistics and precalculus as prerequisites to core science courses, and incorporating interdisciplinary (math-biology) learning activities in genetics and zoology courses. In this article, we describe the activities developed for these two courses and the assessment tools used to measure the learning that took place with respect to biology and statistics. We distinguished the effectiveness of these learning opportunities in helping students improve their understanding of the math and statistical concepts addressed and, more importantly, their ability to apply them to solve a biological problem. We also identified areas that need emphasis in both biology and mathematics courses. In light of our observations, we recommend best practices that biology and mathematics academic departments can implement to train undergraduates for the demands of modern biology.

DNA barcodes for assessment of the biological integrity of aquatic ecosystems

Science.gov (United States)

Water quality regulations and aquatic ecosystem monitoring increasingly rely on direct assessments of biological integrity. Because these aquatic “bioassessments” evaluate the incidence and abundance of sensitive aquatic species, they are able to measure cumulative ecosystem eff...

Biological effects of anthropogenic chemical stress: Tools for the assessment of ecosystem health (BEAST)

DEFF Research Database (Denmark)

Lehtonen, Kari K.; Sundelin, Brita; Lang, Thomas

: Tools for the Assessment of Ecosystem Health, 2009-2011), which is part of the Baltic Sea BONUS+ Programme funded jointly by national funding agencies and FP7 ERA-NET+ of the European Commission. The BEAST project consists of three workpackages (WP) with the following main tasks: WP1- Field studies...... and experiments in selected sub-regions of the Baltic Sea, WP2 - Application and validation of methods in monitoring and assessment in the Baltic Sea, and WP3 - Developing tools for ecosystem health assessment in the Baltic Sea. BEAST research activities are focused in the sub-regions of Gulf of Bothnia, Gulf...... of Finland, Gulf of Riga, Gulf of Gdansk and the Belt Sea, most of which are characterised by scarce data on biological effects of hazardous substances. The data acquired will be combined with previous data (e.g. national monitoring activities, case studies, EU BEEP project) to reach the goals of WP2 and WP3...

Method of 10B determination in biological specimens

International Nuclear Information System (INIS)

Nikitina, R.G.; Frolova, E.I.

1981-01-01

The paper is concerned with the methods of 10 B determination in biological specimens (blood, skin and tissues of rats). On the basis of investigations conducted there have been proposed films based on cellulose triacetate with optimal characteristics in terms of their possible utilization as solid detectors to record α-particles and recoil nuclei. The conditions of film staining are also discussed

Biological Select Agents and Toxins: Risk-Based Assessment Management and Oversight.

Energy Technology Data Exchange (ETDEWEB)

Burnett, LouAnn Crawford; Brodsky, Benjamin H.

2016-12-01

Sandia National Laboratories' International Biological and Chemical Threat Reduction (SNL/IBCTR) conducted, on behalf of the Federal Select Agent Program (FSAP), a review of risk assessment in modern select agent laboratories. This review and analysis consisted of literature review, interviews of FSAP staff, entities regulated by FSAP, and deliberations of an expert panel. Additionally, SNL/IBCTR reviewed oversight mechanisms used by industries, US agencies, and other countries for high-consequence risks (e.g, nuclear, chemical, or biological materials, aviation, off-shore drilling, etc.) to determine if alternate oversight mechanisms existed that might be applicable to FSAP oversight of biological select agents and toxins. This report contains five findings, based on these reviews and analyses, with recommendations and suggested actions for FSAP to consider.

A method for three-dimensional quantitative observation of the microstructure of biological samples

Science.gov (United States)

Wang, Pengfei; Chen, Dieyan; Ma, Wanyun; Wu, Hongxin; Ji, Liang; Sun, Jialin; Lv, Danyu; Zhang, Lu; Li, Ying; Tian, Ning; Zheng, Jinggao; Zhao, Fengying

2009-07-01

Contemporary biology has developed into the era of cell biology and molecular biology, and people try to study the mechanism of all kinds of biological phenomena at the microcosmic level now. Accurate description of the microstructure of biological samples is exigent need from many biomedical experiments. This paper introduces a method for 3-dimensional quantitative observation on the microstructure of vital biological samples based on two photon laser scanning microscopy (TPLSM). TPLSM is a novel kind of fluorescence microscopy, which has excellence in its low optical damage, high resolution, deep penetration depth and suitability for 3-dimensional (3D) imaging. Fluorescent stained samples were observed by TPLSM, and afterward the original shapes of them were obtained through 3D image reconstruction. The spatial distribution of all objects in samples as well as their volumes could be derived by image segmentation and mathematic calculation. Thus the 3-dimensionally and quantitatively depicted microstructure of the samples was finally derived. We applied this method to quantitative analysis of the spatial distribution of chromosomes in meiotic mouse oocytes at metaphase, and wonderful results came out last.

Impact of calcium and TOC on biological acidification assessment in Norwegian rivers.

Science.gov (United States)

Schneider, Susanne C

2011-02-15

Acidification continues to be a major impact in freshwaters of northern Europe, and the biotic response to chemical recovery from acidification is often not a straightforward process. The focus on biological recovery is relevant within the context of the EU Water Framework Directive, where a biological monitoring system is needed that detects differences in fauna and flora compared to undisturbed reference conditions. In order to verify true reference sites for biological analyses, expected river pH is modeled based on Ca and TOC, and 94% of variability in pH at reference sites is explained by Ca alone, while 98% is explained by a combination of Ca and TOC. Based on 59 samples from 28 reference sites, compared to 547 samples from 285 non-reference sites, the impact of calcium and total organic carbon (TOC) on benthic algae species composition, expressed as acidification index periphyton (AIP), is analyzed. Rivers with a high Ca concentration have a naturally higher AIP, and TOC affects reference AIP only at low Ca concentrations. Four biological river types are needed for assessment of river acidification in Norway based on benthic algae: very calcium-poor, humic rivers (CaTOC>2 mg/l); very calcium-poor, clear rivers (CaTOC4 mg/l). A biological assessment system for river acidification in Norway based on benthic algae is presented, following the demands of the Water Framework Directive. Copyright © 2010 Elsevier B.V. All rights reserved.

Benefits of a Biological Monitoring Program for Assessing Remediation Performance and Long-Term Stewardship - 12272

Energy Technology Data Exchange (ETDEWEB)

Peterson, Mark [Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831 (United States)

2012-07-01

The Biological Monitoring and Abatement Program (BMAP) is a long-running program that was designed to evaluate biological conditions and trends in waters downstream of Department of Energy (DOE) facilities in Oak Ridge, Tennessee. BMAP monitoring has focused on aquatic pathways from sources to biota, which is consistent with the sites' clean water regulatory focus and the overall cleanup strategy which divided remediation areas into watershed administrative units. Specific programmatic goals include evaluating operational and legacy impacts to nearby streams and the effectiveness of implemented remediation strategies at the sites. The program is characterized by consistent, long-term sampling and analysis methods in a multidisciplinary and quantitative framework. Quantitative sampling has shown conclusively that at most Oak Ridge stream sites, fish and aquatic macro-invertebrate communities have improved considerably since the 1980s. Monitoring of mercury and PCBs in fish has shown that remedial and abatement actions have also improved stream conditions, although in some cases biological monitoring suggests further actions are needed. Follow-up investigations have been implemented by BMAP to identify sources or causes, consistent with an adaptive management approach. Biological monitoring results to date have not only been used to assess regulatory compliance, but have provided additional benefits in helping address other components of the DOE's mission, including facility operations, natural resource, and scientific goals. As a result the program has become a key measure of long-term trends in environmental conditions and of high value to the Oak Ridge environmental management community, regulators, and the public. Some of the BMAP lessons learned may be of value in the design, implementation, and application of other long-term monitoring and stewardship programs, and assist environmental managers in the assessment and prediction of the effectiveness of

Classification of Recombinant Biologics in the EU

DEFF Research Database (Denmark)

Klein, Kevin; De Bruin, Marie L; Broekmans, Andre W

2015-01-01

BACKGROUND AND OBJECTIVE: Biological medicinal products (biologics) are subject to specific pharmacovigilance requirements to ensure that biologics are identifiable by brand name and batch number in adverse drug reaction (ADR) reports. Since Member States collect ADR data at the national level...... of biologics by national authorities responsible for ADR reporting. METHODS: A sample list of recombinant biologics from the European Medicines Agency database of European Public Assessment Reports was created to analyze five Member States (Belgium, the Netherlands, Spain, Sweden, and the UK) according...

Water pollution biology

Energy Technology Data Exchange (ETDEWEB)

Mason, C.F. [University of Essex, Colchester (United Kingdom). Dept. of Biology

1996-12-31

Chapter 4 of this book describes the effects of major types of pollutants on aquatic life. These are: organic pollution, eutrophication, acidification, toxic chemicals, oil, and radioactivity. The review includes an description of some of the methods of assessing the biological impacts of pollution. 50 refs., 8 figs., 3 tabs.

Assessment of the biological and chemical availability of the freshly spiked and aged DDE in soil

International Nuclear Information System (INIS)

Škulcová, L.; Neuwirthová, N.; Hofman, J.; Bielská, L.

2016-01-01

The study compared the ability of various chemical methods (XAD, β-hydroxypropylcyclodextrin - HPCD) and solid phase micro-extraction (SPME)) to mimic earthworm uptake from two similar soils containing either spiked or aged p,p´-DDE, thus representing two extreme scenarios with regard to the length of pollutant-soil contact time and the way of contamination. The extent of bioaccumulation was assessed at fixed exposure periods (10 and 21 days) and at equilibrium derived from uptake curves by multiple-point comparison or kinetic modeling. The decision on the best chemical predictor of biological uptake differed. The degree of bioaccumulation at equilibrium was best predicted by XAD while HPCD rather reflected the extent of accumulation derived after 21 days when, however, steady-state was not reached for spiked p,p´-DDE. SPME seemed to underestimate the uptake of aged p,p´-DDE, probably of the fraction taken up via soil particles. Thus, the degree of predictability seems to be associated with the capability of the chemical method to mimic the complex earthworm uptake via skin and intestinal tract as well as with the quality of biological data where the insufficient length of exposure period appears to be the major concern. - Highlights: • The uptake kinetics of spiked and aged p,p´-DDE to earthworms/samplers was measured. • Three chemical methods were used to predict earthworm uptake. • Equilibrium was not reached within the OECD recommended 21 days for spiked p,p´-DDE. • SPME seems to underestimate the uptake of aged p,p´-DDE. • The best predictor of earthworm uptake seems to be the XAD method. - Capsule: The poor prediction of biological uptake by chemical methods may result from the absence of kinetic measurements and application of short exposure periods.

Methods of 15N tracer research in biological systems

International Nuclear Information System (INIS)

Hirschberg, K.; Faust, H.

1985-01-01

The application of the stable isotope 15 N is of increasing importance in different scientific disciplines, especially in medicine, agriculture, and the biosciences. The close correlation between the growing interest and improvements of analytical procedures resulted in remarkable advances in the 15 N tracer technique. On the basis of the latest results of 15 N tracer research in life sciences and agriculture methods of 15 N tracer research in biological systems are compiled. The 15 N methodology is considered under three headings: Chemical analysis with a description of methods of sample preparation (including different separation and isolation methods for N-containing substances of biological and agricultural origin) and special procedures converting ammonia to molecular nitrogen. Isotopic analysis with a review on the most important methods of isotopic analysis of nitrogen: mass spectrometry (including the GC-MS technique), emission spectrometry, NMR spectroscopy, and other analytical procedures. 15 N-tracer techniques with a consideration of the role of the isotope dilution analysis as well as different labelling techniques and the mathematical interpretation of tracer data (modelling, N turnover experiments). In these chapters also sources of errors in chemical and isotopic analysis, the accuracy of the different methods and its importance on tracer experiments are discussed. Procedures for micro scale 15 N analysis and aspects of 15 N analysis on the level of natural abundance are considered. Furthermore some remarks on isotope effects in 15 N tracer experiments are made. (author)

75 FR 28232 - Availability of an Environmental Assessment for a Biological Control Agent for Hemlock Woolly...

Science.gov (United States)

2010-05-20

...] Availability of an Environmental Assessment for a Biological Control Agent for Hemlock Woolly Adelgid AGENCY..., into the continental United States for use as a biological control agent to reduce the severity of... biological control agent to reduce the severity of hemlock woolly adelgid (HWA) infestations. HWA, an...

Critical assessment of methods of protein structure prediction (CASP) - round x

KAUST Repository

Moult, John; Fidelis, Krzysztof; Kryshtafovych, Andriy; Schwede, Torsten; Tramontano, Anna

2013-01-01

This article is an introduction to the special issue of the journal PROTEINS, dedicated to the tenth Critical Assessment of Structure Prediction (CASP) experiment to assess the state of the art in protein structure modeling. The article describes the conduct of the experiment, the categories of prediction included, and outlines the evaluation and assessment procedures. The 10 CASP experiments span almost 20 years of progress in the field of protein structure modeling, and there have been enormous advances in methods and model accuracy in that period. Notable in this round is the first sustained improvement of models with refinement methods, using molecular dynamics. For the first time, we tested the ability of modeling methods to make use of sparse experimental three-dimensional contact information, such as may be obtained from new experimental techniques, with encouraging results. On the other hand, new contact prediction methods, though holding considerable promise, have yet to make an impact in CASP testing. The nature of CASP targets has been changing in recent CASPs, reflecting shifts in experimental structural biology, with more irregular structures, more multi-domain and multi-subunit structures, and less standard versions of known folds. When allowance is made for these factors, we continue to see steady progress in the overall accuracy of models, particularly resulting from improvement of non-template regions.

Critical assessment of methods of protein structure prediction (CASP) - round x

KAUST Repository

Moult, John

2013-12-17

This article is an introduction to the special issue of the journal PROTEINS, dedicated to the tenth Critical Assessment of Structure Prediction (CASP) experiment to assess the state of the art in protein structure modeling. The article describes the conduct of the experiment, the categories of prediction included, and outlines the evaluation and assessment procedures. The 10 CASP experiments span almost 20 years of progress in the field of protein structure modeling, and there have been enormous advances in methods and model accuracy in that period. Notable in this round is the first sustained improvement of models with refinement methods, using molecular dynamics. For the first time, we tested the ability of modeling methods to make use of sparse experimental three-dimensional contact information, such as may be obtained from new experimental techniques, with encouraging results. On the other hand, new contact prediction methods, though holding considerable promise, have yet to make an impact in CASP testing. The nature of CASP targets has been changing in recent CASPs, reflecting shifts in experimental structural biology, with more irregular structures, more multi-domain and multi-subunit structures, and less standard versions of known folds. When allowance is made for these factors, we continue to see steady progress in the overall accuracy of models, particularly resulting from improvement of non-template regions.

Computational Biology Methods for Characterization of Pluripotent Cells.

Science.gov (United States)

Araúzo-Bravo, Marcos J

2016-01-01

Pluripotent cells are a powerful tool for regenerative medicine and drug discovery. Several techniques have been developed to induce pluripotency, or to extract pluripotent cells from different tissues and biological fluids. However, the characterization of pluripotency requires tedious, expensive, time-consuming, and not always reliable wet-lab experiments; thus, an easy, standard quality-control protocol of pluripotency assessment remains to be established. Here to help comes the use of high-throughput techniques, and in particular, the employment of gene expression microarrays, which has become a complementary technique for cellular characterization. Research has shown that the transcriptomics comparison with an Embryonic Stem Cell (ESC) of reference is a good approach to assess the pluripotency. Under the premise that the best protocol is a computer software source code, here I propose and explain line by line a software protocol coded in R-Bioconductor for pluripotency assessment based on the comparison of transcriptomics data of pluripotent cells with an ESC of reference. I provide advice for experimental design, warning about possible pitfalls, and guides for results interpretation.

Use of 15N methodology to assess biological nitrogen fixation

International Nuclear Information System (INIS)

Hardarson, G.

1990-01-01

One of the most important characteristics of legumes are their ability in symbiosis with Rhizobium bacteria to fix atmospheric nitrogen for growth. For proper management and a full realization of the benefits of this plant-microbial association, it is necessary to estimate how much nitrogen is fixed under different conditions in the field. It is only after this is known that various factors can be manipulated so as to increase the amount and proportion of N a plant derives from biological fixation. A suitable method for accurately measuring the amount of N crops derive from fixation is therefore an important requirement in any programme aimed at maximizing biological nitrogen fixation. There are several methods available to measure N 2 fixation (Bergersen, 1980) based on (1) increment in N yield and plant growth, (2) nitrogen balance (3) acetylene reduction and (4) the use of isotopes of N. Only isotopic methods will be illustrated here. 20 refs, 2 figs, 9 tabs

Application of the selected physical methods in biological research

Directory of Open Access Journals (Sweden)

Jaromír Tlačbaba

2013-01-01

Full Text Available This paper deals with the application of acoustic emission (AE, which is a part of the non-destructive methods, currently having an extensive application. This method is used for measuring the internal defects of materials. AE has a high potential in further research and development to extend the application of this method even in the field of process engineering. For that matter, it is the most elaborate acoustic emission monitoring in laboratory conditions with regard to external stimuli. The aim of the project is to apply the acoustic emission recording the activity of bees in different seasons. The mission is to apply a new perspective on the behavior of colonies by means of acoustic emission, which collects a sound propagation in the material. Vibration is one of the integral part of communication in the community. Sensing colonies with the support of this method is used for understanding of colonies biological behavior to stimuli clutches, colony development etc. Simulating conditions supported by acoustic emission monitoring system the illustrate colonies activity. Collected information will be used to represent a comprehensive view of the life cycle and behavior of honey bees (Apis mellifera. Use of information about the activities of bees gives a comprehensive perspective on using of acoustic emission in the field of biological research.

The method validation step of biological dosimetry accreditation process

International Nuclear Information System (INIS)

Roy, L.; Voisin, P.A.; Guillou, A.C.; Busset, A.; Gregoire, E.; Buard, V.; Delbos, M.; Voisin, Ph.

2006-01-01

One of the missions of the Laboratory of Biological Dosimetry (L.D.B.) of the Institute for Radiation and Nuclear Safety (I.R.S.N.) is to assess the radiological dose after an accidental overexposure suspicion to ionising radiation, by using radio-induced changes of some biological parameters. The 'gold standard' is the yield of dicentrics observed in patients lymphocytes, and this yield is converted in dose using dose effect relationships. This method is complementary to clinical and physical dosimetry, for medical team in charge of the patients. To obtain a formal recognition of its operational activity, the laboratory decided three years ago, to require an accreditation, by following the recommendations of both 17025 General Requirements for the Competence of Testing and Calibration Laboratories and 19238 Performance criteria for service laboratories performing biological dosimetry by cyto-genetics. Diagnostics, risks analysis were realized to control the whole analysis process leading to documents writing. Purchases, personnel department, vocational training were also included in the quality system. Audits were very helpful to improve the quality system. One specificity of this technique is that it is not normalized therefore apart from quality management aspects, several technical points needed some validations. An inventory of potentially influent factors was carried out. To estimate their real effect on the yield of dicentrics, a Placket-Burman experimental design was conducted. The effect of seven parameters was tested: the BUdr (bromodeoxyuridine), PHA (phytohemagglutinin) and colcemid concentration, the culture duration, the incubator temperature, the blood volume and the medium volume. The chosen values were calculated according to the uncertainties on the way they were measured i.e. pipettes, thermometers, test tubes. None of the factors has a significant impact on the yield of dicentrics. Therefore the uncertainty linked to their use was considered as

The method validation step of biological dosimetry accreditation process

Energy Technology Data Exchange (ETDEWEB)

Roy, L.; Voisin, P.A.; Guillou, A.C.; Busset, A.; Gregoire, E.; Buard, V.; Delbos, M.; Voisin, Ph. [Institut de Radioprotection et de Surete Nucleaire, LDB, 92 - Fontenay aux Roses (France)

2006-07-01

One of the missions of the Laboratory of Biological Dosimetry (L.D.B.) of the Institute for Radiation and Nuclear Safety (I.R.S.N.) is to assess the radiological dose after an accidental overexposure suspicion to ionising radiation, by using radio-induced changes of some biological parameters. The 'gold standard' is the yield of dicentrics observed in patients lymphocytes, and this yield is converted in dose using dose effect relationships. This method is complementary to clinical and physical dosimetry, for medical team in charge of the patients. To obtain a formal recognition of its operational activity, the laboratory decided three years ago, to require an accreditation, by following the recommendations of both 17025 General Requirements for the Competence of Testing and Calibration Laboratories and 19238 Performance criteria for service laboratories performing biological dosimetry by cyto-genetics. Diagnostics, risks analysis were realized to control the whole analysis process leading to documents writing. Purchases, personnel department, vocational training were also included in the quality system. Audits were very helpful to improve the quality system. One specificity of this technique is that it is not normalized therefore apart from quality management aspects, several technical points needed some validations. An inventory of potentially influent factors was carried out. To estimate their real effect on the yield of dicentrics, a Placket-Burman experimental design was conducted. The effect of seven parameters was tested: the BUdr (bromodeoxyuridine), PHA (phytohemagglutinin) and colcemid concentration, the culture duration, the incubator temperature, the blood volume and the medium volume. The chosen values were calculated according to the uncertainties on the way they were measured i.e. pipettes, thermometers, test tubes. None of the factors has a significant impact on the yield of dicentrics. Therefore the uncertainty linked to their use was

Science and Biology Assessment in Hong Kong--Progress and Developments

Science.gov (United States)

Cheng, May Hung; Cheung, Wing Ming Francis

2005-01-01

A paper was published in JBE in 2001 which examined the background of the education reform launched in 2000 in Hong Kong, and reviewed existing practices as well as beliefs in science and biology assessment among secondary teachers in Hong Kong. The direction of the reform was to take the emphasis away from public examinations as the sole…

Methods for assessing geodiversity

Science.gov (United States)

Zwoliński, Zbigniew; Najwer, Alicja; Giardino, Marco

2017-04-01

The accepted systematics of geodiversity assessment methods will be presented in three categories: qualitative, quantitative and qualitative-quantitative. Qualitative methods are usually descriptive methods that are suited to nominal and ordinal data. Quantitative methods use a different set of parameters and indicators to determine the characteristics of geodiversity in the area being researched. Qualitative-quantitative methods are a good combination of the collection of quantitative data (i.e. digital) and cause-effect data (i.e. relational and explanatory). It seems that at the current stage of the development of geodiversity research methods, qualitative-quantitative methods are the most advanced and best assess the geodiversity of the study area. Their particular advantage is the integration of data from different sources and with different substantive content. Among the distinguishing features of the quantitative and qualitative-quantitative methods for assessing geodiversity are their wide use within geographic information systems, both at the stage of data collection and data integration, as well as numerical processing and their presentation. The unresolved problem for these methods, however, is the possibility of their validation. It seems that currently the best method of validation is direct filed confrontation. Looking to the next few years, the development of qualitative-quantitative methods connected with cognitive issues should be expected, oriented towards ontology and the Semantic Web.

77 FR 46373 - Availability of an Environmental Assessment for a Biological Control Agent for Hemlock Woolly...

Science.gov (United States)

2012-08-03

...] Availability of an Environmental Assessment for a Biological Control Agent for Hemlock Woolly Adelgid AGENCY... States for use as a biological control agent to reduce the severity of hemlock woolly adelgid... beetle from the western United States, into the eastern United States for use as a biological control...

Assessment of knowledge of participants on basic molecular biology techniques after 5-day intensive molecular biology training workshops in Nigeria.

Science.gov (United States)

Yisau, J I; Adagbada, A O; Bamidele, T; Fowora, M; Brai, B I C; Adebesin, O; Bamidele, M; Fesobi, T; Nwaokorie, F O; Ajayi, A; Smith, S I

2017-07-08

The deployment of molecular biology techniques for diagnosis and research in Nigeria is faced with a number of challenges, including the cost of equipment and reagents coupled with the dearth of personnel skilled in the procedures and handling of equipment. Short molecular biology training workshops were conducted at the Nigerian Institute of Medical Research (NIMR), to improve the knowledge and skills of laboratory personnel and academics in health, research, and educational facilities. Five-day molecular biology workshops were conducted annually between 2011 and 2014, with participants drawn from health, research facilities, and the academia. The courses consisted of theoretical and practical sessions. The impact of the workshops on knowledge and skill acquisition was evaluated by pre- and post-tests which consisted of 25 multiple choice and other questions. Sixty-five participants took part in the workshops. The mean knowledge of molecular biology as evaluated by the pre- and post-test assessments were 8.4 (95% CI 7.6-9.1) and 13.0 (95 CI 11.9-14.1), respectively. The mean post-test score was significantly greater than the mean pre-test score (p biology workshop significantly increased the knowledge and skills of participants in molecular biology techniques. © 2017 by The International Union of Biochemistry and Molecular Biology, 45(4):313-317, 2017. © 2017 The International Union of Biochemistry and Molecular Biology.

Method and apparatus to image biological interactions in plants

Science.gov (United States)

Weisenberger, Andrew; Bonito, Gregory M.; Reid, Chantal D.; Smith, Mark Frederick

2015-12-22

A method to dynamically image the actual translocation of molecular compounds of interest in a plant root, root system, and rhizosphere without disturbing the root or the soil. The technique makes use of radioactive isotopes as tracers to label molecules of interest and to image their distribution in the plant and/or soil. The method allows for the study and imaging of various biological and biochemical interactions in the rhizosphere of a plant, including, but not limited to, mycorrhizal associations in such regions.

Photon activation method to the investigation of bioobjects content for juridical-biological examination

International Nuclear Information System (INIS)

Dikiy, N.P.; Dyachenko, A.F.; Lyashko, Yu.V.; Medvedeva, E.P.; Uvarov, V.L.; Borovlev, V.I.

2009-01-01

Possibilities of the use of nuclear-physical methods for definition of element composition of biological objects (hair of animals) with the target of receipt of additional evidentiary information at the decision of diagnostics and identification problems within the limits of forensic-biological examination are shown

Determination of chorionic gonadotrophin. Comparison of biological, immunological and radioimmunological methods

International Nuclear Information System (INIS)

Munier, M.-P.

1978-07-01

Three types of analysis were used to quantify chorionic gonadotrophic hormone: biological determination (rana-reaction); immunological determination (simplified pregnosticon test of the Organon Teknika laboratories); radioimmunological determination (Commissariat a l'Energie Atomique - CEA kits). While the immunochemical technique is specially suited to analysis of the urine, the radioimmunological measurement is carried out on the plasma. This method is extremely sensitive; when traditional biological and immunological methods are used the quantity of CGH detectable is of the order of some hundreds or at best a few tens of international units. The radioimmunological method is a thousand times more sensitive and can therefore measure CGH in amounts of the milli-unit order. Until recently it was not specific enough to differentiate between CGH and LH, but not long ago a β CGH-specific antibody was discovered and it is now possible to detect small amounts of CGH in the presence of LH [fr

Comparing different methods to assess weaver ant abundance in plantation trees

DEFF Research Database (Denmark)

Wargui, Rosine; Offenberg, Joachim; Sinzogan, Antonio

2015-01-01

Weaver ants (Oecophylla spp.) are widely used as effective biological control agents. In order to optimize their use, ant abundance needs to be tracked. As several methods have been used to estimate ant abundance on plantation trees, abundances are not comparable between studies and no guideline...... is available on which method to apply in a particular study. This study compared four existing methods: three methods based on the number of ant trails on the main branches of a tree (called the Peng 1, Peng 2 and Offenberg index) and one method based on the number of ant nests per tree. Branch indices did...... not produce equal scores and cannot be compared directly. The Peng 1 index was the fastest to assess, but showed only limited seasonal fluctuations when ant abundance was high, because it approached its upper limit. The Peng 2 and Offenberg indices were lower and not close to the upper limit and therefore...

General method to find the attractors of discrete dynamic models of biological systems

Science.gov (United States)

Gan, Xiao; Albert, Réka

2018-04-01

Analyzing the long-term behaviors (attractors) of dynamic models of biological networks can provide valuable insight. We propose a general method that can find the attractors of multilevel discrete dynamical systems by extending a method that finds the attractors of a Boolean network model. The previous method is based on finding stable motifs, subgraphs whose nodes' states can stabilize on their own. We extend the framework from binary states to any finite discrete levels by creating a virtual node for each level of a multilevel node, and describing each virtual node with a quasi-Boolean function. We then create an expanded representation of the multilevel network, find multilevel stable motifs and oscillating motifs, and identify attractors by successive network reduction. In this way, we find both fixed point attractors and complex attractors. We implemented an algorithm, which we test and validate on representative synthetic networks and on published multilevel models of biological networks. Despite its primary motivation to analyze biological networks, our motif-based method is general and can be applied to any finite discrete dynamical system.

General method to find the attractors of discrete dynamic models of biological systems.

Science.gov (United States)

Gan, Xiao; Albert, Réka

2018-04-01

Analyzing the long-term behaviors (attractors) of dynamic models of biological networks can provide valuable insight. We propose a general method that can find the attractors of multilevel discrete dynamical systems by extending a method that finds the attractors of a Boolean network model. The previous method is based on finding stable motifs, subgraphs whose nodes' states can stabilize on their own. We extend the framework from binary states to any finite discrete levels by creating a virtual node for each level of a multilevel node, and describing each virtual node with a quasi-Boolean function. We then create an expanded representation of the multilevel network, find multilevel stable motifs and oscillating motifs, and identify attractors by successive network reduction. In this way, we find both fixed point attractors and complex attractors. We implemented an algorithm, which we test and validate on representative synthetic networks and on published multilevel models of biological networks. Despite its primary motivation to analyze biological networks, our motif-based method is general and can be applied to any finite discrete dynamical system.

Teaching cell biology in the large-enrollment classroom: methods to promote analytical thinking and assessment of their effectiveness.

Science.gov (United States)

Kitchen, Elizabeth; Bell, John D; Reeve, Suzanne; Sudweeks, Richard R; Bradshaw, William S

2003-01-01

A large-enrollment, undergraduate cellular biology lecture course is described whose primary goal is to help students acquire skill in the interpretation of experimental data. The premise is that this kind of analytical reasoning is not intuitive for most people and, in the absence of hands-on laboratory experience, will not readily develop unless instructional methods and examinations specifically designed to foster it are employed. Promoting scientific thinking forces changes in the roles of both teacher and student. We describe didactic strategies that include directed practice of data analysis in a workshop format, active learning through verbal and written communication, visualization of abstractions diagrammatically, and the use of ancillary small-group mentoring sessions with faculty. The implications for a teacher in reducing the breadth and depth of coverage, becoming coach instead of lecturer, and helping students to diagnose cognitive weaknesses are discussed. In order to determine the efficacy of these strategies, we have carefully monitored student performance and have demonstrated a large gain in a pre- and posttest comparison of scores on identical problems, improved test scores on several successive midterm examinations when the statistical analysis accounts for the relative difficulty of the problems, and higher scores in comparison to students in a control course whose objective was information transfer, not acquisition of reasoning skills. A novel analytical index (student mobility profile) is described that demonstrates that this improvement was not random, but a systematic outcome of the teaching/learning strategies employed. An assessment of attitudes showed that, in spite of finding it difficult, students endorse this approach to learning, but also favor curricular changes that would introduce an analytical emphasis earlier in their training.

Assessment methods for rehabilitation.

Science.gov (United States)

Biefang, S; Potthoff, P

1995-09-01

Diagnostics and evaluation in medical rehabilitation should be based on methods that are as objective as possible. In this context quantitative methods are an important precondition. We conducted for the German Pensions Insurance Institutions (which are in charge of the medical and vocational rehabilitation of workers and employees) a survey on assessment methods for rehabilitation which included an evaluation of American literature, with the aim to indicate procedures that can be considered for adaptation in Germany and to define further research requirements. The survey identified: (1) standardized procedures and instrumented tests for the assessment of musculoskeletal, cardiopulmonary and neurophysiological function; (2) personality, intelligence, achievement, neuropsychological and alcoholism screening tests for the assessment of mental or cognitive function; (3) rating scales and self-administered questionnaires for the assessment of Activities of Daily Living and Instrumental Activities of Daily Living (ADL/IADL Scales); (4) generic profiles and indexes as well as disease-specific measures for the assessment of health-related quality of life and health status; and (5) rating scales for vocational assessment. German equivalents or German versions exist only for a part of the procedures identified. Translation and testing of Anglo-Saxon procedures should have priority over the development of new German methods. The following procedures will be taken into account: (a) instrumented tests for physical function, (b) IADL Scales, (c) generic indexes of health-related quality of life, (d) specific quality of life and health status measures for disorders of the circulatory system, metabolic system, digestive organs, respiratory tract and for cancer, and (e) vocational rating scales.

Information System Quality Assessment Methods

OpenAIRE

Korn, Alexandra

2014-01-01

This thesis explores challenging topic of information system quality assessment and mainly process assessment. In this work the term Information System Quality is defined as well as different approaches in a quality definition for different domains of information systems are outlined. Main methods of process assessment are overviewed and their relationships are described. Process assessment methods are divided into two categories: ISO standards and best practices. The main objective of this w...

Stochastic processes, multiscale modeling, and numerical methods for computational cellular biology

CERN Document Server

2017-01-01

This book focuses on the modeling and mathematical analysis of stochastic dynamical systems along with their simulations. The collected chapters will review fundamental and current topics and approaches to dynamical systems in cellular biology. This text aims to develop improved mathematical and computational methods with which to study biological processes. At the scale of a single cell, stochasticity becomes important due to low copy numbers of biological molecules, such as mRNA and proteins that take part in biochemical reactions driving cellular processes. When trying to describe such biological processes, the traditional deterministic models are often inadequate, precisely because of these low copy numbers. This book presents stochastic models, which are necessary to account for small particle numbers and extrinsic noise sources. The complexity of these models depend upon whether the biochemical reactions are diffusion-limited or reaction-limited. In the former case, one needs to adopt the framework of s...

A graphical method for reducing and relating models in systems biology.

Science.gov (United States)

Gay, Steven; Soliman, Sylvain; Fages, François

2010-09-15

In Systems Biology, an increasing collection of models of various biological processes is currently developed and made available in publicly accessible repositories, such as biomodels.net for instance, through common exchange formats such as SBML. To date, however, there is no general method to relate different models to each other by abstraction or reduction relationships, and this task is left to the modeler for re-using and coupling models. In mathematical biology, model reduction techniques have been studied for a long time, mainly in the case where a model exhibits different time scales, or different spatial phases, which can be analyzed separately. These techniques are however far too restrictive to be applied on a large scale in systems biology, and do not take into account abstractions other than time or phase decompositions. Our purpose here is to propose a general computational method for relating models together, by considering primarily the structure of the interactions and abstracting from their dynamics in a first step. We present a graph-theoretic formalism with node merge and delete operations, in which model reductions can be studied as graph matching problems. From this setting, we derive an algorithm for deciding whether there exists a reduction from one model to another, and evaluate it on the computation of the reduction relations between all SBML models of the biomodels.net repository. In particular, in the case of the numerous models of MAPK signalling, and of the circadian clock, biologically meaningful mappings between models of each class are automatically inferred from the structure of the interactions. We conclude on the generality of our graphical method, on its limits with respect to the representation of the structure of the interactions in SBML, and on some perspectives for dealing with the dynamics. The algorithms described in this article are implemented in the open-source software modeling platform BIOCHAM available at http

Assessing Student Behaviors and Motivation for Actively Learning Biology

Science.gov (United States)

Moore, Michael Edward

2017-01-01

Vision and Change states that one of the major changes in the way we design biology courses should be a switch in approach from teacher-centered learning to student-centered learning and identifies active learning as a recommended methods. Studies show performance benefits for students taking courses that use active learning. What is unknown is…

76 FR 8708 - Availability of an Environmental Assessment and Finding of No Significant Impact for a Biological...

Science.gov (United States)

2011-02-15

...] Availability of an Environmental Assessment and Finding of No Significant Impact for a Biological Control Agent... have been prepared by the Animal and Plant Health Inspection Service relative to a proposed biological... review and analysis of environmental impacts associated with the proposed biological control program...

75 FR 28233 - Availability of an Environmental Assessment for a Biological Control Agent for Asian Citrus Psyllid

Science.gov (United States)

2010-05-20

...] Availability of an Environmental Assessment for a Biological Control Agent for Asian Citrus Psyllid AGENCY... radiata, into the continental United States for use as a biological control agent to reduce the severity... of an alternative biological control agent, an encyrtid wasp, (Diaphorencyrtus aligarhensis). However...

CLINICAL AND FUNCTIONAL ASSESSMENT OF THE BIOLOGICAL PROSTHESIS “ASPIRE” FOR SURGICAL CORRECTION OF MITRAL VALVE DISEASE

Directory of Open Access Journals (Sweden)

S. G. Esin

2015-01-01

Full Text Available Aim: To assess clinical and functional efficacy of implanted biological prosthesis “ASPIRE” (manufactured by Vascutek for correction of mitral valve disease.Materials and methods: From October 2008 to December 2013, biological prostheses “ASPIRE” (Vascutek were implanted to 34 patients with mitral valve disease (mean age 63.59 ± 4.96 years, 79.4% female. From these, 24 patients had mitral stenosis and 10 patients had mitral insufficiency. 73.5% of all patients had heart failure Strazhesko-Vasilenko IIA grade and 85.3% of patients had chronic heart failure NYHA III. Isolated mitral valve replacement was performed only in 8 (23.5% of patients. In 22 (64.7% of cases mitral valve replacement was combined with tricuspid valvuloplasty in various modifications. Duration of cardiopulmonary bypass and of aortic clamping was 88.09 ± 25.95 and 65.68 ± 25.51 minutes, respectively. Before and after surgery all patients underwent echocardiographic assessment and clinical assessment of their general status.Results: In-hospital mortality was 5.88% (n = 2 and was related to multiorgan failure in the early postoperative period. All 32 (94.12% surviving patients improved with decrease or complete disappearance of heart failure. Postoperative complications were typical for cardiac surgery. There were no episodes of embolism, structural dysfunction, thrombosis of the prosthesis and endocarditis of the prosthesis in the early postoperative period. Pressure gradients across prosthetic valves were not high and corresponded to good clinical and hemodynamic results in the early postoperative period.Conclusion: Taking into account good immediate results of mitral valve replacement, as well as no need in lifelong anticoagulation in patients with multiple concomitant disorders, implantation of the biological prosthesis “ASPIRE” (Vascutek could become a procedure of choice for correction of valve abnormalities in patients above 65 years. For more comprehensive

The pros and cons of ecological risk assessment based on data from different levels of biological organization

Science.gov (United States)

Rohr, Jason R.; Salice, Christopher J.; Nisbet, Roger M.

2016-01-01

Ecological risk assessment (ERA) is the process used to evaluate the safety of manufactured chemicals to the environment. Here we review the pros and cons of ERA across levels of biological organization, including suborganismal (e.g. biomarkers), individual, population, community, ecosystem, and landscapes levels. Our review revealed that level of biological organization is often related negatively with ease at assessing cause-effect relationships, ease of high-throughput screening of large numbers of chemicals (it is especially easier for suborganismal endpoints), and uncertainty of the ERA because low levels of biological organization tend to have a large distance between their measurement (what is quantified) and assessment endpoints (what is to be protected). In contrast, level of biological organization is often related positively with sensitivity to important negative and positive feedbacks and context dependencies within biological systems, and ease at capturing recovery from adverse contaminant effects. Some endpoints did not show obvious trends across levels of biological organization, such as the use of vertebrate animals in chemical testing and ease at screening large numbers of species, and other factors lacked sufficient data across levels of biological organization, such as repeatability, variability, cost per study, and cost per species of effects assessment, the latter of which might be a more defensible way to compare costs of ERAs than cost per study. To compensate for weaknesses of ERA at any particular level of biological organization, we also review mathematical modeling approaches commonly used to extrapolate effects across levels of organization. Finally, we provide recommendations for next generation ERA, submitting that if there is an ideal level of biological organization to conduct ERA, it will only emerge if ERA is approached simultaneously from the bottom of biological organization up as well as from the top down, all while employing

The pros and cons of ecological risk assessment based on data from different levels of biological organization.

Science.gov (United States)

Rohr, Jason R; Salice, Christopher J; Nisbet, Roger M

2016-10-01

Ecological risk assessment (ERA) is the process used to evaluate the safety of manufactured chemicals to the environment. Here we review the pros and cons of ERA across levels of biological organization, including suborganismal (e.g., biomarkers), individual, population, community, ecosystem and landscapes levels. Our review revealed that level of biological organization is often related negatively with ease at assessing cause-effect relationships, ease of high-throughput screening of large numbers of chemicals (it is especially easier for suborganismal endpoints), and uncertainty of the ERA because low levels of biological organization tend to have a large distance between their measurement (what is quantified) and assessment endpoints (what is to be protected). In contrast, level of biological organization is often related positively with sensitivity to important negative and positive feedbacks and context dependencies within biological systems, and ease at capturing recovery from adverse contaminant effects. Some endpoints did not show obvious trends across levels of biological organization, such as the use of vertebrate animals in chemical testing and ease at screening large numbers of species, and other factors lacked sufficient data across levels of biological organization, such as repeatability, variability, cost per study and cost per species of effects assessment, the latter of which might be a more defensible way to compare costs of ERAs than cost per study. To compensate for weaknesses of ERA at any particular level of biological organization, we also review mathematical modeling approaches commonly used to extrapolate effects across levels of organization. Finally, we provide recommendations for next generation ERA, submitting that if there is an ideal level of biological organization to conduct ERA, it will only emerge if ERA is approached simultaneously from the bottom of biological organization up as well as from the top down, all while employing

Noninvasive Assessment of Cell Fate and Biology in Transplanted Mesenchymal Stem Cells.

Science.gov (United States)

Franchi, Federico; Rodriguez-Porcel, Martin

2017-01-01

Recently, molecular imaging has become a conditio sine qua non for cell-based regenerative medicine. Developments in molecular imaging techniques, such as reporter gene technology, have increasingly enabled the noninvasive assessment of the fate and biology of cells after cardiovascular applications. In this context, bioluminescence imaging is the most commonly used imaging modality in small animal models of preclinical studies. Here, we present a detailed protocol of a reporter gene imaging approach for monitoring the viability and biology of Mesenchymal Stem Cells transplanted in a mouse model of myocardial ischemia reperfusion injury.

Assessment tools for urban catchments: developing biological indicators based on benthic macroinvertebrates

Science.gov (United States)

Purcell, A.H.; Bressler, D.W.; Paul, M.J.; Barbour, M.T.; Rankin, E.T.; Carter, J.L.; Resh, V.H.

2009-01-01

Biological indicators, particularly benthic macroinvertebrates, are widely used and effective measures of the impact of urbanization on stream ecosystems. A multimetric biological index of urbanization was developed using a large benthic macroinvertebrate dataset (n = 1,835) from the Baltimore, Maryland, metropolitan area and then validated with datasets from Cleveland, Ohio (n = 79); San Jose, California (n = 85); and a different subset of the Baltimore data (n = 85). The biological metrics used to develop the multimetric index were selected using several criteria and were required to represent ecological attributes of macroinvertebrate assemblages including taxonomic composition and richness (number of taxa in the insect orders of Ephemeroptera, Plecoptera, and Trichoptera), functional feeding group (number of taxa designated as filterers), and habit (percent of individuals which cling to the substrate). Quantile regression was used to select metrics and characterize the relationship between the final biological index and an urban gradient (composed of population density, road density, and urban land use). Although more complex biological indices exist, this simplified multimetric index showed a consistent relationship between biological indicators and urban conditions (as measured by quantile regression) in three climatic regions of the United States and can serve as an assessment tool for environmental managers to prioritize urban stream sites for restoration and protection.

Optoelectronic system and apparatus for connection to biological systems

Science.gov (United States)

Okandan, Murat; Nielson, Gregory N.

2018-03-06

The present invention relates to a biological probe structure, as well as apparatuses, systems, and methods employing this structure. In particular embodiments, the structure includes a hermetically sealed unit configured to receive and transmit one or more optical signals. Furthermore, the structure can be implanted subcutaneously and interrogated externally. In this manner, a minimally invasive method can be employed to detect, treat, and/or assess the biological target. Additional methods and systems are also provided.

SU-G-TeP3-07: On the Development of Mechano-Biological Assessment of Leukemia Cells Using Optical Tweezers

Energy Technology Data Exchange (ETDEWEB)

Brost, E; Brooks, J; Piepenburg, J; Watanabe, Y; Hui, S [Therapeutic Radiology and Masonic Cancer Center, University of Minnesota, Minneapolis, MN (United States); Chakraborty, S; Das, T [Max Planck Institute for Intelligent Systems Department of New Materials and Biosystems Department of Mechanical Engineering, Indian Institute of Technology, Kharagpur (India); Green, A [Department of Physics, University of Saint Thomas, Saint Paul, MN (United States)

2016-06-15

Purpose: Patients with BCR-ABL (Ph +ve) acute lymphoblastic leukemia are at very high risk of relapse and mortality. In line with the NIH mission to understand the physical and biological processes, we seek to report mechano-biological method to assessment and distinguish treated/untreated leukemia cells. Methods: BCR-ABL leukemia cell populations and silica microspheres were trapped in a 100x magnification optical trapping system (λ=660 nm, 70 mW). Light refracted through the trapped sample was collected in the back focal plane by a quadrant detector to measure the positions of individual cells. The sample was driven at a known frequency and amplitude with a flexure translation stage, and the target’s response was recorded. The measured response was calibrated using the known driving parameters, and information about cell movements due to mechano-biological effects was extracted. Two leukemia cell populations were tested: a control group and a group treated with 2 Gy. Results: The mechano-biological movements of 10 microspheres, control cells, and treated cells were tracked over a ∼30 minute window at 1 minute intervals. The microsphere population did not see significant change in mechano-biological movements over the testing interval and remained constant. The control cell population saw a two-fold rise in activity that peaked around 1200 seconds, then dropped off sharply. The treated cell population saw a two-fold rise in activity that peaked at 400 seconds, and dropped off slowly. Conclusion: The investigated technique allows for direct measurement the movements of a trapped object due to mechano-biological effects such as thermal and extracellular motion. When testing microspheres, the mechano-biological activity remained constant over time due to the lack of biological factors. In both the control and treated cell populations, the mechano-biological activity was increased, possibly due to mitochondrial activation. This extra activity decreased over time

Human exposure to bisphenol A by biomonitoring: Methods, results and assessment of environmental exposures

International Nuclear Information System (INIS)

Dekant, Wolfgang; Voelkel, Wolfgang

2008-01-01

Human exposure to bisphenol A is controversially discussed. This review critically assesses methods for biomonitoring of bisphenol A exposures and reported concentrations of bisphenol A in blood and urine of non-occupationally ('environmentally') exposed humans. From the many methods published to assess bisphenol A concentrations in biological media, mass spectrometry-based methods are considered most appropriate due to high sensitivity, selectivity and precision. In human blood, based on the known toxicokinetics of bisphenol A in humans, the expected very low concentrations of bisphenol A due to rapid biotransformation and the very rapid excretion result in severe limitations in the use of reported blood levels of bisphenol A for exposure assessment. Due to the rapid and complete excretion of orally administered bisphenol A, urine samples are considered as the appropriate body fluid for bisphenol A exposure assessment. In urine samples from several cohorts, bisphenol A (as glucuronide) was present in average concentrations in the range of 1-3 μg/L suggesting that daily human exposure to bisphenol A is below 6 μg per person (< 0.1 μg/kg bw/day) for the majority of the population

Development of a local-scale urban stream assessment method using benthic macroinvertebrates: An example from the Santa Clara Basin, California

Science.gov (United States)

Carter, J.L.; Purcell, A.H.; Fend, S.V.; Resh, V.H.

2009-01-01

Research that explores the biological response to urbanization on a site-specific scale is necessary for management of urban basins. Recent studies have proposed a method to characterize the biological response of benthic macroinvertebrates along an urban gradient for several climatic regions in the USA. Our study demonstrates how this general framework can be refined and applied on a smaller scale to an urbanized basin, the Santa Clara Basin (surrounding San Jose, California, USA). Eighty-four sampling sites on 14 streams in the Santa Clara Basin were used for assessing local stream conditions. First, an urban index composed of human population density, road density, and urban land cover was used to determine the extent of urbanization upstream from each sampling site. Second, a multimetric biological index was developed to characterize the response of macroinvertebrate assemblages along the urban gradient. The resulting biological index included metrics from 3 ecological categories: taxonomic composition ( Ephemeroptera, Plecoptera, and Trichoptera), functional feeding group (shredder richness), and habit ( clingers). The 90th-quantile regression line was used to define the best available biological conditions along the urban gradient, which we define as the predicted biological potential. This descriptor was then used to determine the relative condition of sites throughout the basin. Hierarchical partitioning of variance revealed that several site-specific variables (dissolved O2 and temperature) were significantly related to a site's deviation from its predicted biological potential. Spatial analysis of each site's deviation from its biological potential indicated geographic heterogeneity in the distribution of impaired sites. The presence and operation of local dams optimize water use, but modify natural flow regimes, which in turn influence stream habitat, dissolved O2, and temperature. Current dissolved O2 and temperature regimes deviate from natural

Preparation of Biological Samples Containing Metoprolol and Bisoprolol for Applying Methods for Quantitative Analysis

Directory of Open Access Journals (Sweden)

Corina Mahu Ştefania

2015-12-01

Full Text Available Arterial hypertension is a complex disease with many serious complications, representing a leading cause of mortality. Selective beta-blockers such as metoprolol and bisoprolol are frequently used in the management of hypertension. Numerous analytical methods have been developed for the determination of these substances in biological fluids, such as liquid chromatography coupled with mass spectrometry, gas chromatography coupled with mass spectrometry, high performance liquid chromatography. Due to the complex composition of biological fluids a biological sample pre-treatment before the use of the method for quantitative determination is required in order to remove proteins and potential interferences. The most commonly used methods for processing biological samples containing metoprolol and bisoprolol were identified through a thorough literature search using PubMed, ScienceDirect, and Willey Journals databases. Articles published between years 2005-2015 were reviewed. Protein precipitation, liquid-liquid extraction and solid phase extraction are the main techniques for the extraction of these drugs from plasma, serum, whole blood and urine samples. In addition, numerous other techniques have been developed for the preparation of biological samples, such as dispersive liquid-liquid microextraction, carrier-mediated liquid phase microextraction, hollow fiber-protected liquid phase microextraction, on-line molecularly imprinted solid phase extraction. The analysis of metoprolol and bisoprolol in human plasma, urine and other biological fluids provides important information in clinical and toxicological trials, thus requiring the application of appropriate extraction techniques for the detection of these antihypertensive substances at nanogram and picogram levels.

A Method for Determining the Content of Glycoproteins in Biological Samples

Directory of Open Access Journals (Sweden)

Yang Gao

2016-11-01

Full Text Available The glycoprotein purified from the mycelium extract of Tremella fuciformis was marked with iodine through the iodine substitution reaction. The content of iodine, which is indicative of the amount of the marked tremella glycoprotein (ITG, was detected with Inductively coupled plasma mass spectrometry (ICP-MS. The method was found to be stable, sensitive, and accurate at detecting the content of iodine-substituted glycoprotein, and was used in the quantitative analysis of biological samples, including blood and organs. Different biological samples were collected from rats after oral administration of ITG, and were tested for iodine content by ICP-MS to calculate the amount of ITG in the samples. The results suggested that ICP-MS is a sensitive, stable, and accurate method for detection of iodinated glycoproteins in blood and organs.

Biclustering methods: biological relevance and application in gene expression analysis.

Directory of Open Access Journals (Sweden)

Ali Oghabian

Full Text Available DNA microarray technologies are used extensively to profile the expression levels of thousands of genes under various conditions, yielding extremely large data-matrices. Thus, analyzing this information and extracting biologically relevant knowledge becomes a considerable challenge. A classical approach for tackling this challenge is to use clustering (also known as one-way clustering methods where genes (or respectively samples are grouped together based on the similarity of their expression profiles across the set of all samples (or respectively genes. An alternative approach is to develop biclustering methods to identify local patterns in the data. These methods extract subgroups of genes that are co-expressed across only a subset of samples and may feature important biological or medical implications. In this study we evaluate 13 biclustering and 2 clustering (k-means and hierarchical methods. We use several approaches to compare their performance on two real gene expression data sets. For this purpose we apply four evaluation measures in our analysis: (1 we examine how well the considered (biclustering methods differentiate various sample types; (2 we evaluate how well the groups of genes discovered by the (biclustering methods are annotated with similar Gene Ontology categories; (3 we evaluate the capability of the methods to differentiate genes that are known to be specific to the particular sample types we study and (4 we compare the running time of the algorithms. In the end, we conclude that as long as the samples are well defined and annotated, the contamination of the samples is limited, and the samples are well replicated, biclustering methods such as Plaid and SAMBA are useful for discovering relevant subsets of genes and samples.

Computational structural biology: methods and applications

National Research Council Canada - National Science Library

Schwede, Torsten; Peitsch, Manuel Claude

2008-01-01

... sequencing reinforced the observation that structural information is needed to understand the detailed function and mechanism of biological molecules such as enzyme reactions and molecular recognition events. Furthermore, structures are obviously key to the design of molecules with new or improved functions. In this context, computational structural biology...

Nitrate removal from drinking water with a focus on biological methods: a review.

Science.gov (United States)

Rezvani, Fariba; Sarrafzadeh, Mohammad-Hossein; Ebrahimi, Sirous; Oh, Hee-Mock

2017-05-31

This article summarizes several developed and industrial technologies for nitrate removal from drinking water, including physicochemical and biological techniques, with a focus on autotrophic nitrate removal. Approaches are primarily classified into separation-based and elimination-based methods according to the fate of the nitrate in water treatment. Biological denitrification as a cost-effective and promising method of biological nitrate elimination is reviewed in terms of its removal process, applicability, efficiency, and associated disadvantages. The various pathways during biological nitrate removal, including assimilatory and dissimilatory nitrate reduction, are also explained. A comparative study was carried out to provide a better understanding of the advantages and disadvantages of autotrophic and heterotrophic denitrification. Sulfur-based and hydrogen-based denitrifications, which are the most common autotrophic processes of nitrate removal, are reviewed with the aim of presenting the salient features of hydrogenotrophic denitrification along with some drawbacks of the technology and research areas in which it could be used but currently is not. The application of algae-based water treatment is also introduced as a nature-inspired approach that may broaden future horizons of nitrate removal technology.

New mobile methods for dietary assessment: review of image-assisted and image-based dietary assessment methods.

Science.gov (United States)

Boushey, C J; Spoden, M; Zhu, F M; Delp, E J; Kerr, D A

2017-08-01

For nutrition practitioners and researchers, assessing dietary intake of children and adults with a high level of accuracy continues to be a challenge. Developments in mobile technologies have created a role for images in the assessment of dietary intake. The objective of this review was to examine peer-reviewed published papers covering development, evaluation and/or validation of image-assisted or image-based dietary assessment methods from December 2013 to January 2016. Images taken with handheld devices or wearable cameras have been used to assist traditional dietary assessment methods for portion size estimations made by dietitians (image-assisted methods). Image-assisted approaches can supplement either dietary records or 24-h dietary recalls. In recent years, image-based approaches integrating application technology for mobile devices have been developed (image-based methods). Image-based approaches aim at capturing all eating occasions by images as the primary record of dietary intake, and therefore follow the methodology of food records. The present paper reviews several image-assisted and image-based methods, their benefits and challenges; followed by details on an image-based mobile food record. Mobile technology offers a wide range of feasible options for dietary assessment, which are easier to incorporate into daily routines. The presented studies illustrate that image-assisted methods can improve the accuracy of conventional dietary assessment methods by adding eating occasion detail via pictures captured by an individual (dynamic images). All of the studies reduced underreporting with the help of images compared with results with traditional assessment methods. Studies with larger sample sizes are needed to better delineate attributes with regards to age of user, degree of error and cost.

Optimized assessment and usage of biological waste; Optimierte Erfassung und Verwertung von Bioabfall

Energy Technology Data Exchange (ETDEWEB)

Kern, Michael; Raussen, Thomas (eds.)

2013-07-01

The booklet on the optimized assessment and usage of biological waste includes contributions on the following issues: implementation of the bio-waste assessment in the federal states; economy and ecology of bio-waste fermentation; practice forum biogas: new bio-waste fermentation plants in Germany; effects of legal reforms on the usage and processing of bio-waste; flexible electricity input and power-to-gas.

Assessment procedures results of training in biology

Directory of Open Access Journals (Sweden)

Elena A. Galkina

2018-04-01

Full Text Available The article describes the procedures for evaluating the results of training in biology. The mechanisms for monitoring the learning outcomes of a biology teacher are presented. Examples of algorithms for procedures for evaluating learning outcomes in biology are demonstrated.

Biological features produced by additive manufacturing processes using vat photopolymerization method

DEFF Research Database (Denmark)

Davoudinejad, Ali; Mendez Ribo, Macarena; Pedersen, David Bue

2017-01-01

of micro biological features by Additive Manufacturing (AM) processes. The study characterizes the additive manufacturing processes for polymeric micro part productions using the vat photopolymerization method. A specifically designed vat photopolymerization AM machine suitable for precision printing...

Biological characteristics of crucian by quantitative inspection method

Science.gov (United States)

Chu, Mengqi

2015-04-01

Biological characteristics of crucian by quantitative inspection method Through quantitative inspection method , the biological characteristics of crucian was preliminary researched. Crucian , Belongs to Cypriniformes, Cyprinidae, Carassius auratus, is a kind of main plant-eating omnivorous fish,like Gregarious, selection and ranking. Crucian are widely distributed, perennial water all over the country all have production. Determine the indicators of crucian in the experiment, to understand the growth, reproduction situation of crucian in this area . Using the measured data (such as the scale length ,scale size and wheel diameter and so on) and related functional to calculate growth of crucian in any one year.According to the egg shape, color, weight ,etc to determine its maturity, with the mean egg diameter per 20 eggs and the number of eggs per 0.5 grams, to calculate the relative and absolute fecundity of the fish .Measured crucian were female puberty. Based on the relation between the scale diameter and length and the information, linear relationship between crucian scale diameter and length: y=1.530+3.0649. From the data, the fertility and is closely relative to the increase of age. The older, the more mature gonad development. The more amount of eggs. In addition, absolute fecundity increases with the pituitary gland.Through quantitative check crucian bait food intake by the object, reveals the main food, secondary foods, and chance food of crucian ,and understand that crucian degree of be fond of of all kinds of bait organisms.Fish fertility with weight gain, it has the characteristics of species and populations, and at the same tmes influenced by the age of the individual, body length, body weight, environmental conditions (especially the nutrition conditions), and breeding habits, spawning times factors and the size of the egg. After a series of studies of crucian biological character, provide the ecological basis for local crucian's feeding, breeding

A Study Assessing the Potential of Negative Effects in Interdisciplinary Math–Biology Instruction

Science.gov (United States)

Madlung, Andreas; Bremer, Martina; Himelblau, Edward; Tullis, Alexa

2011-01-01

There is increasing enthusiasm for teaching approaches that combine mathematics and biology. The call for integrating more quantitative work in biology education has led to new teaching tools that improve quantitative skills. Little is known, however, about whether increasing interdisciplinary work can lead to adverse effects, such as the development of broader but shallower skills or the possibility that math anxiety causes some students to disengage in the classroom, or, paradoxically, to focus so much on the mathematics that they lose sight of its application for the biological concepts in the center of the unit at hand. We have developed and assessed an integrative learning module and found disciplinary learning gains to be equally strong in first-year students who actively engaged in embedded quantitative calculations as in those students who were merely presented with quantitative data in the context of interpreting biological and biostatistical results. When presented to advanced biology students, our quantitative learning tool increased test performance significantly. We conclude from our study that the addition of mathematical calculations to the first year and advanced biology curricula did not hinder overall student learning, and may increase disciplinary learning and data interpretation skills in advanced students. PMID:21364099

Informal caregivers and detection of delirium in postacute care: a correlational study of the confusion assessment method (CAM), confusion assessment method-family assessment method (CAM-FAM) and DSM-IV criteria.

Science.gov (United States)

Flanagan, Nina M; Spencer, Gale

2016-09-01

Delirium is a common, serious and potentially life-threatening syndrome affecting older adults. This syndrome continues to be under-recognised and under treated by healthcare professionals across all care settings. Older adults who develop delirium have poorer outcomes, higher mortality and higher care costs. The purposes of this study were to correlate the confusion assessment method-family assessment method and confusion assessment method in the detection of delirium in postacute care, to correlate the confusion assessment method-family assessment method and diagnostic and statistical manual of mental disorders text revision criteria in detection of delirium in postacute care, to determine the prevalence of delirium in postacute care elders and to describe the relationship of level of cognitive impairment and delirium in the postacute care setting. Implications for Practice Delirium is disturbing for patients and caregivers. Frequently . family members want to provide information about their loved one. The use of the CAM-FAM and CAM can give a more definitive determination of baseline status. Frequent observations using both instruments may lead to better recognition of delirium and implementation of interventions to prevent lasting sequelae. Descriptive studies determined the strengths of relationship between the confusion assessment method, confusion assessment method-family assessment method, Mini-Cog and diagnostic and statistical manual of mental disorders text revision criteria in detection of delirium in the postacute care setting. Prevalence of delirium in this study was 35%. The confusion assessment method-family assessment method highly correlates with the confusion assessment method and diagnostic and statistical manual of mental disorders text revision criteria for detecting delirium in older adults in the postacute care setting. Persons with cognitive impairment are more likely to develop delirium. Family members recognise symptoms of delirium when

WATER CHEMISTRY ASSESSMENT METHODS

Science.gov (United States)

This section summarizes and evaluates the surfce water column chemistry assessment methods for USEPA/EMAP-SW, USGS-NAQA, USEPA-RBP, Oho EPA, and MDNR-MBSS. The basic objective of surface water column chemistry assessment is to characterize surface water quality by measuring a sui...

Policy implications of select student characteristics and their influence on the Florida biology end-of-course assessment

Science.gov (United States)

Bertolotti, Janine Cecelia

In an attempt to improve student achievement in science in Florida, the Florida Department of Education implemented end-of-course (EOC) assessments in biology during the 2011-2012 academic school year. Although this first administration would only account for 30% of the student's overall final course grade in biology, subsequent administrations would be accompanied by increasing stakes for students, teachers, and schools. Therefore, this study sought to address gaps in empirical evidence as well as discuss how educational policy will potentially impact on teacher evaluation and professional development, student retention and graduation rates, and school accountability indicators. This study explored four variables- reading proficiency, ethnicity, socioeconomic status, and gender- to determine their influence and relationship on biology achievement on the Biology I EOC assessment at a Title 1 school. To do so, the results of the Biology I EOC assessment administered during the Spring 2012 school year was obtained from a small, rural Title 1 high school in North Florida. Additional data regarding each student's qualification for free and reduced-price lunch, FCAT Reading developmental scale scores, FCAT Reading level, grade level, gender, and ethnicity were also collected for the causal-comparative exploratory study. Of the 178 students represented, 48% qualified for free and reduced-price lunch, 54% were female, and 55% scored at FCAT Reading level 3 or higher. Additionally, 59% were White and 37% Black. A combination of descriptive statistics and other statistical procedures such as independent samples one-tailed t-test, one-way ANOVAs, ANCOVAs, multipleregression, and a Pearson r correlation was utilized in the analysis, with a significance level set at 0.05. Results indicate that of all four variables, FCAT Reading proficiency was the sole variable, after adjusting for other variables; that had a significant impact on biology achievement. Students with higher

MODEL OF METHODS OF FORMING BIOLOGICAL PICTURE OF THE WORLD OF SECONDARY SCHOOL PUPILS

Directory of Open Access Journals (Sweden)

Mikhail A. Yakunchev

2016-12-01

Full Text Available Introduction: the problem of development of a model of methods of forming the biological picture of the world of pupils as a multicomponent and integrative expression of the complete educational process is considered in the article. It is stated that the results of the study have theoretical and practical importance for effective subject preparation of senior pupils based on acquiring of systematic and generalized knowledge about wildlife. The correspondence of the main idea of the article to the scientific profile of the journal “Integration of Education” determines the choice of the periodical for publication. Materials and Methods: the results of the analysis of materials on modeling of the educational process, on specific models of the formation of a complete comprehension of the scientific picture of the world and its biological component make it possible to suggest a lack of elaboration of the aspect of pedagogical research under study. Therefore, the search for methods to overcome these gaps and to substantiate a particular model, relevant for its practical application by a teacher, is important. The study was based on the use of methods of theoretical level, including the analysis of pedagogical and methodological literature, modeling and generalized expression of the model of forming the biological picture of the world of secondary school senior pupils, which were of higher priority. Results: the use of models of organization of subject preparation of secondary school pupils takes a priority position, as they help to achieve the desired results of training, education and development. The model of methods of forming a biological picture of the world is represented as a theoretical construct in the unity of objective, substantive, procedural, diagnostic and effective blocks. Discussion and Conclusions: in a generalized form the article expresses the model of methods of forming the biological picture of the world of secondary school

Biological assessment of remedial action at the abandoned uranium mill tailings site near Naturita, Colorado

Energy Technology Data Exchange (ETDEWEB)

NONE

1996-03-01

Pursuant to the Uranium Mill Tailings Radiation Control Act (UMTRCA) of 1978, the U.S. Department of Energy (DOE) is proposing to conduct remedial action to clean up the residual radioactive materials (RRM) at the Naturita uranium processing site in Colorado. The Naturita site is in Montrose County, Colorado, and is approximately 2 miles (mi) (3 kilometer [km]) from the unincorporated town of Naturita. The proposed remedial action is to remove the RRM from the Naturita site to the Upper Burbank Quarry at the Uravan disposal site. To address the potential impacts of the remedial action on threatened and endangered species, the DOE prepared this biological assessment. Informal consultations with the U.S. Department of the Interior, Fish and Wildlife Service (FWS) were initiated in 1986, and the FWS provided a list of the threatened and endangered species that may occur in the Naturita study area. This list was updated by two FWS letters in 1988 and by verbal communication in 1990. A biological assessment was included in the environmental assessment (EA) of the proposed remedial action that was prepared in 1990. This EA addressed the impacts of moving the Naturita RRM to the Dry Flats disposal site. In 1993, the design for the Dry Flats disposal alternative was changed. The FWS was again consulted in 1993 and provided a new list of threatened and endangered species that may occur in the Naturita study area. The Naturita EA and the biological assessment were revised in response to these changes. In 1994, remedial action was delayed because an alternate disposal site was being considered. The DOE decided to move the FIRM at the Naturita site to the Upper Burbank Quarry at the Uravan site. Due to this delay, the FWS was consulted in 1995 and a list of threatened and endangered species was provided. This biological assessment is a revision of the assessment attached to the Naturita EA and addresses moving the Naturita RRM to the Upper Burbank Quarry disposal site.

Understanding the Reading Attributes and Their Cognitive Relationships on a High-Stakes Biology Assessment

Science.gov (United States)

Rawlusyk, Kevin James

Test items used to assess learners' knowledge on high-stakes science examinations contain contextualized questions that unintentionally assess reading skill along with conceptual knowledge. Therefore, students who are not proficient readers are unable to comprehend the text within the test item to demonstrate effectively their level of science knowledge. The purpose of this quantitative study was to understand what reading attributes were required to successfully answer the Biology 30 Diploma Exam. Furthermore, the research sought to understand the cognitive relationships among the reading attributes through quantitative analysis structured by the Attribute Hierarchy Model (AHM). The research consisted of two phases: (1) Cognitive development, where the cognitive attributes of the Biology 30 Exam were specified and hierarchy structures were developed; and (2) Psychometric analysis, that statistically tested the attribute hierarchy using the Hierarchy Consistency Index (HCI), and calculate attribute probabilities. Phase one of the research used January 2011, Biology 30 Diploma Exam, while phase two accessed archival data for the 9985 examinees who took the assessment on January 24th, 2011. Phase one identified ten specific reading attributes, of which five were identified as unique subsets of vocabulary, two were identified as reading visual representations, and three corresponded to general reading skills. Four hierarchical cognitive model were proposed then analyzed using the HCI as a mechanism to explain the relationship among the attributes. Model A had the highest HCI value (0.337), indicating an overall poor data fit, yet for the top achieving examinees the model had an excellent model fit with an HCI value of 0.888, and for examinees that scored over 60% there was a moderate model fit (HCI = 0.592). Linear regressions of the attribute probability estimates suggest that there is a cognitive relationship among six of the ten reading attributes (R2 = 0.958 and 0

ASSESSMENT OF THE RESPONSE OF PATIENTS WITH CROHN'S DISEASE TO BIOLOGICAL THERAPY USING NEW NON-INVASIVE MARKERS: lactoferrin and calprotectin

Directory of Open Access Journals (Sweden)

Islaine Martins NOGUEIRA

2013-04-01

Full Text Available Context The use of fecal markers to monitor Crohn's disease is crucial for assessing the response to treatment. Objective To assess the inflammatory activity of Crohn's disease by comparing fecal markers (calprotectin and lactoferrin, colonoscopy combined with biopsy, and the Crohn's disease activity index (CDAI, as well as serum markers, before treatment with infliximab, after the end of induction, and after the end of maintenance. Methods Seventeen patients were included who had been previously diagnosed with Crohn's disease and were using conventional treatment but required the introduction of biological therapy with infliximab. Each patient underwent a colonoscopy with biopsy, serum, and fecal (calprotectin and lactoferrin tests to assess inflammatory activity, and CDAI assessments before treatment with infliximab, after induction (week 8, and after maintenance (week 32. Results The calprotectin levels exhibited significant reductions (P = 0.04 between the assessment before treatment with infliximab and the end of induction, which did not occur after the end of the maintenance phase. Lactoferrin remained positive throughout the three phases of the study. Regarding the histological assessment, a significant difference was found only between the assessment before treatment and after the end of maintenance (P = 0.036, and 60% of the patients exhibited histological improvements after the completion of the follow-up period. The CDAI exhibited a significant difference between the assessment before treatment with infliximab and after induction, as well as before treatment and after maintenance (P<0.01. Conclusion Calprotectin and lactoferrin are not useful for monitoring inflammatory activity in Crohn's disease patients who are subjected to biological therapy.

The biological effectiveness of antiproton irradiation

DEFF Research Database (Denmark)

Holzscheiter, Michael H.; Bassler, Niels; Agazaryan, Nzhde

2006-01-01

ever measurements of the biological effectiveness of antiprotons. Materials and methods: V79 cells were suspended in a semi-solid matrix and irradiated with 46.7 MeV antiprotons, 48 MeV protons, or 60Co c-rays. Clonogenic survival was determined as a function of depth along the particle beams. Dose...... and particle fluence response relationships were constructed from data in the plateau and Bragg peak regions of the beams and used to assess the biological effectiveness. Results: Due to uncertainties in antiproton dosimetry we defined a new term, called the biologically effective dose ratio (BEDR), which...... has a higher relative biological effectiveness (RBE). Conclusion: We have produced the first measurements of the biological consequences of antiproton irradiation. These data substantiate theoretical predictions of the biological effects of antiproton annihilation within the Bragg peak, and suggest...

Study on methods of quantitative analysis of the biological thin samples in EM X-ray microanalysis

International Nuclear Information System (INIS)

Zhang Detian; Zhang Xuemin; He Kun; Yang Yi; Zhang Sa; Wang Baozhen

2000-01-01

Objective: To study the methods of quantitative analysis of the biological thin samples. Methods: Hall theory was used to study the qualitative analysis, background subtraction, peel off overlap peaks; external radiation and aberrance of spectra. Results: The results of reliable qualitative analysis and precise quantitative analysis were achieved. Conclusion: The methods for analysis of the biological thin samples in EM X-ray microanalysis can be used in biomedical research

Orthology prediction methods: a quality assessment using curated protein families.

Science.gov (United States)

Trachana, Kalliopi; Larsson, Tomas A; Powell, Sean; Chen, Wei-Hua; Doerks, Tobias; Muller, Jean; Bork, Peer

2011-10-01

The increasing number of sequenced genomes has prompted the development of several automated orthology prediction methods. Tests to evaluate the accuracy of predictions and to explore biases caused by biological and technical factors are therefore required. We used 70 manually curated families to analyze the performance of five public methods in Metazoa. We analyzed the strengths and weaknesses of the methods and quantified the impact of biological and technical challenges. From the latter part of the analysis, genome annotation emerged as the largest single influencer, affecting up to 30% of the performance. Generally, most methods did well in assigning orthologous group but they failed to assign the exact number of genes for half of the groups. The publicly available benchmark set (http://eggnog.embl.de/orthobench/) should facilitate the improvement of current orthology assignment protocols, which is of utmost importance for many fields of biology and should be tackled by a broad scientific community. Copyright © 2011 WILEY Periodicals, Inc.

Artificial intelligence in molecular biology: a review and assessment.

Science.gov (United States)

Rawlings, C J; Fox, J P

1994-06-29

Over the past ten years, molecular biologists and computer scientists have experimented with various computational methods developed in artificial intelligence (AI). AI research has yielded a number of novel technologies, which are typified by an emphasis on symbolic (non-numerical) programming methods aimed at problems which are not amenable to classical algorithmic solutions. Prominent examples include knowledge-based and expert systems, qualitative simulation and artificial neural networks and other automated learning techniques. These methods have been applied to problems in data analysis, construction of advanced databases and modelling of biological systems. Practical results are now being obtained, notably in the recognition of active genes in genomic sequences, the assembly of physical and genetic maps and protein structure prediction. This paper outlines the principal methods, surveys the findings to date, and identifies the promising trends and current limitations.

Numerical study of water diffusion in biological tissues using an improved finite difference method

International Nuclear Information System (INIS)

Xu Junzhong; Does, Mark D; Gore, John C

2007-01-01

An improved finite difference (FD) method has been developed in order to calculate the behaviour of the nuclear magnetic resonance signal variations caused by water diffusion in biological tissues more accurately and efficiently. The algorithm converts the conventional image-based finite difference method into a convenient matrix-based approach and includes a revised periodic boundary condition which eliminates the edge effects caused by artificial boundaries in conventional FD methods. Simulated results for some modelled tissues are consistent with analytical solutions for commonly used diffusion-weighted pulse sequences, whereas the improved FD method shows improved efficiency and accuracy. A tightly coupled parallel computing approach was also developed to implement the FD methods to enable large-scale simulations of realistic biological tissues. The potential applications of the improved FD method for understanding diffusion in tissues are also discussed. (note)

Application of radiochemical methods for development of new biological preparation designed for soil bioremediation

International Nuclear Information System (INIS)

Kim, A.A.; Djuraeva, G.T.; Djumaniyazova, G.I.; Yadgarov, Kh.T.

2006-01-01

Full text: Internationally the bioremediation of agricultural lands contaminated by persistent chloroorganic compounds by means of the microbial methods are used as the most low-cost and the most effective. One of the factors reducing efficacy of microbial degradation, is often the low quantity of microorganisms - destructors in the soil. Therefore, we have designed bioremediation technology of soils, contaminated by organochlorine compounds, with use of the alive microorganisms as active agent. We developed the biological preparation containing 5 aboriginal active strains of bacteria - destructors of persistent chloroorganic compounds and investigated the ability of biological preparation to increase the bioremediation potential of contaminated soils. To carry out the investigation we developed the complex of radiochemical methods with use of tritium labeled PCBs, including the following methods: 1.The method to define the accumulation and degradation of PCBs in soil bacteria in culture allows determination of quantitative characteristics of bacterial strains. 2. The method to define the PCBs degradation by soil bacteria strains in model conditions in the soil allows to estimate the PCB-destructive activity of strains after introducing in soil. 3. A method to define the PCB-destructive activity of own microbiota of contaminated soil. 4. A method to define the effect of stimulation of the PCB-destructive activity of biological preparation and own microbiota of soil with the help of biofertilizers. By using the developed radiochemical methods we have carried out investigation on creation of new biological preparation on the basis of strains of soil bacteria - destructors of PCBs. We also determined the quality and quantity characteristics of HCCH and PCBs-destructive activity of new biological preparation. It is shown that the new biological preparation is capable of accumulation and destruction of the PCBs in culture and in soil at model conditions. Thus, the

Three-dimensional image technology in forensic anthropology: Assessing the validity of biological profiles derived from CT-3D images of the skeleton

Science.gov (United States)

Garcia de Leon Valenzuela, Maria Julia

This project explores the reliability of building a biological profile for an unknown individual based on three-dimensional (3D) images of the individual's skeleton. 3D imaging technology has been widely researched for medical and engineering applications, and it is increasingly being used as a tool for anthropological inquiry. While the question of whether a biological profile can be derived from 3D images of a skeleton with the same accuracy as achieved when using dry bones has been explored, bigger sample sizes, a standardized scanning protocol and more interobserver error data are needed before 3D methods can become widely and confidently used in forensic anthropology. 3D images of Computed Tomography (CT) scans were obtained from 130 innominate bones from Boston University's skeletal collection (School of Medicine). For each bone, both 3D images and original bones were assessed using the Phenice and Suchey-Brooks methods. Statistical analysis was used to determine the agreement between 3D image assessment versus traditional assessment. A pool of six individuals with varying experience in the field of forensic anthropology scored a subsample (n = 20) to explore interobserver error. While a high agreement was found for age and sex estimation for specimens scored by the author, the interobserver study shows that observers found it difficult to apply standard methods to 3D images. Higher levels of experience did not result in higher agreement between observers, as would be expected. Thus, a need for training in 3D visualization before applying anthropological methods to 3D bones is suggested. Future research should explore interobserver error using a larger sample size in order to test the hypothesis that training in 3D visualization will result in a higher agreement between scores. The need for the development of a standard scanning protocol focusing on the optimization of 3D image resolution is highlighted. Applications for this research include the possibility

[Targeted pharmacist-led medication order review in hospital: Assessment of a selection method for drug prescriptions].

Science.gov (United States)

Jarre, C; Bouchet, J; Hellot-Guersing, M; Leromain, A-S; Derharoutunian, C; Gadot, A; Roubille, R

2017-11-01

The aim of this study was to assess a selection method for drug prescriptions developed at the hospital level that allows to target pharmacist-led medication order review for at-risk patients and drugs. A one-month study has been conducted on all targeted medication orders in 19 care units. Selection criteria have been identified: biological criteria, alert medications and drug interactions. Pharmacists' interventions proposed during medication order review were listed and the possible links to the selection criteria were determined. A total of 1612 prescriptions were analysed and 236 pharmacists' interventions were performed (14.6 interventions per 100 prescriptions). Physicians' acceptance rate was 60.6%. The percentage of pharmacists' interventions linked to the selection criteria was 35.6%. The relevance of the biological criteria was identified, particularly the one identifying patients with creatinine clearance below 30ml/min. Six alert medications were also relevant selection criteria: dabigatran, morphine, gentamicin, methotrexate, potassium chloride and trimethoprim sulfamethoxazole. Drug interactions criteria was irrelevant. This study allowed a first assessment of the selection criteria used. A largest study seems necessary to continue the analysis of this selection method for prescriptions, especially the assessment of the alert medications list, in order to refine the prescriptions targeting. Copyright © 2017 Académie Nationale de Pharmacie. Published by Elsevier Masson SAS. All rights reserved.

Biological monitoring and assessment of rivers as a basis for identifying and prioritising river management options

CSIR Research Space (South Africa)

Roux, DJ

1999-01-01

Full Text Available management objectives. This paper demonstrates how the results obtained with biological indices and system-specific knowledge, are combined to derive semi quantitative assessments of ecosystem condition. These assessments provide the basis for responding...

Health effects of low-level ionising radiation: biological basis for risk assessment

International Nuclear Information System (INIS)

Upton, A.C.

1987-01-01

The biological basis for risk assessment is discussed. The risks of carcinogenic effects, teratogenic effects, and genetic (heritable) effects are estimated to vary in proportion with the dose of radiation in the low-dose domain; however, the risks also appear to vary with the LET of the radiation, age at the time of irradiation, and other variables. Although the data suffice to place the risks in perspective with other hazards of modern life, further research to refine the reliability of the risk assessment is called for. (author)

Biological Activity Assessment in Mexican Tropical Soils with Different Hydrocarbon Contamination Histories

OpenAIRE

Riveroll-Larios, Jessica; Escalante-Espinosa, Erika; Fócil-Monterrubio, Reyna L.; Díaz-Ramírez, Ildefonso J.

2015-01-01

The use of soil health indicators linked to microbial activities, such as key enzymes and respirometric profiles, helps assess the natural attenuation potential of soils contaminated with hydrocarbons. In this study, the intrinsic physicochemical characteristics, biological activity and biodegradation potential were recorded for two soils with different contamination histories (>5 years and

Assessment methods for the evaluation of vitiligo.

Science.gov (United States)

Alghamdi, K M; Kumar, A; Taïeb, A; Ezzedine, K

2012-12-01

There is no standardized method for assessing vitiligo. In this article, we review the literature from 1981 to 2011 on different vitiligo assessment methods. We aim to classify the techniques available for vitiligo assessment as subjective, semi-objective or objective; microscopic or macroscopic; and as based on morphometry or colorimetry. Macroscopic morphological measurements include visual assessment, photography in natural or ultraviolet light, photography with computerized image analysis and tristimulus colorimetry or spectrophotometry. Non-invasive micromorphological methods include confocal laser microscopy (CLM). Subjective methods include clinical evaluation by a dermatologist and a vitiligo disease activity score. Semi-objective methods include the Vitiligo Area Scoring Index (VASI) and point-counting methods. Objective methods include software-based image analysis, tristimulus colorimetry, spectrophotometry and CLM. Morphometry is the measurement of the vitiliginous surface area, whereas colorimetry quantitatively analyses skin colour changes caused by erythema or pigment. Most methods involve morphometry, except for the chromameter method, which assesses colorimetry. Some image analysis software programs can assess both morphometry and colorimetry. The details of these programs (Corel Draw, Image Pro Plus, AutoCad and Photoshop) are discussed in the review. Reflectance confocal microscopy provides real-time images and has great potential for the non-invasive assessment of pigmentary lesions. In conclusion, there is no single best method for assessing vitiligo. This review revealed that VASI, the rule of nine and Wood's lamp are likely to be the best techniques available for assessing the degree of pigmentary lesions and measuring the extent and progression of vitiligo in the clinic and in clinical trials. © 2012 The Authors. Journal of the European Academy of Dermatology and Venereology © 2012 European Academy of Dermatology and Venereology.

Assessing environmental quality status by integrating chemical and biological effect data: The Cartagena coastal zone as a case.

Science.gov (United States)

Martínez-Gómez, Concepción; Fernández, Beatriz; Robinson, Craig D; Campillo, J Antonio; León, Víctor M; Benedicto, José; Hylland, Ketil; Vethaak, A Dick

2017-03-01

Cartagena coastal zone (W Mediterranean) was chosen for a practical case study to investigate the suitability of an integrated indicator framework for marine monitoring and assessment of chemicals and their effects, which was developed by ICES and OSPAR. Red mullet (Mullus barbatus) and the Mediterranean mussel (Mytilus galloprovincialis) were selected as target species. Concentrations of contaminants in sediment and biota, and contaminant-related biomarkers were analysed. To assess environmental quality in the Cartagena coastal zone with respect to chemical pollution, data were assessed using available assessment criteria, and then integrated for different environmental matrices. A qualitative scoring method was used to rank the overall assessments into selected categories and to evaluate the confidence level of the final integrated assessment. The ICES/OSPAR integrated assessment framework, originally designed for the North Atlantic, was found to be applicable for Mediterranean species and environmental matrices. Further development of assessment criteria of chemical and biological parameters in sediments and target species from the Mediterranean will, however, be required before this framework can be fully applied for determining Good Environmental Status (GES) of the Marine Strategy Framework Directive in these regions. Copyright © 2016 Elsevier Ltd. All rights reserved.

Assessment of Cultivation Method for Energy Beet Based on LCA Method

OpenAIRE

Zhang, Chunfeng; Liu, Feng; Zu, Yuangang; Meng, Qingying; Zhu, Baoguo; Wang, Nannan

2014-01-01

In order to establish a supply system for energy resource coupled with the environment, the production technology of sugar beets was explored as a biological energy source. The low-humic andosol as the experimental soil, the panting method was direct planting, and cultivation technique was minimum tillage direct planting method. The control was conventional tillage transplant and no tillage direct planting. The results demonstrated that data revealed that the energy cost of no tillage and a d...

Application of photonuclear methods of analysis in biology, medicine, ecological studies

International Nuclear Information System (INIS)

Burmistenko, Yu.N.

1986-01-01

Examples of application of photonuclear methods of analysis (PhMA) of the substance composition in biology, medicine, ecology are considered. The methods for determining the element composition of soft and bone tissues, blood, urine are developed. The results of studying the limits of determination of different elements are presented. In ecological investigations PhMA is applied for studying the composition of atmospheric aerosols, industrial sewage, canalization wastes, pollution of soil, plants, animals with toxic elements

A systematic design method for robust synthetic biology to satisfy design specifications.

Science.gov (United States)

Chen, Bor-Sen; Wu, Chih-Hung

2009-06-30

Synthetic biology is foreseen to have important applications in biotechnology and medicine, and is expected to contribute significantly to a better understanding of the functioning of complex biological systems. However, the development of synthetic gene networks is still difficult and most newly created gene networks are non-functioning due to intrinsic parameter uncertainties, external disturbances and functional variations of intra- and extra-cellular environments. The design method for a robust synthetic gene network that works properly in a host cell under these intrinsic parameter uncertainties and external disturbances is the most important topic in synthetic biology. In this study, we propose a stochastic model that includes parameter fluctuations and external disturbances to mimic the dynamic behaviors of a synthetic gene network in the host cell. Then, based on this stochastic model, four design specifications are introduced to guarantee that a synthetic gene network can achieve its desired steady state behavior in spite of parameter fluctuations, external disturbances and functional variations in the host cell. We propose a systematic method to select a set of appropriate design parameters for a synthetic gene network that will satisfy these design specifications so that the intrinsic parameter fluctuations can be tolerated, the external disturbances can be efficiently filtered, and most importantly, the desired steady states can be achieved. Thus the synthetic gene network can work properly in a host cell under intrinsic parameter uncertainties, external disturbances and functional variations. Finally, a design procedure for the robust synthetic gene network is developed and a design example is given in silico to confirm the performance of the proposed method. Based on four design specifications, a systematic design procedure is developed for designers to engineer a robust synthetic biology network that can achieve its desired steady state behavior

An independent accurate reference method for the determination of chromium in biological materials

NARCIS (Netherlands)

Lagerwaard, A.; Woittiez, J.R.W.; de Goeij, J.J.M.

1994-01-01

A method for the determination of Cr in biological materials with high accuracy is reported for use as an independent reference method. It is based on radiochemical neutron activation analysis (RNAA) in combination with an individual yield determination based on the online yield principle. A

Anti-friction performance of FeS nanoparticle synthesized by biological method

Energy Technology Data Exchange (ETDEWEB)

Zhou, Lu Hai, E-mail: lhzhou@t.shu.edu.cn [School of Materials Science and Engineering, Shanghai University, Shanghai 200444 (China); Wei, Xi Cheng [School of Materials Science and Engineering, Shanghai University, Shanghai 200444 (China); Ma, Zi Jian [Pipe and Bar Division of Baoshan Iron & Steel Co., Ltd., Shanghai 200941 (China); Mei, Bin [Shanghai Medical Instrumentation College, Shanghai 200093 (China)

2017-06-15

Highlights: • FeS nanoparticles were successfully prepared by a biological method. • The anti-friction performance of prepared nanoparticle under oil lubricating and dry condition were analyzed. • The anti-friction mechanism of FeS nanoparticle was discussed. - Abstract: FeS nanoparticle is prepared by a biological method. The size, morphology and structure of the FeS nanoparticle are characterized by the means of X-ray diffraction and transmission electron microscopy. The anti-friction behavior of the FeS nanoparticle as a lubricating oil additive is evaluated in the engine oil by using a face-to-face contact mode. The worn surface is characterized by using the scanning electron microscopy and secondary ion mass spectroscopy in order to find the reasons resulting in the reduction of friction coefficient due to the addition of the FeS nanoparticle. The anti-friction mechanism of the FeS nanoparticle is elucidated based on the experimental results.

Assessment of biological leaf tissue using biospeckle laser imaging technique

Science.gov (United States)

Ansari, M. Z.; Mujeeb, A.; Nirala, A. K.

2018-06-01

We report on the application of an optical imaging technique, the biospeckle laser, as a potential tool to assess biological and medicinal plant leaves. The biospeckle laser technique is a non-invasive and non-destructive optical technique used to investigate biological objects. Just after their removal from plants, the torn leaves were used for biospeckle laser imaging. Quantitative evaluation of the biospeckle data using the inertia moment (IM) of the time history speckle pattern, showed that the IM can be utilized to provide a biospeckle signature to the plant leaves. It showed that leaves from different plants can have their own characteristic IM values. We further investigated the infected regions of the leaves that display a relatively lower biospeckle activity than the healthy tissue. It was easy to discriminate between the infected and healthy regions of the leaf tissue. The biospeckle technique can successfully be implemented as a potential tool for the taxonomy of quality leaves. Furthermore, the technique can help boost the quality of ayurvedic medicines.

Correlation of liquid chromatographic and biological assay for potency assessment of filgrastim and related impurities.

Science.gov (United States)

Skrlin, Ana; Kosor Krnic, Ela; Gosak, Darko; Prester, Berislav; Mrsa, Vladimir; Vuletic, Marko; Runac, Domagoj

2010-11-02

In vivo and in vitro potency assays have always been a critical tool for confirmation of protein activity. However, due to their complexity and time consuming procedures, it remains a challenge to find an alternative analytical approach that would enable their replacement with no impact on the quality of provided information. The goal of this research was to determine if a correlation between liquid chromatography assays and in vitro biological assay could be established for filgrastim (recombinant human granulocyte-colony stimulating factor, rhG-CSF) samples containing various amounts of related impurities. For that purpose, relevant filgrastim related impurities were purified to homogeneity and characterized by liquid chromatography and mass spectrometry. A significant correlation (R(2)>0.90) between the two types of assays was revealed. Potency of oxidized filgrastim was determined to be approximately 25% of filgrastim stated potency (1 x 10(8)IU/mg of protein). Formyl-methionine filgrastim had potency of 89% of the filgrastim stated potency, while filgrastim dimer had 67% of filgrastim stated potency. A mathematical model for the estimation of biological activity of filgrastim samples from chromatography data was established and a significant correlation between experimental potency values and potency values estimated by the mathematical model was obtained (R(2)=0.92). Based on these results a conclusion was made that reversed phase high performance liquid chromatography could be used as an alternative for the in vitro biological assay for potency assessment of filgrastim samples. Such an alternative model would enable substitution of a complex and time consuming biological assay with a robust and precise instrumental method in many practical cases. Copyright (c) 2010 Elsevier B.V. All rights reserved.

Probability of misclassifying biological elements in surface waters.

Science.gov (United States)

Loga, Małgorzata; Wierzchołowska-Dziedzic, Anna

2017-11-24

Measurement uncertainties are inherent to assessment of biological indices of water bodies. The effect of these uncertainties on the probability of misclassification of ecological status is the subject of this paper. Four Monte-Carlo (M-C) models were applied to simulate the occurrence of random errors in the measurements of metrics corresponding to four biological elements of surface waters: macrophytes, phytoplankton, phytobenthos, and benthic macroinvertebrates. Long series of error-prone measurement values of these metrics, generated by M-C models, were used to identify cases in which values of any of the four biological indices lay outside of the "true" water body class, i.e., outside the class assigned from the actual physical measurements. Fraction of such cases in the M-C generated series was used to estimate the probability of misclassification. The method is particularly useful for estimating the probability of misclassification of the ecological status of surface water bodies in the case of short sequences of measurements of biological indices. The results of the Monte-Carlo simulations show a relatively high sensitivity of this probability to measurement errors of the river macrophyte index (MIR) and high robustness to measurement errors of the benthic macroinvertebrate index (MMI). The proposed method of using Monte-Carlo models to estimate the probability of misclassification has significant potential for assessing the uncertainty of water body status reported to the EC by the EU member countries according to WFD. The method can be readily applied also in risk assessment of water management decisions before adopting the status dependent corrective actions.

Eastern Baltic cod in distress: biological changes and challenges for stock assessment

DEFF Research Database (Denmark)

Eero, Margit; Hjelm, Joakim; Behrens, Jane

2015-01-01

The eastern Baltic (EB) cod (Gadus morhua) stock was depleted and overexploited for decades until the mid-2000s, when fishing mortality rapidly declined and biomass started to increase, as shown by stock assessments. These positive developments were partly assigned to effective management measures...... that the stock is in distress. In this study, we (i) summarize the knowledge of recent changes in cod biology and ecosystem conditions, (ii) describe the subsequent challenges for stock assessment, and (iii) highlight the key questions where answers are urgently needed to understand the present stock status...

The impact of biology on risk assessment -- Workshop of the National Research Council's board on radiation effects research. Meeting report

International Nuclear Information System (INIS)

Fry, R.J.M.; Grosovsky, A.; Hanawalt, P.C.; Ullrich, R.L.

1997-01-01

The linear, nonthreshold extrapolation from a dose-response relationship for ionizing radiation derived at higher doses to doses for which regulatory standards are proposed is being challenged by some scientists and defended by others. It appears that the risks associated with exposures to doses of interest are below the risks that can be measured with epidemiologic studies. Therefore, many have looked to biology to provide information relevant to risk assessment. The workshop reported here, ''The Impact of biology on Risk Assessment,'' was planned to address the need for further information by bringing together scientists who have been working in key fields of biology and others who have been contemplating the issues associated specifically with this question. The goals of the workshop were to summarize and review the status of the relevant biology, to determine how the reported biologic data might influence risk assessment, and to identify subjects on which more data is needed

Silver nanoparticles in complex biological media: assessment of colloidal stability and protein corona formation

Energy Technology Data Exchange (ETDEWEB)

Argentiere, Simona, E-mail: simona.argentiere@fondazionefilarete.com; Cella, Claudia, E-mail: claudia.cella@unimi.it [Fondazione Filarete (Italy); Cesaria, Maura, E-mail: maura.cesaria@le.infn.it [Università del Salento, Dipartimento di Matematica e Fisica “Ennio De Giorgi” (Italy); Milani, Paolo, E-mail: paolo.milani@mi.infn.it; Lenardi, Cristina, E-mail: cristina.lenardi@mi.infn.it [Università degli Studi di Milano, CIMAINA and Dipartimento di Fisica (Italy)

2016-08-15

Engineered silver nanoparticles (AgNPs) are among the most used nanomaterials in consumer products, therefore concerns are raised about their potential for adverse effects in humans and environment. Although an increasing number of studies in vitro and in vivo are being reported on the toxicity of AgNPs, most of them suffer from incomplete characterization of AgNPs in the tested biological media. As a consequence, the comparison of toxicological data is troublesome and the toxicity evaluation still remains an open critical issue. The development of a reliable protocol to evaluate interactions of AgNPs with surrounding proteins as well as to assess their colloidal stability is therefore required. In this regard, it is of importance not only to use multiple, easy-to-access and simple techniques but also to understand limitations of each characterization methods. In this work, the morphological and structural behaviour of AgNPs has been studied in two relevant biological media, namely 10 % FBS and MP. Three different techniques (Dynamic Light Scattering, Transmission Electron Microscopy, UV–Vis spectroscopy) were tested for their suitability in detecting AgNPs of three different sizes (10, 40 and 100 nm) coated with either citrate or polyvinylpyrrolidone. Results showed that UV–Vis spectroscopy is the most versatile and informative technique to gain information about interaction between AgNPs and surrounding proteins and to determine their colloidal stability in the tested biological media. These findings are expected to provide useful insights in characterizing AgNPs before performing any further in vitro/in vivo experiment.

Thevenin Equivalent Method for Dynamic Contingency Assessment

DEFF Research Database (Denmark)

Møller, Jakob Glarbo; Jóhannsson, Hjörtur; Østergaard, Jacob

2015-01-01

A method that exploits Thevenin equivalent representation for obtaining post-contingency steady-state nodal voltages is integrated with a method of detecting post-contingency aperiodic small-signal instability. The task of integrating stability assessment with contingency assessment is challenged...... by the cases of unstable post-contingency conditions. For unstable postcontingency conditions there exists no credible steady-state which can be used for basis of a stability assessment. This paper demonstrates how Thevenin Equivalent methods can be applied in algebraic representation of such bifurcation...... points which may be used in assessment of post-contingency aperiodic small-signal stability. The assessment method is introduced with a numeric example....

Bibliographical database of radiation biological dosimetry and risk assessment: Part 2

International Nuclear Information System (INIS)

Straume, T.; Ricker, Y.; Thut, M.

1990-09-01

This is part 11 of a database constructed to support research in radiation biological dosimetry and risk assessment. Relevant publications were identified through detailed searches of national and international electronic databases and through our personal knowledge of the subject. Publications were numbered and key worded, and referenced in an electronic data-retrieval system that permits quick access through computerized searches on authors, key words, title, year, journal name, or publication number. Photocopies of the publications contained in the database are maintained in a file that is numerically arranged by our publication acquisition numbers. This volume contains 1048 additional entries, which are listed in alphabetical order by author. The computer software used for the database is a simple but sophisticated relational database program that permits quick information access, high flexibility, and the creation of customized reports. This program is inexpensive and is commercially available for the Macintosh and the IBM PC. Although the database entries were made using a Macintosh computer, we have the capability to convert the files into the IBM PC version. As of this date, the database cites 2260 publications. Citations in the database are from 200 different scientific journals. There are also references to 80 books and published symposia, and 158 reports. Information relevant to radiation biological dosimetry and risk assessment is widely distributed within the scientific literature, although a few journals clearly predominate. The journals publishing the largest number of relevant papers are Health Physics, with a total of 242 citations in the database, and Mutation Research, with 185 citations. Other journals with over 100 citations in the database, are Radiation Research, with 136, and International Journal of Radiation Biology, with 132

Non-ionizing radiations : physical characteristics, biological effects and health hazard assessment

International Nuclear Information System (INIS)

Repacholi, M.H.

1988-01-01

The Workshop was a project of the International Non-Ionizing Radiation Committee of IRPA and comprised a series of educational lectures and demonstrations intended to give a comprehensive overview of non-ionizing electromagnetic radiation: physical characteristics, sources of concern, levels of exposure, mechanisms of interaction and reported effects of these fields and radiations with biological tissues, human studies, health risk assessment, national and international standards and guidelines, and protective measures

PREDICTING LEVELS OF STRESS FROM BIOLOGICAL ASSESSMENT DATA: EMPIRICAL MODELS FROM THE EASTERN CORN BELT PLAINS

Science.gov (United States)

Biological assessment is becoming an increasingly popular tool in the evaluation of stream ecosystem integrity. However, little progress has been made to date in developing tools to relate assessment results to specific stressors. This paper continues the investigation of the f...

Using aquatic macroinvertebrate species traits to build test batteries for sediment toxicity assessment: accounting for the diversity of potential biological responses to toxicants.

Science.gov (United States)

Ducrot, Virginie; Usseglio-Polatera, Philippe; Péry, T Alexandre R R; Mouthon, Jacques; Lafont, Michel; Roger, Marie-Claude; Garric, Jeanne; Férard, Jean-François

2005-09-01

An original species-selection method for the building of test batteries is presented. This method is based on the statistical analysis of the biological and ecological trait patterns of species. It has been applied to build a macroinvertebrate test battery for the assessment of sediment toxicity, which efficiently describes the diversity of benthic macroinvertebrate biological responses to toxicants in a large European lowland river. First, 109 potential representatives of benthic communities of European lowland rivers were selected from a list of 479 taxa, considering 11 biological traits accounting for the main routes of exposure to a sediment-bound toxicant and eight ecological traits providing an adequate description of habitat characteristics used by the taxa. Second, their biological and ecological trait patterns were compared using coinertia analysis. This comparison allowed the clustering of taxa into groups of organisms that exhibited similar life-history characteristics, physiological and behavioral features, and similar habitat use. Groups exhibited various sizes (7-35 taxa), taxonomic compositions, and biological and ecological features. Main differences among group characteristics concerned morphology, substrate preferendum and habitat utilization, nutritional features, maximal size, and life-history strategy. Third, the best representatives of the mean biological and ecological characteristics of each group were included in the test battery. The final selection was composed of Chironomus riparius (Insecta: Diptera), Branchiura sowerbyi (Oligochaeta: Tubificidae), Lumbriculus variegatus (Oligochaeta: Lumbriculidae), Valvata piscinalis (Gastropoda: Valvatidae), and Sericostoma personatum (Trichoptera: Sericostomatidae). This approach permitted the biological and ecological variety of the battery to be maximized. Because biological and ecological traits of taxa determine species sensitivity, such maximization should permit the battery to better account

Traveling wave solutions of a biological reaction-convection-diffusion equation model by using $(G'/G$ expansion method

Directory of Open Access Journals (Sweden)

Shahnam Javadi

2013-07-01

Full Text Available In this paper, the $(G'/G$-expansion method is applied to solve a biological reaction-convection-diffusion model arising in mathematical biology. Exact traveling wave solutions are obtained by this method. This scheme can be applied to a wide class of nonlinear partial differential equations.

Potential of the PIGE method in the analysis of biological and mineral materials

International Nuclear Information System (INIS)

Havranek, V.

2006-01-01

A possible application of the PIGE method for the analysis of the biological and mineral samples has been tested using a 3.5 MeV Van de Graaff accelerator. The limits of detection of 4 mg/kg for fluorine, 10 mg/kg for aluminium and 200 mg/kg for phosphorus were achieved with a 3.15 MeV proton beam (8 mm in diameter, 20 nA current and 1000 s irradiation time). The PIGE method was found to be a suitable method for the determination of fluorine in the samples analyzed. With this technique, total fluorine in the sample can be quantitated without any chemical treatment. In the analysis of the phosphorus in thick biological samples, PIGE can compete with PIXE and is probably less sensitive to matrix effects and spectra fitting, which may bring about a higher accuracy of the results

The effect of teaching methods on cognitive achievement, retention, and attitude among in biology studying

Directory of Open Access Journals (Sweden)

Snezana Stavrova Veselinovskaa

2011-12-01

Full Text Available The purpose of this paper is to determine the effects of usage of sequential teaching method on the academic achievement and retention level of students. Three student groups of biology students in University “Goce Delcev”, Faculty of Natural and Technical Sciences, Institute of Biology, - Stip, R. Macedonia were offered a topic on general characteristics of Proteins: Their Biological Functions and Primary Structure with different sequences of 3 teaching methods. The teaching methods were Laboratory method (student experiment, slide demonstration and lecture method. The first group started to course with experiments in the laboratory, then the relevant theory of proteins was given lecture method, and then the slides was shown (Group I. The sequence of these three teaching methods used in the first group was changed in both second and third group as follow: The lecture methods, slide show and experiment in Group II, and slide show, experiment and lecture method in Group III, respectively. Laboratory method used in the study was focused on the topic of this diversity and abundance reflect the central role of proteins in virtually all aspects of cell structure and function. Achievement test contained 20 questions, testing the knowledge of facts as well as the ability to transfer the knowledge and problem solving ability. This test was used as pre-test before methods’ application, post-test after the methods’ application and retention test after 30 days from methods’ applied.

Revisiting Individual Creativity Assessment: Triangulation in Subjective and Objective Assessment Methods

Science.gov (United States)

Park, Namgyoo K.; Chun, Monica Youngshin; Lee, Jinju

2016-01-01

Compared to the significant development of creativity studies, individual creativity research has not reached a meaningful consensus regarding the most valid and reliable method for assessing individual creativity. This study revisited 2 of the most popular methods for assessing individual creativity: subjective and objective methods. This study…

Indoor Air Nuclear, Biological, and Chemical Health Modeling and Assessment System

Energy Technology Data Exchange (ETDEWEB)

Stenner, Robert D.; Hadley, Donald L.; Armstrong, Peter R.; Buck, John W.; Hoopes, Bonnie L.; Janus, Michael C.

2001-03-01

Indoor air quality effects on human health are of increasing concern to public health agencies and building owners. The prevention and treatment of 'sick building' syndrome and the spread of air-borne diseases in hospitals, for example, are well known priorities. However, increasing attention is being directed to the vulnerability of our public buildings/places, public security and national defense facilities to terrorist attack or the accidental release of air-borne biological pathogens, harmful chemicals, or radioactive contaminants. The Indoor Air Nuclear, Biological, and Chemical Health Modeling and Assessment System (IA-NBC-HMAS) was developed to serve as a health impact analysis tool for use in addressing these concerns. The overall goal was to develop a user-friendly fully functional prototype Health Modeling and Assessment system, which will operate under the PNNL FRAMES system for ease of use and to maximize its integration with other modeling and assessment capabilities accessible within the FRAMES system (e.g., ambient air fate and transport models, water borne fate and transport models, Physiologically Based Pharmacokinetic models, etc.). The prototype IA-NBC-HMAS is designed to serve as a functional Health Modeling and Assessment system that can be easily tailored to meet specific building analysis needs of a customer. The prototype system was developed and tested using an actual building (i.e., the Churchville Building located at the Aberdeen Proving Ground) and release scenario (i.e., the release and measurement of tracer materials within the building) to ensure realism and practicality in the design and development of the prototype system. A user-friendly "demo" accompanies this report to allow the reader the opportunity for a "hands on" review of the prototype system's capability.

Assessing risks and benefits of floral supplements in conservation biological control

NARCIS (Netherlands)

Winkler, K.; Wackers, F.L.; Termorshuizen, A.J.; Lenteren, van J.C.

2010-01-01

The use of flowering field margins is often proposed as a method to support biological control in agro-ecosystems. In addition to beneficial insects, many herbivores depend on floral food as well. The indiscriminate use of flowering species in field margins can therefore lead to higher pest numbers.

An ecologically-based method for selecting ecological indicators for assessing risks to biological diversity from genetically-engineered plants

DEFF Research Database (Denmark)

Andow, D. A.; Lövei, Gabor L; Arpaia, Salvatore

2013-01-01

into ecological functional groups and selecting those that deliver the identified environmental values. (3) All of the species or ecosystem processes related to the selected functional groups are identified and (4) multi-criteria decision analysis (MCDA) is used to rank the indicator endpoint entities, which may...... adverse effects to biological diversity. The approach starts by (1) identifying the local environmental values so the ERA addresses specific concerns associated with local biological diversity. The model simplifies the indicator endpoint selection problem by (2) classifying biological diversity...... be species or ecological processes. MCDA focuses on those species and processes that are critical for the identified ecological functions and are likely to be highly exposed to the GE organism. The highest ranked indicator entities are selected for the next step. (5) Relevant risk hypotheses are identified...

The acquisition of dangerous biological materials: Technical facts sheets to assist risk assessments of 46 potential BW agents

Energy Technology Data Exchange (ETDEWEB)

Aceto, Donato Gonzalo [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Astuto-Gribble, Lisa M. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Gaudioso, Jennifer M. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

2007-11-01

Numerous terrorist organizations have openly expressed interest in producing and deploying biological weapons. However, a limiting factor for many terrorists has been the acquisition of dangerous biological agents, as evidenced by the very few successful instances of biological weapons use compared to the number of documented hoaxes. Biological agents vary greatly in their ability to cause loss of life and economic damage. Some agents, if released properly, can kill many people and cause an extensive number of secondary infections; other agents will sicken only a small number of people for a short period of time. Consequently, several biological agents can potentially be used to perpetrate a bioterrorism attack but few are likely capable of causing a high consequence event. It is crucial, from a US national security perspective, to more deeply understand the likelihood that terrorist organizations can acquire the range of these agents. Few studies have attempted to comprehensively compile the technical information directly relevant to the acquisition of dangerous bacteria, viruses and toxins. In this report, technical fact sheets were assembled for 46 potentially dangerous biological agents. Much of the information was taken from various research sources which could ultimately and significantly expedite and improve bioterrorism threat assessments. By systematically examining a number of specific agent characteristics included in these fact sheets, it may be possible to detect, target, and implement measures to thwart future terrorist acquisition attempts. In addition, the information in these fact sheets may be used as a tool to help laboratories gain a rudimentary understanding of how attractive a method laboratory theft is relative to other potential acquisition modes.

Assessment of the biological variation of plasma tissue inhibitor of metalloproteinases-1

DEFF Research Database (Denmark)

Frederiksen, C.B.; Lomholt, Anne Fog; Lottenburger, Tine

2008-01-01

BACKGROUND: Tissue inhibitor of metalloproteinases-1 (TIMP-1) measurements in plasma may be useful for the early detection and prognosis of colorectal cancer (CRC). Data on analytical performance and normal intra- and interindividual biological variation are required in order to interpret...... the utility of TIMP-1 in CRC. The aim of this study was to establish the biological and analytical variation of plasma TIMP-1 in volunteers. MATERIAL AND METHODS: Three separate studies were undertaken. 1: Plasma was collected from 23 volunteers 6 times within a 3-week period, first in September 2004 (round...

Risk assessment theory, methods, and applications

CERN Document Server

Rausand, Marvin

2011-01-01

With its balanced coverage of theory and applications along with standards and regulations, Risk Assessment: Theory, Methods, and Applications serves as a comprehensive introduction to the topic. The book serves as a practical guide to current risk analysis and risk assessment, emphasizing the possibility of sudden, major accidents across various areas of practice from machinery and manufacturing processes to nuclear power plants and transportation systems. The author applies a uniform framework to the discussion of each method, setting forth clear objectives and descriptions, while also shedding light on applications, essential resources, and advantages and disadvantages. Following an introduction that provides an overview of risk assessment, the book is organized into two sections that outline key theory, methods, and applications. * Introduction to Risk Assessment defines key concepts and details the steps of a thorough risk assessment along with the necessary quantitative risk measures. Chapters outline...

Development of the Biology Card Sorting Task to Measure Conceptual Expertise in Biology

Science.gov (United States)

Smith, Julia I.; Combs, Elijah D.; Nagami, Paul H.; Alto, Valerie M.; Goh, Henry G.; Gourdet, Muryam A. A.; Hough, Christina M.; Nickell, Ashley E.; Peer, Adrian G.; Coley, John D.; Tanner, Kimberly D.

2013-01-01

There are widespread aspirations to focus undergraduate biology education on teaching students to think conceptually like biologists; however, there is a dearth of assessment tools designed to measure progress from novice to expert biological conceptual thinking. We present the development of a novel assessment tool, the Biology Card Sorting Task,…

A simple method of fabricating mask-free microfluidic devices for biological analysis.

KAUST Repository

Yi, Xin; Kodzius, Rimantas; Gong, Xiuqing; Xiao, Kang; Wen, Weijia

2010-01-01

We report a simple, low-cost, rapid, and mask-free method to fabricate two-dimensional (2D) and three-dimensional (3D) microfluidic chip for biological analysis researches. In this fabrication process, a laser system is used to cut through paper

A method to assess maritime resilience

NARCIS (Netherlands)

Rypkema, J.A.; Beek, F.A. van der; Schraagen, J.M.C.; Winkelman, J.W.; Wijngaarden, M. van

2015-01-01

The aim of this study is to develop a multi-level resilience analysis method (RAM) to assess risk and performance variability in current maritime socio-technical systems (STSs). The method integrates Hollnagel’s four resilience abilities to assess a system’s ability to effectively cope with

Novel tendencies in developing small-angle neutron scattering methods for studying the structure of biological macromolecules

International Nuclear Information System (INIS)

Serdyuk, I.

1995-01-01

In recent 20 years thermal neutron scattering has been acknowledged an important instrument for structural studies in molecular biology. The methods of neutron diffraction of high resolution, which are not discussed in this paper, have already permitted to obtain a detailed representation of the course of proteolytic reactions and have arisen a number of new problems connected with the localization of water molecules and the H-D exchange. The methods of low resolution widely used due to a relative simplicity of the experiment have been successfully applied for both solving structural problems per se and investigating the changes in the structure when macromolecules perform their biological functions. The most promising are novel experimental approaches: the triple isotopic substitution method and the method of spin dynamic polarization. These methods ensure solving structural problems at a higher resolution than the dimensions of the macromolecules studied. Installation of new experimental instruments makes neutron measurements more accessible, and development of direct methods for interpretation of experimental data using the apparatus of spherical harmonics opens new possibilities for small-angle neutron scattering making it a necessary element for interpretation of diffraction data of monocrystals of intricate biological macromolecules. The paper presents a brief account of the tendencies in theoretical development and practical use of small-angle scattering for studying biological macromolecules. Special attention is given to the studies carried out in the Laboratory of Neutron Physics on a unique pulse IBR-2 reactor. (author) 14 refs

Research on probabilistic assessment method based on the corroded pipeline assessment criteria

International Nuclear Information System (INIS)

Zhang Guangli; Luo, Jinheng; Zhao Xinwei; Zhang Hua; Zhang Liang; Zhang Yi

2012-01-01

Pipeline integrity assessments are performed using conventional deterministic approaches, even though there are many uncertainties about the parameters in the pipeline integrity assessment. In this paper, a probabilistic assessment method is provided for the gas pipeline with corrosion defects based on the current corroded pipe evaluation criteria, and the failure probability of corroded pipelines due to the uncertainties of loadings, material property and measurement accuracy is estimated using Monte-Carlo technique. Furthermore, the sensitivity analysis approach is introduced to rank the influence of various random variables to the safety of pipeline. And the method to determine the critical defect size based on acceptable failure probability is proposed. Highlights: ► The folias factor in pipeline corrosion assessment methods was analyzed. ► The probabilistic method was applied in corrosion assessment methods. ► The influence of assessment variables to the reliability of pipeline was ranked. ► The acceptable failure probability was used to determine the critical defect size.

Comparison of growth methods and biological activities of brazilian marine Streptomyces

Directory of Open Access Journals (Sweden)

A. C. Granato

2013-03-01

Full Text Available The present work describes the study of the growth and the cytotoxic and antitumor activities of the extracts of the marine microorganisms Streptomyces acrymicini and Streptomyces cebimarensis, the latter a new strain. Both microorganisms were collected from coastal marine sediments of the north coast of São Paulo state. Growth was performed in a shaker and in a bioreactor using Gym medium and the broths of both microorganisms were extracted with ethyl acetate and n-butanol. Three extracts, two organic and one aqueous, from each microorganism were obtained and tested for cytotoxic and antitumor activity using the SF-295 (Central Nervous System, HCT-8 (Colon cell lines, and the MTT (3-(4,5-dimethylthiazol-2-yl-2,5-diphenyltetrazolium bromide method. The growth methods were compared and show that, although the shaker presented reasonable results, the bioreactor represents the best choice for growth of these microorganisms. The biological activity of the different extracts was evaluated and it was demonstrated that the growth methodology may influence the secondary metabolite production and the biological activity.

The impact of biology on risk assessment -- Workshop of the National Research Council`s board on radiation effects research. Meeting report

Energy Technology Data Exchange (ETDEWEB)

Fry, R.J.M. [Oak Ridge National Lab., TN (United States); Grosovsky, A. [Univ. of California, Riverside, CA (United States); Hanawalt, P.C. [Stanford Univ., CA (United States). Dept. of Biological Sciences; Jostes, R.F. [National Academy of Sciences, Washington, DC (United States). Board on Radiation Effects Research; Little, J.B. [Harvard School of Public Health, Boston, MA (United States). Dept. of Cancer Biology; Morgan, W.F. [Univ. of California, San Francisco, CA (United States). Dept. of Radiation Oncology; Oleinick, N.L. [Case Western Reserve Univ., Cleveland, OH (United States); Ullrich, R.L. [Univ. of Texas Medical Branch, Galveston, TX (United States). Dept. of Radiation Therapy

1997-12-31

The linear, nonthreshold extrapolation from a dose-response relationship for ionizing radiation derived at higher doses to doses for which regulatory standards are proposed is being challenged by some scientists and defended by others. It appears that the risks associated with exposures to doses of interest are below the risks that can be measured with epidemiologic studies. Therefore, many have looked to biology to provide information relevant to risk assessment. The workshop reported here, ``The Impact of biology on Risk Assessment,`` was planned to address the need for further information by bringing together scientists who have been working in key fields of biology and others who have been contemplating the issues associated specifically with this question. The goals of the workshop were to summarize and review the status of the relevant biology, to determine how the reported biologic data might influence risk assessment, and to identify subjects on which more data is needed.

NATO Advanced Research Workshop, 19-22 May 1997: Rapid Method for Monitoring the Environment for Biological Hazards

National Research Council Canada - National Science Library

1997-01-01

The NATO Advanced Research Workshop met for the purpose of bringing to light rapid methods for monitoring the environment for biological hazards such as biological warfare agents, naturally occurring...

Assessment of necessary regularity of internal irradiation monitoring on the basis of direct and indirect methods of dosimetry

International Nuclear Information System (INIS)

Malykhin, V.M.; Ivanova, N.I.

1981-01-01

It is shown that when assessing the necessary periodicity of internal irradiation monitoring, it is required to take account of the nature (rhythm) of radionuclide intake to the organism during the monitoring period, the effective period of radionuclide biological half-life, its activity in the organism, sensitivity of the technique applied and the labour-consumig character of the monitoring method [ru

A new method for dosing uranium in biological media

International Nuclear Information System (INIS)

Henry, Ph.; Kobisch, Ch.

1964-01-01

This report describes a new method for dosing uranium in biological media based on measurement of alpha activity. After treatment of the sample with a mineral acid, the uranium is reduced to the valency four by trivalent titanium and is precipitated as phosphate in acid solution. The uranium is then separated from the titanium by precipitation as UF 4 with lanthanum as carrier. A slight modification, unnecessary in the case of routine analyses, makes it possible to eliminate other possible alpha emitters (thorium and transuranic elements). (authors) [fr

Analytical methods for determination of terbinafine hydrochloride in pharmaceuticals and biological materials

Directory of Open Access Journals (Sweden)

Basavaiah Kanakapura

2016-06-01

Full Text Available Terbinafine is a new powerful antifungal agent indicated for both oral and topical treatment of mycosessince. It is highly effective in the treatment of determatomycoses. The chemical and pharmaceutical analysis of the drug requires effective analytical methods for quality control and pharmacodynamic and pharmacokinetic studies. Ever since it was introduced as an effective antifungal agent, many methods have been developed and validated for its assay in pharmaceuticals and biological materials. This article reviews the various methods reported during the last 25 years.

Separation methods for captopril in pharmaceuticals and biological fluids.

Science.gov (United States)

Mansour, Fotouh R; Danielson, Neil D

2012-06-01

Captopril (CAP) is an orally active angiotensin-converting enzyme (ACE) inhibitor and has been widely used for management of hypertension and congestive heart failure. CAP lacks an aromatic chromophore required for facile direct UV detection and also has two chiral centers. These factors can render the determination of CAP in complex matrices challenging. This review covers more than 20 years of analytical research on this drug, focusing mainly on pharmaceutical and biological applications. The primary separation techniques discussed are gas chromatography, liquid chromatography, and capillary electrophoresis. The structures of the CAP derivatizing agents as well as a table summarizing various HPLC methods are provided. A discussion of key recent chromatographic and electrophoretic methods for other ACE inhibitors is also present. © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

A complex neutron activation method for the analysis of biological materials

International Nuclear Information System (INIS)

Ordogh, M.

1978-01-01

The aim of the present work was to deal primarily with a few essential trace elements and to obtain reliable results of adequate accuracy and precision for the analysis of biological samples. A few other than trace elements were determined by the nondestructive technique as they can be well evaluated from the gamma-spectra. In the development of the method BOWEN's kale was chosen as model material. To confirm the reliability of the method two samples were analysed proposed by the IAEA in the frame of an international comparative analysis series. The comparative analysis shows the present method to be reliable, the precision and accuracy are good. (author)

Evaluation of Different Estimation Methods for Accuracy and Precision in Biological Assay Validation.

Science.gov (United States)

Yu, Binbing; Yang, Harry

2017-01-01

Biological assays ( bioassays ) are procedures to estimate the potency of a substance by studying its effects on living organisms, tissues, and cells. Bioassays are essential tools for gaining insight into biologic systems and processes including, for example, the development of new drugs and monitoring environmental pollutants. Two of the most important parameters of bioassay performance are relative accuracy (bias) and precision. Although general strategies and formulas are provided in USP, a comprehensive understanding of the definitions of bias and precision remain elusive. Additionally, whether there is a beneficial use of data transformation in estimating intermediate precision remains unclear. Finally, there are various statistical estimation methods available that often pose a dilemma for the analyst who must choose the most appropriate method. To address these issues, we provide both a rigorous definition of bias and precision as well as three alternative methods for calculating relative standard deviation (RSD). All methods perform similarly when the RSD ≤10%. However, the USP estimates result in larger bias and root-mean-square error (RMSE) compared to the three proposed methods when the actual variation was large. Therefore, the USP method should not be used for routine analysis. For data with moderate skewness and deviation from normality, the estimates based on the original scale perform well. The original scale method is preferred, and the method based on log-transformation may be used for noticeably skewed data. LAY ABSTRACT: Biological assays, or bioassays, are essential in the development and manufacture of biopharmaceutical products for potency testing and quality monitoring. Two important parameters of assay performance are relative accuracy (bias) and precision. The definitions of bias and precision in USP 〈1033〉 are elusive and confusing. Another complicating issue is whether log-transformation should be used for calculating the

An novel frequent probability pattern mining algorithm based on circuit simulation method in uncertain biological networks

Science.gov (United States)

2014-01-01

Background Motif mining has always been a hot research topic in bioinformatics. Most of current research on biological networks focuses on exact motif mining. However, due to the inevitable experimental error and noisy data, biological network data represented as the probability model could better reflect the authenticity and biological significance, therefore, it is more biological meaningful to discover probability motif in uncertain biological networks. One of the key steps in probability motif mining is frequent pattern discovery which is usually based on the possible world model having a relatively high computational complexity. Methods In this paper, we present a novel method for detecting frequent probability patterns based on circuit simulation in the uncertain biological networks. First, the partition based efficient search is applied to the non-tree like subgraph mining where the probability of occurrence in random networks is small. Then, an algorithm of probability isomorphic based on circuit simulation is proposed. The probability isomorphic combines the analysis of circuit topology structure with related physical properties of voltage in order to evaluate the probability isomorphism between probability subgraphs. The circuit simulation based probability isomorphic can avoid using traditional possible world model. Finally, based on the algorithm of probability subgraph isomorphism, two-step hierarchical clustering method is used to cluster subgraphs, and discover frequent probability patterns from the clusters. Results The experiment results on data sets of the Protein-Protein Interaction (PPI) networks and the transcriptional regulatory networks of E. coli and S. cerevisiae show that the proposed method can efficiently discover the frequent probability subgraphs. The discovered subgraphs in our study contain all probability motifs reported in the experiments published in other related papers. Conclusions The algorithm of probability graph isomorphism

Methods of integrating Islamic values in teaching biology for shaping attitude and character

Science.gov (United States)

Listyono; Supardi, K. I.; Hindarto, N.; Ridlo, S.

2018-03-01

Learning is expected to develop the potential of learners to have the spiritual attitude: moral strength, self-control, personality, intelligence, noble character, as well as the skills needed by themselves, society, and nation. Implementation of role and morale in learning is an alternative way which is expected to answer the challenge. The solution offered is to inject student with religious material Islamic in learning biology. The content value of materials teaching biology includes terms of practical value, religious values, daily life value, socio-political value, and the value of art. In Islamic religious values (Qur'an and Hadith) various methods can touch human feelings, souls, and generate motivation. Integrating learning with Islamic value can be done by the deductive or inductive approach. The appropriate method of integration is the amtsal (analog) method, hiwar (dialog) method, targhib & tarhib (encouragement & warning) method, and example method (giving a noble role model / good example). The right strategy in integrating Islamic values is outlined in the design of lesson plan. The integration of Islamic values in lesson plan will facilitate teachers to build students' character because Islamic values can be implemented in every learning steps so students will be accustomed to receiving the character value in this integrated learning.

Biological optimization systems for enhancing photosynthetic efficiency and methods of use

Science.gov (United States)

Hunt, Ryan W.; Chinnasamy, Senthil; Das, Keshav C.; de Mattos, Erico Rolim

2012-11-06

Biological optimization systems for enhancing photosynthetic efficiency and methods of use. Specifically, methods for enhancing photosynthetic efficiency including applying pulsed light to a photosynthetic organism, using a chlorophyll fluorescence feedback control system to determine one or more photosynthetic efficiency parameters, and adjusting one or more of the photosynthetic efficiency parameters to drive the photosynthesis by the delivery of an amount of light to optimize light absorption of the photosynthetic organism while providing enough dark time between light pulses to prevent oversaturation of the chlorophyll reaction centers are disclosed.

Energy consumption assessment methods

Energy Technology Data Exchange (ETDEWEB)

Sutherland, K S

1975-01-01

The why, what, and how-to aspects of energy audits for industrial plants, and the application of energy accounting methods to a chemical plant in order to assess energy conservation possibilities are discussed. (LCL)

Biological indicators capable of assessing thermal treatment efficiency of hydrocarbon mixture-contaminated soil.

Science.gov (United States)

Wang, Jiangang; Zhan, Xinhua; Zhou, Lixiang; Lin, Yusuo

2010-08-01

In China, there are many special sites for recycling and washing the used drums, which release a variety of C5-C40 hydrocarbon mixture into the soil around the site. The remediation of these contaminated sites by thermal treatment is adopted ubiquitously and needs to be assessed. Here we report the feasibility of biological indicators applied to assess thermal treatment efficiency in such contaminated soil. A series of biological indicators, including seed germination index (SGI), root elongation index (REI), plant growth height, biomass, carbon dioxide evolved (CDE), soil respiration inhibition (SRI) and soil enzymatic activities, were employed to monitor or assess hydrocarbon mixture removal in thermal treated soil. The results showed that residual hydrocarbon mixture content correlated strongly negatively with SGI for sesamum (Sesamum indicum L.), plant height, and biomass for ryegrass (Lolium perenne L.) in the concentration ranges of 0-3990, 0-3170 and 0-2910 mg kg(-1), respectively. In contrast, REI for sesamum was positively correlated with residual hydrocarbon mixture content from 0 to 1860 mg kg(-1). In addition, both CDE and SRI demonstrated that 600 mg kg(-1) of residual hydrocarbon mixture content caused the highest amount of soil carbon dioxide emission and inhabitation of soil respiration. The results of soil enzymes indicated that 1000 mg kg(-1) of residual hydrocarbon mixture content was the threshold value of stimulating or inhibiting the activities of phosphatase and catalase, or completely destroying the activities of dehydrogenase, invertase, and urease. In conclusion, these biological indicators can be used as a meaningful complementation for traditional chemical content measurement in evaluating the environmental risk of the contaminated sites before and after thermal treatment. (c) 2010 Elsevier Ltd. All rights reserved.

Assessment of radiation damage - the need for a multi-parametric and integrative approach with the help of both clinical and biological dosimetry

International Nuclear Information System (INIS)

Meineke, Viktor

2008-01-01

Full text: Accidental exposure to ionising radiation leads to a damage on different levels of the biological organization of the organism. Depending on exposure conditions, such as nature of radiation, time and affected organs and organ systems, the clinical endpoint of radiation damage and the resulting acute and chronic radiation syndromes may vary to a great extent. Exposure situations range from pure localised radiation scenarios and partial body exposures up to whole body exposures. Therefore clinical pictures vary from localized radiation injuries up to the extreme situation of a radiation-induced multi-organ involvement and failure requiring immediate, intensive and interdisciplinary medical treatment. These total different and complex clinical situations not only show up most different clinical diagnostic and therapeutic aspects but necessarily due to different levels of the underlying biological damage, biological indicators of effects may vary to a wide extent. This fact means that an exact assessment of the extent of radiation damage within individual patients can only be performed when taking into consideration both clinical signs and symptoms as well as different biological indicators. Among the clinical indicators, routine laboratory parameters such as blood counts and the documentation of clinical signs and symptoms (such as the METREPOL system) are the key parameters, whereas the dicentric assay, the gold standard for biological dosimetry, but also methods under development such as the gamma-H2Ax focus assay or the estimation of variations of gene expression have to be taken into account. Each method provides best results in different situations, or in other words, there are methods that work better in a specific exposure condition or at a given time of examination (e.g. time after exposure) than others. Some methods show up results immediately, others require days to weeks until results are available for clinical decision making. Therefore to

Conceptual Elements: A Detailed Framework to Support and Assess Student Learning of Biology Core Concepts

Science.gov (United States)

Cary, Tawnya; Branchaw, Janet

2017-01-01

The Vision and Change in Undergraduate Biology Education: Call to Action report has inspired and supported a nationwide movement to restructure undergraduate biology curricula to address overarching disciplinary concepts and competencies. The report outlines the concepts and competencies generally but does not provide a detailed framework to guide the development of the learning outcomes, instructional materials, and assessment instruments needed to create a reformed biology curriculum. In this essay, we present a detailed Vision and Change core concept framework that articulates key components that transcend subdisciplines and scales for each overarching biological concept, the Conceptual Elements (CE) Framework. The CE Framework was developed using a grassroots approach of iterative revision and incorporates feedback from more than 60 biologists and undergraduate biology educators from across the United States. The final validation step resulted in strong national consensus, with greater than 92% of responders agreeing that each core concept list was ready for use by the biological sciences community, as determined by scientific accuracy and completeness. In addition, we describe in detail how educators and departments can use the CE Framework to guide and document reformation of individual courses as well as entire curricula. PMID:28450444

A microbiology-based multi-parametric approach towards assessing biological stability in drinking water distribution networks

KAUST Repository

Lautenschlä ger, Karin; Hwang, Chiachi; Liu, Wentso; Boon, Nico; Kö ster, Oliver; Vrouwenvelder, Johannes S.; Egli, Thomas; Hammes, Frederik A.

2013-01-01

Biological stability of drinking water implies that the concentration of bacterial cells and composition of the microbial community should not change during distribution. In this study, we used a multi-parametric approach that encompasses different aspects of microbial water quality including microbial growth potential, microbial abundance, and microbial community composition, to monitor biological stability in drinking water of the non-chlorinated distribution system of Zürich. Drinking water was collected directly after treatment from the reservoir and in the network at several locations with varied average hydraulic retention times (6-52h) over a period of four months, with a single repetition two years later. Total cell concentrations (TCC) measured with flow cytometry remained remarkably stable at 9.5 (±0.6)×104cells/ml from water in the reservoir throughout most of the distribution network, and during the whole time period. Conventional microbial methods like heterotrophic plate counts, the concentration of adenosine tri-phosphate, total organic carbon and assimilable organic carbon remained also constant. Samples taken two years apart showed more than 80% similarity for the microbial communities analysed with denaturing gradient gel electrophoresis and 454 pyrosequencing. Only the two sampling locations with the longest water retention times were the exceptions and, sofar for unknown reasons, recorded a slight but significantly higher TCC (1.3(±0.1)×105cells/ml) compared to the other locations. This small change in microbial abundance detected by flow cytometry was also clearly observed in a shift in the microbial community profiles to a higher abundance of members from the Comamonadaceae (60% vs. 2% at other locations). Conventional microbial detection methods were not able to detect changes as observed with flow cytometric cell counts and microbial community analysis. Our findings demonstrate that the multi-parametric approach used provides a powerful

A microbiology-based multi-parametric approach towards assessing biological stability in drinking water distribution networks.

Science.gov (United States)

Lautenschlager, Karin; Hwang, Chiachi; Liu, Wen-Tso; Boon, Nico; Köster, Oliver; Vrouwenvelder, Hans; Egli, Thomas; Hammes, Frederik

2013-06-01

Biological stability of drinking water implies that the concentration of bacterial cells and composition of the microbial community should not change during distribution. In this study, we used a multi-parametric approach that encompasses different aspects of microbial water quality including microbial growth potential, microbial abundance, and microbial community composition, to monitor biological stability in drinking water of the non-chlorinated distribution system of Zürich. Drinking water was collected directly after treatment from the reservoir and in the network at several locations with varied average hydraulic retention times (6-52 h) over a period of four months, with a single repetition two years later. Total cell concentrations (TCC) measured with flow cytometry remained remarkably stable at 9.5 (± 0.6) × 10(4) cells/ml from water in the reservoir throughout most of the distribution network, and during the whole time period. Conventional microbial methods like heterotrophic plate counts, the concentration of adenosine tri-phosphate, total organic carbon and assimilable organic carbon remained also constant. Samples taken two years apart showed more than 80% similarity for the microbial communities analysed with denaturing gradient gel electrophoresis and 454 pyrosequencing. Only the two sampling locations with the longest water retention times were the exceptions and, so far for unknown reasons, recorded a slight but significantly higher TCC (1.3 (± 0.1) × 10(5) cells/ml) compared to the other locations. This small change in microbial abundance detected by flow cytometry was also clearly observed in a shift in the microbial community profiles to a higher abundance of members from the Comamonadaceae (60% vs. 2% at other locations). Conventional microbial detection methods were not able to detect changes as observed with flow cytometric cell counts and microbial community analysis. Our findings demonstrate that the multi-parametric approach used

A microbiology-based multi-parametric approach towards assessing biological stability in drinking water distribution networks

KAUST Repository

Lautenschläger, Karin

2013-06-01

Biological stability of drinking water implies that the concentration of bacterial cells and composition of the microbial community should not change during distribution. In this study, we used a multi-parametric approach that encompasses different aspects of microbial water quality including microbial growth potential, microbial abundance, and microbial community composition, to monitor biological stability in drinking water of the non-chlorinated distribution system of Zürich. Drinking water was collected directly after treatment from the reservoir and in the network at several locations with varied average hydraulic retention times (6-52h) over a period of four months, with a single repetition two years later. Total cell concentrations (TCC) measured with flow cytometry remained remarkably stable at 9.5 (±0.6)×104cells/ml from water in the reservoir throughout most of the distribution network, and during the whole time period. Conventional microbial methods like heterotrophic plate counts, the concentration of adenosine tri-phosphate, total organic carbon and assimilable organic carbon remained also constant. Samples taken two years apart showed more than 80% similarity for the microbial communities analysed with denaturing gradient gel electrophoresis and 454 pyrosequencing. Only the two sampling locations with the longest water retention times were the exceptions and, sofar for unknown reasons, recorded a slight but significantly higher TCC (1.3(±0.1)×105cells/ml) compared to the other locations. This small change in microbial abundance detected by flow cytometry was also clearly observed in a shift in the microbial community profiles to a higher abundance of members from the Comamonadaceae (60% vs. 2% at other locations). Conventional microbial detection methods were not able to detect changes as observed with flow cytometric cell counts and microbial community analysis. Our findings demonstrate that the multi-parametric approach used provides a powerful

Quantitative determination of nitrogen biological fixation by the N-15 isotopic method

International Nuclear Information System (INIS)

Basantes, Emilio; Trivelin, Paulo; Mui Tsai, Siu

1993-01-01

In order to quantify the biological nitrogen fixation (BNF) and to evaluate the mycorrhiza effect in the BNF, an experiment was carried on by applying 1 5 N -ammonium sulphate and mycorrhiza fungi to the soil. The treatments included legumes: mucuna negra(Stizolobium atterrinum Piper et Tracv) and caupi (Vigna unguiculoata L. Walp). Two control plants: non nodulating soybean (Glycine max L.Merril) and rice (Oryza sativa), were used for measuring the fixed N in the legumes by isotope dilution method. Both legumes and control plants assimmilated the same ammounts of nitrogen from the soil and fertilizer. The greater N content in the legumnes was determined as coming from the fixed nitrogen. Rice and non nodulating soybean showed to be good controls for measuring biological nitrogen fixation using isotopic dilution method. The values of fixed nitrogen for legumes calculated using rice as control plant were slightly greater than those with non nodulating soybean, nevertheless there were no significant statistical differences between the values. The mucuna fixed more N than caupi in both mycorrhiza treatments (76.7, 66.6 and 56. 7 per cent of N fixed, respectively). The mycorrhiza increased dry matter yield (13.84 per cent), accumulation of N in the plant(14.85 per cent N) and the biological N fixation (16.06 per cent N-fixed) in caupi

Assessment of the biological effects of 'strange' radiation

International Nuclear Information System (INIS)

Pryakhin, E.A.; Tryapitsina, G.A.; Urutskoyev, L.I.; Akleyev, A.V.

2006-01-01

from explosion of Ti foils in water and aqueous solutions has the capacity to produce a biological effect. 2. The biological effect of 'strange' radiation is manifested by a 13% increase in the number of nucleated cells in the bone marrow, as compared to that in controls, after exposure of the animals to 10 explosions within 3 days of the experiment. 3. The assessment of micronucleus rate in the bone marrow erythrocytes did not reveal the genotoxic effect of 'strange' radiation. 4. The exposure of mice to 'strange' radiation resulting from 10 explosions carried out within 3 days leads to 1.5 fold decrease of genotoxic effect resulting from additional gamma-irradiation (2 Gy). Such reaction may be described as an adaptive response. 5. 'strange' radiation resulting from 10 explosions carried out within 3 days after the gamma irradiation (6 Gy) leads to decrease of bone marrow repopulation. 6. The exposure to 'strange' radiation can bring about an increase in the proportion of neutrophils in the peripheral blood of experimental animals. 7. It can be suggested by the results of the test exposures that 'strange' radiation can affect human health. 8. It has been shown by these preliminary studies that in order to gain an insight into the biological effects of 'strange' radiation further investigation would be necessary. (authors)

Evaluation methods for assessing effectiveness of in situ remediation of soil and sediment contaminated with organic pollutants and heavy metals.

Science.gov (United States)

Song, Biao; Zeng, Guangming; Gong, Jilai; Liang, Jie; Xu, Piao; Liu, Zhifeng; Zhang, Yi; Zhang, Chen; Cheng, Min; Liu, Yang; Ye, Shujing; Yi, Huan; Ren, Xiaoya

2017-08-01

Soil and sediment contamination has become a critical issue worldwide due to its great harm to the ecological environment and public health. In recent years, many remediation technologies including physical, chemical, biological, and combined methods have been proposed and adopted for the purpose of solving the problems of soil and sediment contamination. However, current research on evaluation methods for assessing these remediation technologies is scattered and lacks valid and integrated evaluation methods for assessing the remediation effectiveness. This paper provides a comprehensive review with an environmental perspective on the evaluation methods for assessing the effectiveness of in situ remediation of soil and sediment contaminated with organic pollutants and heavy metals. The review systematically summarizes recent exploration and attempts of the remediation effectiveness assessment based on the content of pollutants, soil and sediment characteristics, and ecological risks. Moreover, limitations and future research needs of the practical assessment are discussed. These limitations are not conducive to the implementation of the abatement and control programs for soil and sediment contamination. Therefore, more attention should be paid to the evaluation methods for assessing the remediation effectiveness while developing new in situ remediation technologies in future research. Copyright © 2017 Elsevier Ltd. All rights reserved.

Using alternative biological information in stock assessment: condition-corrected natural mortality of Eastern Baltic cod

DEFF Research Database (Denmark)

Casini, Michele; Eero, Margit; Carlshamre, Sofia

2016-01-01

) assumed in the analytical stock assessment model. The results in terms of Spawning Stock Biomass (SSB), Fishing mortality (F) and Recruitment (R) in the final year from the stock assessment using M values adjusted for low condition were up to 40% different compared with the assessment assuming a constant......The inclusion of biological and ecological aspects in the assessment of fish population status is one of the bases for an ecosystem-based fisheries management. During the past two decades the Eastern Baltic cod has experienced a drastic reduction in growth and body condition that may have affected...

Multi-energy method of digital radiography for imaging of biological objects

Science.gov (United States)

Ryzhikov, V. D.; Naydenov, S. V.; Opolonin, O. D.; Volkov, V. G.; Smith, C. F.

2016-03-01

This work has been dedicated to the search for a new possibility to use multi-energy digital radiography (MER) for medical applications. Our work has included both theoretical and experimental investigations of 2-energy (2E) and 3- energy (3D) radiography for imaging the structure of biological objects. Using special simulation methods and digital analysis based on the X-ray interaction energy dependence for each element of importance to medical applications in the X-ray range of energy up to 150 keV, we have implemented a quasi-linear approximation for the energy dependence of the X-ray linear mass absorption coefficient μm (E) that permits us to determine the intrinsic structure of the biological objects. Our measurements utilize multiple X-ray tube voltages (50, 100, and 150 kV) with Al and Cu filters of different thicknesses to achieve 3-energy X-ray examination of objects. By doing so, we are able to achieve significantly improved imaging quality of the structure of the subject biological objects. To reconstruct and visualize the final images, we use both two-dimensional (2D) and three-dimensional (3D) palettes of identification. The result is a 2E and/or 3E representation of the object with color coding of each pixel according to the data outputs. Following the experimental measurements and post-processing, we produce a 3D image of the biological object - in the case of our trials, fragments or parts of chicken and turkey.

Biological Activity of Curcuminoids Isolated from Curcuma longa

Directory of Open Access Journals (Sweden)

Simay Çıkrıkçı

2008-04-01

Full Text Available Curcumin is the most important fraction of turmeric which is responsible for its biological activity. In this study, isolation and biological assessment of turmeric and curcumin have been discussed against standard bacterial and mycobacterial strains such as E.coli , S.aureus, E.feacalis, P.aeuroginosa, M.smegmatis, M.simiae, M.kansasii, M. terrae, M.szulgai and the fungi Candida albicans. The antioxidant activity of curcumin and turmeric were also determined by the CUPRAC method.

A review of chromatographic methods for the determination of water- and fat-soluble vitamins in biological fluids.

Science.gov (United States)

Karaźniewicz-Łada, Marta; Główka, Anna

2016-01-01

Vitamins are an essential element of nutrition and thus contribute to human health. Vitamins catalyze many biochemical reactions and their lack or excess can cause health problems. Therefore, monitoring vitamin concentrations in plasma or other biological fluids may be useful in the diagnosis of various disorders as well as in the treatment process. Several chromatographic methods have been developed for the determination of these compounds in biological samples, including high-performance liquid chromatography with UV and fluorescence detection. Recently, high-performance liquid chromatography with tandem mass spectrometry methods have been widely used for the determination of vitamins in complex matrices because of their high sensitivity and selectivity. This method requires preconditioning of samples for analysis, including protein precipitation and/or various extraction techniques. The choice of method may depend on the desired cost, convenience, turnaround time, specificity, and accuracy of the information to be obtained. This article reviews the recently reported chromatographic methods used for determination of vitamins in biological fluids. Relevant papers published mostly during the last 5 years were identified by an extensive PubMed search using appropriate keywords. Particular attention was given to the preparation steps and extraction techniques. This report may be helpful in the selection of procedures that are appropriate for certain types of biological materials and analytes. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

CASPIAN BIOLOGICAL RESOURCES

Directory of Open Access Journals (Sweden)

M. K. Guseynov

2015-01-01

Full Text Available Aim. We present the data on the biological resources of the Caspian Sea, based on the analysis of numerous scientific sources published between years of 1965 and 2011. Due to changes in various biotic and abiotic factors we find it important to discuss the state of the major groups of aquatic biocenosis including algae, crayfish, shrimp, pontogammarus, fish and Caspian seal. Methods. Long-term data has been analyzed on the biology and ecology of the main commercial fish stocks and their projected catches for qualitative and quantitative composition, abundance and biomass of aquatic organisms that make up the food base for fish. Results and discussion. It has been found that the widespread commercial invertebrates in the Caspian Sea are still poorly studied; their stocks are not identified and not used commercially. There is a great concern about the current state of the main commercial fish stocks of the Caspian Sea. A critical challenge is to preserve the pool of biological resources and the restoration of commercial stocks of Caspian fish. For more information about the state of the marine ecosystem in modern conditions, expedition on Caspian Sea should be carried out to study the hydrochemical regime and fish stocks, assessment of sturgeon stocks, as well as the need to conduct sonar survey for sprat stocks. Conclusions. The main condition for preserving the ecosystem of the Caspian Sea and its unique biological resources is to develop and apply environmentally-friendly methods of oil, issuing concerted common fisheries rules in various regions of theCaspian Sea, strengthening of control for sturgeon by all Caspian littoral states. The basic principle of the protection of biological resources is their rational use, based on the preservation of optimal conditions of their natural or artificial reproduction. 

Examining Portfolio-Based Assessment in an Upper-Level Biology Course

Science.gov (United States)

Ziegler, Brittany Ann

2012-01-01

Historically, students have been viewed as empty vessels and passive participants in the learning process but students actually are active forming their own conceptions. One way student learning is impacted is through assessment. Alternative assessment, which contrasts traditional assessment methods, takes into account how students learn by…

Synthetic biology and occupational risk.

Science.gov (United States)

Howard, John; Murashov, Vladimir; Schulte, Paul

2017-03-01

Synthetic biology is an emerging interdisciplinary field of biotechnology that involves applying the principles of engineering and chemical design to biological systems. Biosafety professionals have done an excellent job in addressing research laboratory safety as synthetic biology and gene editing have emerged from the larger field of biotechnology. Despite these efforts, risks posed by synthetic biology are of increasing concern as research procedures scale up to industrial processes in the larger bioeconomy. A greater number and variety of workers will be exposed to commercial synthetic biology risks in the future, including risks to a variety of workers from the use of lentiviral vectors as gene transfer devices. There is a need to review and enhance current protection measures in the field of synthetic biology, whether in experimental laboratories where new advances are being researched, in health care settings where treatments using viral vectors as gene delivery systems are increasingly being used, or in the industrial bioeconomy. Enhanced worker protection measures should include increased injury and illness surveillance of the synthetic biology workforce; proactive risk assessment and management of synthetic biology products; research on the relative effectiveness of extrinsic and intrinsic biocontainment methods; specific safety guidance for synthetic biology industrial processes; determination of appropriate medical mitigation measures for lentiviral vector exposure incidents; and greater awareness and involvement in synthetic biology safety by the general occupational safety and health community as well as by government occupational safety and health research and regulatory agencies.

Development and Assessment of Modules to Integrate Quantitative Skills in Introductory Biology Courses.

Science.gov (United States)

Hoffman, Kathleen; Leupen, Sarah; Dowell, Kathy; Kephart, Kerrie; Leips, Jeff

2016-01-01

Redesigning undergraduate biology courses to integrate quantitative reasoning and skill development is critical to prepare students for careers in modern medicine and scientific research. In this paper, we report on the development, implementation, and assessment of stand-alone modules that integrate quantitative reasoning into introductory biology courses. Modules are designed to improve skills in quantitative numeracy, interpreting data sets using visual tools, and making inferences about biological phenomena using mathematical/statistical models. We also examine demographic/background data that predict student improvement in these skills through exposure to these modules. We carried out pre/postassessment tests across four semesters and used student interviews in one semester to examine how students at different levels approached quantitative problems. We found that students improved in all skills in most semesters, although there was variation in the degree of improvement among skills from semester to semester. One demographic variable, transfer status, stood out as a major predictor of the degree to which students improved (transfer students achieved much lower gains every semester, despite the fact that pretest scores in each focus area were similar between transfer and nontransfer students). We propose that increased exposure to quantitative skill development in biology courses is effective at building competency in quantitative reasoning. © 2016 K. Hoffman, S. Leupen, et al. CBE—Life Sciences Education © 2016 The American Society for Cell Biology. This article is distributed by The American Society for Cell Biology under license from the author(s). It is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

Improved image alignment method in application to X-ray images and biological images.

Science.gov (United States)

Wang, Ching-Wei; Chen, Hsiang-Chou

2013-08-01

Alignment of medical images is a vital component of a large number of applications throughout the clinical track of events; not only within clinical diagnostic settings, but prominently so in the area of planning, consummation and evaluation of surgical and radiotherapeutical procedures. However, image registration of medical images is challenging because of variations on data appearance, imaging artifacts and complex data deformation problems. Hence, the aim of this study is to develop a robust image alignment method for medical images. An improved image registration method is proposed, and the method is evaluated with two types of medical data, including biological microscopic tissue images and dental X-ray images and compared with five state-of-the-art image registration techniques. The experimental results show that the presented method consistently performs well on both types of medical images, achieving 88.44 and 88.93% averaged registration accuracies for biological tissue images and X-ray images, respectively, and outperforms the benchmark methods. Based on the Tukey's honestly significant difference test and Fisher's least square difference test tests, the presented method performs significantly better than all existing methods (P ≤ 0.001) for tissue image alignment, and for the X-ray image registration, the proposed method performs significantly better than the two benchmark b-spline approaches (P < 0.001). The software implementation of the presented method and the data used in this study are made publicly available for scientific communities to use (http://www-o.ntust.edu.tw/∼cweiwang/ImprovedImageRegistration/). cweiwang@mail.ntust.edu.tw.

Biological stability of drinking water: controlling factors, methods and challenges

Directory of Open Access Journals (Sweden)

Emmanuelle ePrest

2016-02-01

Full Text Available Biological stability of drinking water refers to the concept of providing consumers with drinking water of same microbial quality at the tap as produced at the water treatment facility. However, uncontrolled growth of bacteria can occur during distribution in water mains and premise plumbing, and can lead to hygienic (e.g. development of opportunistic pathogens, aesthetic (e.g. deterioration of taste, odour, colour or operational (e.g. fouling or biocorrosion of pipes problems. Drinking water contains diverse microorganisms competing for limited available nutrients for growth. Bacterial growth and interactions are regulated by factors such as (i type and concentration of available organic and inorganic nutrients, (ii type and concentration of residual disinfectant, (iii presence of predators such as protozoa and invertebrates, (iv environmental conditions such as water temperature, and (v spatial location of microorganisms (bulk water, sediment or biofilm. Water treatment and distribution conditions in water mains and premise plumbing affect each of these factors and shape bacterial community characteristics (abundance, composition, viability in distribution systems. Improved understanding of bacterial interactions in distribution systems and of environmental conditions impact is needed for better control of bacterial communities during drinking water production and distribution. This article reviews (i existing knowledge on biological stability controlling factors and (ii how these factors are affected by drinking water production and distribution conditions. In addition, (iii the concept of biological stability is discussed in light of experience with well-established and new analytical methods, enabling high throughput analysis and in-depth characterization of bacterial communities in drinking water. We discuss how knowledge gained from novel techniques will improve design and monitoring of water treatment and distribution systems in order to

Biological Stability of Drinking Water: Controlling Factors, Methods, and Challenges

Science.gov (United States)

Prest, Emmanuelle I.; Hammes, Frederik; van Loosdrecht, Mark C. M.; Vrouwenvelder, Johannes S.

2016-01-01

Biological stability of drinking water refers to the concept of providing consumers with drinking water of same microbial quality at the tap as produced at the water treatment facility. However, uncontrolled growth of bacteria can occur during distribution in water mains and premise plumbing, and can lead to hygienic (e.g., development of opportunistic pathogens), aesthetic (e.g., deterioration of taste, odor, color) or operational (e.g., fouling or biocorrosion of pipes) problems. Drinking water contains diverse microorganisms competing for limited available nutrients for growth. Bacterial growth and interactions are regulated by factors, such as (i) type and concentration of available organic and inorganic nutrients, (ii) type and concentration of residual disinfectant, (iii) presence of predators, such as protozoa and invertebrates, (iv) environmental conditions, such as water temperature, and (v) spatial location of microorganisms (bulk water, sediment, or biofilm). Water treatment and distribution conditions in water mains and premise plumbing affect each of these factors and shape bacterial community characteristics (abundance, composition, viability) in distribution systems. Improved understanding of bacterial interactions in distribution systems and of environmental conditions impact is needed for better control of bacterial communities during drinking water production and distribution. This article reviews (i) existing knowledge on biological stability controlling factors and (ii) how these factors are affected by drinking water production and distribution conditions. In addition, (iii) the concept of biological stability is discussed in light of experience with well-established and new analytical methods, enabling high throughput analysis and in-depth characterization of bacterial communities in drinking water. We discussed, how knowledge gained from novel techniques will improve design and monitoring of water treatment and distribution systems in order

Biological Stability of Drinking Water: Controlling Factors, Methods, and Challenges

KAUST Repository

Prest, Emmanuelle I.

2016-02-01

Biological stability of drinking water refers to the concept of providing consumers with drinking water of same microbial quality at the tap as produced at the water treatment facility. However, uncontrolled growth of bacteria can occur during distribution in water mains and premise plumbing, and can lead to hygienic (e.g., development of opportunistic pathogens), aesthetic (e.g., deterioration of taste, odor, color) or operational (e.g., fouling or biocorrosion of pipes) problems. Drinking water contains diverse microorganisms competing for limited available nutrients for growth. Bacterial growth and interactions are regulated by factors, such as (i) type and concentration of available organic and inorganic nutrients, (ii) type and concentration of residual disinfectant, (iii) presence of predators, such as protozoa and invertebrates, (iv) environmental conditions, such as water temperature, and (v) spatial location of microorganisms (bulk water, sediment, or biofilm). Water treatment and distribution conditions in water mains and premise plumbing affect each of these factors and shape bacterial community characteristics (abundance, composition, viability) in distribution systems. Improved understanding of bacterial interactions in distribution systems and of environmental conditions impact is needed for better control of bacterial communities during drinking water production and distribution. This article reviews (i) existing knowledge on biological stability controlling factors and (ii) how these factors are affected by drinking water production and distribution conditions. In addition, (iii) the concept of biological stability is discussed in light of experience with well-established and new analytical methods, enabling high throughput analysis and in-depth characterization of bacterial communities in drinking water. We discussed, how knowledge gained from novel techniques will improve design and monitoring of water treatment and distribution systems in order

Laser apparatus and method for microscopic and spectroscopic analysis and processing of biological cells

Science.gov (United States)

Gourley, P.L.; Gourley, M.F.

1997-03-04

An apparatus and method are disclosed for microscopic and spectroscopic analysis and processing of biological cells. The apparatus comprises a laser having an analysis region within the laser cavity for containing one or more biological cells to be analyzed. The presence of a cell within the analysis region in superposition with an activated portion of a gain medium of the laser acts to encode information about the cell upon the laser beam, the cell information being recoverable by an analysis means that preferably includes an array photodetector such as a CCD camera and a spectrometer. The apparatus and method may be used to analyze biomedical cells including blood cells and the like, and may include processing means for manipulating, sorting, or eradicating cells after analysis. 20 figs.

Ways of incorporating photographic images in learning and assessing high school biology: A study of visual perception and visual cognition

Science.gov (United States)

Nixon, Brenda Chaumont

This study evaluated the cognitive benefits and costs of incorporating biology-textbook and student-generated photographic images into the learning and assessment processes within a 10th grade biology classroom. The study implemented Wandersee's (2000) 20-Q Model of Image-Based Biology Test-Item Design (20-Q Model) to explore the use of photographic images to assess students' understanding of complex biological processes. A thorough review of the students' textbook using ScaleMaster R with PC Interface was also conducted. The photographs, diagrams, and other representations found in the textbook were measured to determine the percentage of each graphic depicted in the book and comparisons were made to the text. The theoretical framework that guided the research included Human Constructivist tenets espoused by Mintzes, Wandersee and Novak (2000). Physiological and cognitive factors of images and image-based learning as described by Robin (1992), Solso (1997) and Wandersee (2000) were examined. Qualitative case study design presented by Yin (1994), Denzin and Lincoln (1994) was applied and data were collected through interviews, observations, student activities, student and school artifacts and Scale Master IIRTM measurements. The results of the study indicate that although 24% of the high school biology textbook is devoted to photographic images which contribute significantly to textbook cost, the teacher and students paid little attention to photographic images other than as aesthetic elements for creating biological ambiance, wasting valuable opportunities for learning. The analysis of the photographs corroborated findings published by the Association American Association for the Advancement of Science that indicated "While most of the books are lavishly illustrated, these representations are rarely helpful, because they are too abstract, needlessly complicated, or inadequately explained" (Roseman, 2000, p. 2). The findings also indicate that applying the 20-Q

Field calibration of blowfly-derived DNA against traditional methods for assessing mammal diversity in tropical forests.

Science.gov (United States)

Lee, Ping-Shin; Gan, Han Ming; Clements, Gopalasamy Reuben; Wilson, John-James

2016-11-01

Mammal diversity assessments based on DNA derived from invertebrates have been suggested as alternatives to assessments based on traditional methods; however, no study has field-tested both approaches simultaneously. In Peninsular Malaysia, we calibrated the performance of mammal DNA derived from blowflies (Diptera: Calliphoridae) against traditional methods used to detect species. We first compared five methods (cage trapping, mist netting, hair trapping, scat collection, and blowfly-derived DNA) in a forest reserve with no recent reports of megafauna. Blowfly-derived DNA and mist netting detected the joint highest number of species (n = 6). Only one species was detected by multiple methods. Compared to the other methods, blowfly-derived DNA detected both volant and non-volant species. In another forest reserve, rich in megafauna, we calibrated blowfly-derived DNA against camera traps. Blowfly-derived DNA detected more species (n = 11) than camera traps (n = 9), with only one species detected by both methods. The rarefaction curve indicated that blowfly-derived DNA would continue to detect more species with greater sampling effort. With further calibration, blowfly-derived DNA may join the list of traditional field methods. Areas for further investigation include blowfly feeding and dispersal biology, primer biases, and the assembly of a comprehensive and taxonomically-consistent DNA barcode reference library.

ACTIVE AND PARTICIPATORY METHODS IN BIOLOGY: MODELING

Directory of Open Access Journals (Sweden)

Brînduşa-Antonela SBÎRCEA

2011-01-01

Full Text Available By using active and participatory methods it is hoped that pupils will not only come to a deeper understanding of the issues involved, but also that their motivation will be heightened. Pupil involvement in their learning is essential. Moreover, by using a variety of teaching techniques, we can help students make sense of the world in different ways, increasing the likelihood that they will develop a conceptual understanding. The teacher must be a good facilitator, monitoring and supporting group dynamics. Modeling is an instructional strategy in which the teacher demonstrates a new concept or approach to learning and pupils learn by observing. In the teaching of biology the didactic materials are fundamental tools in the teaching-learning process. Reading about scientific concepts or having a teacher explain them is not enough. Research has shown that modeling can be used across disciplines and in all grade and ability level classrooms. Using this type of instruction, teachers encourage learning.

Enhancing Institutional Assessment Efforts through Qualitative Methods

Science.gov (United States)

Van Note Chism, Nancy; Banta, Trudy W.

2007-01-01

Qualitative methods can do much to describe context and illuminate the why behind patterns encountered in institutional assessment. Alone, or in combination with quantitative methods, they should be the approach of choice for many of the most important assessment questions. (Contains 1 table.)

Remediation of Soil Contaminated with Uranium using a Biological Method

International Nuclear Information System (INIS)

Park, Hye Min; Kim, Gye Nam; Shon, Dong Bin; Lee, Ki Won; Chung, Un Soo; Moon, Jai Kwon

2011-01-01

Bioremediation is a method to cleanup contaminants in soil or ground water with microorganisms. The biological method can reduce the volume of waste solution and the construction cost and operation cost of soil remediation equipment. Bioremediation can be divided into natural attenuation, bioaugmentation, biostimulation. Biostimulation is technology to improve natural purification by adding nutritional substances, supplying oxygen and controlling pH. In this study, penatron, that is a nutritional substances, was mixed with soil. Optimum conditions for mixing ratios of penatron and soil, and the pH of soil was determined through several bioremediation experiments with soil contaminated with uranium. Also, under optimum experiment conditions, the removal efficiencies of soil and concrete according to reaction time were measured for feasibility analysis of soil and concrete bioremediations

Development of the Biology Card Sorting Task to Measure Conceptual Expertise in Biology

Science.gov (United States)

Smith, Julia I.; Combs, Elijah D.; Nagami, Paul H.; Alto, Valerie M.; Goh, Henry G.; Gourdet, Muryam A. A.; Hough, Christina M.; Nickell, Ashley E.; Peer, Adrian G.; Coley, John D.; Tanner, Kimberly D.

2013-01-01

There are widespread aspirations to focus undergraduate biology education on teaching students to think conceptually like biologists; however, there is a dearth of assessment tools designed to measure progress from novice to expert biological conceptual thinking. We present the development of a novel assessment tool, the Biology Card Sorting Task, designed to probe how individuals organize their conceptual knowledge of biology. While modeled on tasks from cognitive psychology, this task is unique in its design to test two hypothesized conceptual frameworks for the organization of biological knowledge: 1) a surface feature organization focused on organism type and 2) a deep feature organization focused on fundamental biological concepts. In this initial investigation of the Biology Card Sorting Task, each of six analytical measures showed statistically significant differences when used to compare the card sorting results of putative biological experts (biology faculty) and novices (non–biology major undergraduates). Consistently, biology faculty appeared to sort based on hypothesized deep features, while non–biology majors appeared to sort based on either surface features or nonhypothesized organizational frameworks. Results suggest that this novel task is robust in distinguishing populations of biology experts and biology novices and may be an adaptable tool for tracking emerging biology conceptual expertise. PMID:24297290

Method for detection of a suspect viral deoxyribonucleic acid in an acellular biological fluid

Energy Technology Data Exchange (ETDEWEB)

Berninger, M S

1982-10-06

A method for evaluating an acellular biological fluid for the presence of a suspect viral DNA, such as DNA of the Hepatitis-B virus, is described. The acellular biological fluid is treated to immobilize in denatured form the DNAs including the suspect viral DNA on a solid substrate. This substrate is contacted with a solution including radioisotopically-labelled suspect viral denatured DNA to renature the immobilized suspect viral native DNA. The solid substrate is then evaluated for radioisotopically-labelled suspect viral renatured DNA.

Treatment guidelines for Circadian Rhythm Sleep-Wake Disorders of the Polish Sleep Research Society and the Section of Biological Psychiatry of the Polish Psychiatric Association. Part I. Physiology, assessment and therapeutic methods.

Science.gov (United States)

Wichniak, Adam; Jankowski, Konrad S; Skalski, Michal; Skwarło-Sońta, Krystyna; Zawilska, Jolanta B; Żarowski, Marcin; Poradowska, Ewa; Jernajczyk, Wojciech

2017-10-29

Majority of the physiological processes in the human organism are rhythmic. The most common are the diurnal changes that repeat roughly every 24 hours, called circadian rhythms. Circadian rhythms disorders have negative influence on human functioning. The aim of this article is to present the current understanding of the circadian rhythms physiological role, with particular emphasis on the circadian rhythm sleep-wake disorders (CRSWD), principles of their diagnosis and chronobiological therapy. The guidelines are based on the review of recommendations from the scientific societies involved in sleep medicine and the clinical experiences of the authors. Researchers participating in the preparation of guidelines were invited by the Polish Sleep Research Society and the Section of Biological Psychiatry of the Polish Psychiatric Association, based on their significant contributions in circadian rhythm research and/or clinical experience in the treatment of such disorders. Finally, the guidelines were adjusted to the questions and comments given by the members of both Societies. CRSWD have a significant negative impact on human health and functioning. Standard methods used to assess CRSWD are sleep diaries and sleep logs, while the actigraphy, when available, should be also used. The most effective methods of CRSWD treatment are melatonin administration and light therapy. Behavioral interventions are also recommended. Afourteen-day period of sleep-wake rhythm assessment in CRSWD enables accurate diagnosis, adequate selection of chronobiological interventions, and planning adequate diurnal timing of their application. This type of assessment is quite easy, low-cost, and provides valuable indications how to adjust the therapeutic approach to the circadian phase of the particular patient.

A method for evaluation of UV and biologically effective exposures to plants

International Nuclear Information System (INIS)

Paris, A.V.; Southern Queensland Univ., Toowoomba, QLD; Wong, J.C.F.; Galea, V.

1996-01-01

This paper presents a method for evaluating the UV and biologically effective exposures to a plant canopy during the irradiation of soybean with supplemental levels of UV radiation in a greenhouse study. The method employs four materials as dosimeters that allow evaluation of the UV spectra. The exposures evaluated at three growth stages were less by factors of 0.44, 0.49 and 0.56 compared to the ambient exposures. At the end of the irradiation period, the ambient biologically effective exposure for generalized plant response was higher by 180% compared to that calculated over the canopy. This is the magnitude of the error in UV studies that provide the ambient exposure as a measure of the UV incident on the plant. Additionally, the difference between the ambient and canopy exposures varied during the growth stages. These results indicate that the dosimetric technique applied to evaluating the UV exposures over a plant canopy is a more accurate representation of the UV exposure incidence on a plant than any obtained by measuring the ambient exposures only. (Author)

Assessment of compatibility among Armillaria cepistipes, A. sinapina, and North American biological species X and XI, using culture morphology and molecular biology

Science.gov (United States)

Mark T. Banik; Harold H. Burdsall

1998-01-01

Ten single-spore isolates each of Armillaria sinapina, A. cepistipes, and North American biological species (NABS)X and XI were paired in all combinations. A second set of ten single-spore isolates of each species was likewise paired. Each pairing was duplicated for a total of 3280 pairs. Using the standard morphological criteria (e.g., fluffy, crustose) to assess the...

A method to determine site-specific, anisotropic fracture toughness in biological materials

International Nuclear Information System (INIS)

Bechtle, Sabine; Özcoban, Hüseyin; Yilmaz, Ezgi D.; Fett, Theo; Rizzi, Gabriele; Lilleodden, Erica T.; Huber, Norbert; Schreyer, Andreas; Swain, Michael V.; Schneider, Gerold A.

2012-01-01

Many biological materials are hierarchically structured, with highly anisotropic structures and properties on several length scales. To characterize the mechanical properties of such materials, detailed testing methods are required that allow precise and site-specific measurements on several length scales. We propose a fracture toughness measurement technique based on notched focused ion beam prepared cantilevers of lower and medium micron size scales. Using this approach, site-specific fracture toughness values in dental enamel were determined. The usefulness and challenges of the method are discussed.

Corneal Confocal Microscopy – A Novel, Noninvasive Method to Assess Diabetic Peripheral Neuropathy

Directory of Open Access Journals (Sweden)

Inceu Georgeta

2014-12-01

Full Text Available Background and aims. This article aims to compare corneal confocal microscopy (CCM with acknowledged tests of diabetic peripheral neuropathy (DPN, to assess corneal nerve morphology using CCM in diabetic patients, and to underline possible correlations between clinical and biological parameters, diabetes duration and DPN severity. Material and methods. A total of 90 patients with type 2 diabetes were included in the study for whom we measured anthropometric parameters and we performed laboratory measurements (tests. The patients were assessed for diabetic peripheral neuropathy using Semmes-Weinstein Monofilament Testing (SWMT, Rapid-Current Perception Threshold (R-CPT measurements using the Neurometer®, and CCM. We stratified the patients according to DPN severity, based on four parameters extracted after image analysis. Results. A higher percentage of patients were diagnosed with DPN using CCM (88.8%, compared with SWMT and R-CPT measurement (17.8% and 40% respectively. The incidence of DPN detected with CCM was considerable in patients with normal protective sensation and with normal R-CPT values. Conclusions. Our study showed that corneal confocal microscopy is a useful noninvasive method for diabetic neuropathy assessement in early stages. It was proven to directly quantify small fiber pathology, and to stratify neuropathic severity, and therefore can be used as a new, reliable tool in the diagnosis, clinical evaluation, and follow-up of peripheral diabetic neuropathy.

Automated quantitative assessment of proteins' biological function in protein knowledge bases.

Science.gov (United States)

Mayr, Gabriele; Lepperdinger, Günter; Lackner, Peter

2008-01-01

Primary protein sequence data are archived in databases together with information regarding corresponding biological functions. In this respect, UniProt/Swiss-Prot is currently the most comprehensive collection and it is routinely cross-examined when trying to unravel the biological role of hypothetical proteins. Bioscientists frequently extract single entries and further evaluate those on a subjective basis. In lieu of a standardized procedure for scoring the existing knowledge regarding individual proteins, we here report about a computer-assisted method, which we applied to score the present knowledge about any given Swiss-Prot entry. Applying this quantitative score allows the comparison of proteins with respect to their sequence yet highlights the comprehension of functional data. pfs analysis may be also applied for quality control of individual entries or for database management in order to rank entry listings.

Automated Quantitative Assessment of Proteins' Biological Function in Protein Knowledge Bases

Directory of Open Access Journals (Sweden)

Gabriele Mayr

2008-01-01

Full Text Available Primary protein sequence data are archived in databases together with information regarding corresponding biological functions. In this respect, UniProt/Swiss-Prot is currently the most comprehensive collection and it is routinely cross-examined when trying to unravel the biological role of hypothetical proteins. Bioscientists frequently extract single entries and further evaluate those on a subjective basis. In lieu of a standardized procedure for scoring the existing knowledge regarding individual proteins, we here report about a computer-assisted method, which we applied to score the present knowledge about any given Swiss-Prot entry. Applying this quantitative score allows the comparison of proteins with respect to their sequence yet highlights the comprehension of functional data. pfs analysis may be also applied for quality control of individual entries or for database management in order to rank entry listings.

Sampling and sample preparation methods for the analysis of trace elements in biological material

International Nuclear Information System (INIS)

Sansoni, B.; Iyengar, V.

1978-05-01

The authors attempt to give a most systamtic possible treatment of the sample taking and sample preparation of biological material (particularly in human medicine) for trace analysis (e.g. neutron activation analysis, atomic absorption spectrometry). Contamination and loss problems are discussed as well as the manifold problems of the different consistency of solid and liquid biological materials, as well as the stabilization of the sample material. The process of dry and wet ashing is particularly dealt with, where new methods are also described. (RB) [de

Method for detection of a suspect viral deoxyribonucleic acid in an acellular biological fluid

International Nuclear Information System (INIS)

Berninger, M.S.

1982-01-01

A method for evaluating an acellular biological fluid for the presence of a suspect viral DNA, such as DNA of the Hepatitis-B virus, is described. The acellular biological fluid is treated to immobilize in denatured form the DNAs including the suspect viral DNA on a solid substrate. This substrate is contacted with a solution including radioisotopically-labelled suspect viral denatured DNA to renature the immobilized suspect viral native DNA. The solid substrate is then evaluated for radioisotopically-labelled suspect viral renatured DNA. (author)

Ground assessment methods for nuclear power plant

International Nuclear Information System (INIS)

1985-01-01

It is needless to say that nuclear power plant must be constructed on the most stable and safe ground. Reliable assessment method is required for the purpose. The Ground Integrity Sub-committee of the Committee of Civil Engineering of Nuclear Power Plant started five working groups, the purpose of which is to systematize the assessment procedures including geological survey, ground examination and construction design. The works of working groups are to establishing assessment method of activities of faults, standardizing the rock classification method, standardizing assessment and indication method of ground properties, standardizing test methods and establishing the application standard for design and construction. Flow diagrams for the procedures of geological survey, for the investigation on fault activities and ground properties of area where nuclear reactor and important outdoor equipments are scheduled to construct, were established. And further, flow diagrams for applying investigated results to design and construction of plant, and for determining procedure of liquidification nature of ground etc. were also established. These systematized and standardized methods of investigation are expected to yield reliable data for assessment of construction site of nuclear power plant and lead to the safety of construction and operation in the future. In addition, the execution of these systematized and detailed preliminary investigation for determining the construction site of nuclear power plant will make much contribution for obtaining nation-wide understanding and faith for the project. (Ishimitsu, A.)

SYMBIOSIS: development, implementation, and assessment of a model curriculum across biology and mathematics at the introductory level.

Science.gov (United States)

Depelteau, Audrey M; Joplin, Karl H; Govett, Aimee; Miller, Hugh A; Seier, Edith

2010-01-01

"It takes a lot of courage to release the familiar and seemingly secure, to embrace the new. But there is no real security in what is no longer meaningful. There is more security in the adventurous and exciting, for in movement there is life, and in change there is power." Alan Cohen (Used by permission. All rights reserved. For more information on Alan Cohen's books and programs, see (www.alancohen.com.) With the support of the East Tennessee State University (ETSU) administration and a grant from Howard Hughes Medical Institute, the departments of Biological Sciences, Mathematics and Statistics, and Curriculum and Instruction have developed a biology-math integrated curriculum. An interdisciplinary faculty team, charged with teaching the 18 curriculum modules, designed this three-semester curriculum, known as SYMBIOSIS. This curriculum was piloted to two student cohorts during the developmental stage. The positive feedback and assessment results of this project have given us the foundation to implement the SYMBIOSIS curriculum as a replacement for the standard biology majors curriculum at the introductory level. This article addresses the history and development of the curriculum, previous assessment results and current assessment protocol, and the future of ETSU's approach to implementing the SYMBIOSIS curriculum.

Molecular biology methods in assessing radiation-induced hereditary risks in humans

International Nuclear Information System (INIS)

Kiuru, A.

2004-12-01

Effort to predict the genetic consequences for humans of exposure to ionising radiation has been one of the most important issues of human genetics over the past 60 years. To date, there has been little experimental knowledge on the genetic risks of human exposure to ionising radiation. Radiation-induced deleterious hereditary effects have not been detected in human populations - not even among the offspring of atomic bomb survivors in Hiroshima and Nagasaki. This does not mean deleterious hereditary effects do not exist in humans, but rather that they are small and/or difficult to detect because the normal incidence of inherited abnormalities is quite high in the human population. Thus, assessment of radiation-induced hereditary risks in humans has been based on the common knowledge of human heredity and on animal experiments. However, recent data have suggested that hyper-variable tandem repeat minisatellite loci provide a useful and sensitive experimental approach for monitoring radiation-induced germline mutations in humans. In order to investigate the feasibility of the minisatellite mutation screening system in assessing radiation-induced hereditary risks in humans, we examined the amount of hereditary minisatellite mutations among the offspring of Estonian Chernobyl cleanup workers. The men studied received a median radiation dose of 109 mSv while working on the cleanup activities after the Chernobyl accident. We compared the minisatellite mutation rates of 155 children born to 147 Estonian Chernobyl cleanup workers after the accident to those of their 148 siblings born prior to it. In addition, 44 Estonian families, where the father had not been exposed to radiation, composed an additional control group. In all of these families, the paternity of the children was ascertained by using 5 minisatellite loci (APOB, HRAS, MCOB19, MCT118, and YNZ-22) in PCR-based analyses. Other 8 minisatellite loci (B6.7, CEB1, CEB15, CEB25, CEB36, MS1, MS31, and MS32) were used

Qualitative Assessment of Inquiry-Based Teaching Methods

Science.gov (United States)

Briggs, Michael; Long, George; Owens, Katrina

2011-01-01

A new approach to teaching method assessment using student focused qualitative studies and the theoretical framework of mental models is proposed. The methodology is considered specifically for the advantages it offers when applied to the assessment of inquiry-based teaching methods. The theoretical foundation of mental models is discussed, and…

76 FR 4859 - Availability of an Environmental Assessment and Finding of No Significant Impact for a Biological...

Science.gov (United States)

2011-01-27

... (Diaphorina citri Kuwayama). The environmental assessment considers the effects of, and alternatives to, the...) for the Biological Control of Asian Citrus Psyllid (Diaphorina citri Kuwayama) in the Continental...

Techniques to assess biological variation in destructive data

NARCIS (Netherlands)

Tijskens, L.M.M.; Schouten, R.E.; Jongbloed, G.; Konopacki, P.J.

2018-01-01

Variation is present in all measured data, due to variation between individuals (biological variation) and variation induced by the measuring system (technical variation). Biological variation present in experimental data is not the result of a random process but strictly subject to deterministic

Bioanalytical methods for the determination of cocaine and metabolites in human biological samples.

Science.gov (United States)

Barroso, M; Gallardo, E; Queiroz, J A

2009-08-01

Determination of cocaine and its metabolites in biological specimens is of great importance, not only in clinical and forensic toxicology, but also in workplace drug testing. These compounds are normally screened for using sensitive immunological methods. However, screening methods are unspecific and, therefore, the posterior confirmation of presumably positive samples by a specific technique is mandatory. Although GC-MS-based techniques are still the most commonly used for confirmation purposes of cocaine and its metabolites in biological specimens, the advent of LC-MS and LC-MS/MS has enabled the detection of even lower amounts of these drugs, which assumes particular importance when sample volume available is small, as frequently occurs with oral fluid. This paper will review recently-published papers that describe procedures for detection of cocaine and metabolites, not only in the most commonly used specimens, such as blood and urine, but also in other 'alternative' matrices (e.g., oral fluid and hair) with a special focus on sample preparation and chromatographic analysis.

Development trend of radiation biology research-systems radiation biology

International Nuclear Information System (INIS)

Min Rui

2010-01-01

Radiation biology research has past 80 years. We have known much more about fundamentals, processes and results of biology effects induced by radiation and various factors that influence biology effects wide and deep, however many old and new scientific problems occurring in the field of radiation biology research remain to be illustrated. To explore and figure these scientific problems need systemic concept, methods and multi dimension view on the base of considerations of complexity of biology system, diversity of biology response, temporal and spatial process of biological effects during occurrence, and complex feed back network of biological regulations. (authors)

Formative Assessment: Using Concept Cartoon, Pupils' Drawings, and Group Discussions to Tackle Children's Ideas about Biological Inheritance

Science.gov (United States)

Chin, Christine; Teou, Lay-Yen

2010-01-01

This study was carried out in the context of formative assessment where assessment and learning were integrated to enhance both teaching and learning. The purpose of the study was to: (a) identify pupils' ideas about biological inheritance through the use of a concept cartoon, pupils' drawings and talk, and (b) devise scaffolding structures that…

Bibliographical database of radiation biological dosimetry and risk assessment: Part 1, through June 1988

Energy Technology Data Exchange (ETDEWEB)

Straume, T.; Ricker, Y.; Thut, M.

1988-08-29

This database was constructed to support research in radiation biological dosimetry and risk assessment. Relevant publications were identified through detailed searches of national and international electronic databases and through our personal knowledge of the subject. Publications were numbered and key worded, and referenced in an electronic data-retrieval system that permits quick access through computerized searches on publication number, authors, key words, title, year, and journal name. Photocopies of all publications contained in the database are maintained in a file that is numerically arranged by citation number. This report of the database is provided as a useful reference and overview. It should be emphasized that the database will grow as new citations are added to it. With that in mind, we arranged this report in order of ascending citation number so that follow-up reports will simply extend this document. The database cite 1212 publications. Publications are from 119 different scientific journals, 27 of these journals are cited at least 5 times. It also contains reference to 42 books and published symposia, and 129 reports. Information relevant to radiation biological dosimetry and risk assessment is widely distributed among the scientific literature, although a few journals clearly dominate. The four journals publishing the largest number of relevant papers are Health Physics, Mutation Research, Radiation Research, and International Journal of Radiation Biology. Publications in Health Physics make up almost 10% of the current database.

Bibliographical database of radiation biological dosimetry and risk assessment: Part 1, through June 1988

International Nuclear Information System (INIS)

Straume, T.; Ricker, Y.; Thut, M.

1988-01-01

This database was constructed to support research in radiation biological dosimetry and risk assessment. Relevant publications were identified through detailed searches of national and international electronic databases and through our personal knowledge of the subject. Publications were numbered and key worded, and referenced in an electronic data-retrieval system that permits quick access through computerized searches on publication number, authors, key words, title, year, and journal name. Photocopies of all publications contained in the database are maintained in a file that is numerically arranged by citation number. This report of the database is provided as a useful reference and overview. It should be emphasized that the database will grow as new citations are added to it. With that in mind, we arranged this report in order of ascending citation number so that follow-up reports will simply extend this document. The database cite 1212 publications. Publications are from 119 different scientific journals, 27 of these journals are cited at least 5 times. It also contains reference to 42 books and published symposia, and 129 reports. Information relevant to radiation biological dosimetry and risk assessment is widely distributed among the scientific literature, although a few journals clearly dominate. The four journals publishing the largest number of relevant papers are Health Physics, Mutation Research, Radiation Research, and International Journal of Radiation Biology. Publications in Health Physics make up almost 10% of the current database

Quantifying pCO2 in biological ocean acidification experiments: A comparison of four methods.

Science.gov (United States)

Watson, Sue-Ann; Fabricius, Katharina E; Munday, Philip L

2017-01-01

Quantifying the amount of carbon dioxide (CO2) in seawater is an essential component of ocean acidification research; however, equipment for measuring CO2 directly can be costly and involve complex, bulky apparatus. Consequently, other parameters of the carbonate system, such as pH and total alkalinity (AT), are often measured and used to calculate the partial pressure of CO2 (pCO2) in seawater, especially in biological CO2-manipulation studies, including large ecological experiments and those conducted at field sites. Here we compare four methods of pCO2 determination that have been used in biological ocean acidification experiments: 1) Versatile INstrument for the Determination of Total inorganic carbon and titration Alkalinity (VINDTA) measurement of dissolved inorganic carbon (CT) and AT, 2) spectrophotometric measurement of pHT and AT, 3) electrode measurement of pHNBS and AT, and 4) the direct measurement of CO2 using a portable CO2 equilibrator with a non-dispersive infrared (NDIR) gas analyser. In this study, we found these four methods can produce very similar pCO2 estimates, and the three methods often suited to field-based application (spectrophotometric pHT, electrode pHNBS and CO2 equilibrator) produced estimated measurement uncertainties of 3.5-4.6% for pCO2. Importantly, we are not advocating the replacement of established methods to measure seawater carbonate chemistry, particularly for high-accuracy quantification of carbonate parameters in seawater such as open ocean chemistry, for real-time measures of ocean change, nor for the measurement of small changes in seawater pCO2. However, for biological CO2-manipulation experiments measuring differences of over 100 μatm pCO2 among treatments, we find the four methods described here can produce similar results with careful use.

Impacts of insufficient instructional materials on teaching biology: Higher education systems in focus

Directory of Open Access Journals (Sweden)

Sutuma Edessa

2017-01-01

Full Text Available Abstract The purpose of this study was to assess and determine impacts of insufficient instructional materials and ineffective lesson delivery methods on teaching in biology higher education. The participants of this study were 60 trainees who graduated in Bachelor of Sciences from eight public universities in majoring biology. Data for the study was collected while these trainees were attending the course of Biology Teaching Methods in the Post Graduate Diploma in Teaching, both in the regular and summer 2015/2016 training programs at Addis Ababa University. The study employs a mixed method design of both qualitative and quantitative data evaluations. Data was collected through classroom observations and interviews with the trainees. The findings indicated that insufficient instructional materials and ineffective teaching methods in higher education had negative impacts; that have affected the skills of performing biological tasks of graduates 71%. In the course of the Post Graduate Diploma in Teaching training, trainees were unsuccessful to conduct essential biological tasks expected from graduates of biology upon the completion of their undergraduate study program. The study was concluded with emphasis on the need to integrate theory and practice through using adequate instructional materials and proper teaching methods in the higher education biology teaching.

Teaching Methods in Biology Education and Sustainability Education Including Outdoor Education for Promoting Sustainability--A Literature Review

Science.gov (United States)

Jeronen, Eila; Palmberg, Irmeli; Yli-Panula, Eija

2017-01-01

There are very few studies concerning the importance of teaching methods in biology education and environmental education including outdoor education for promoting sustainability at the levels of primary and secondary schools and pre-service teacher education. The material was selected using special keywords from biology and sustainable education…

Mathematical modeling in biology: A critical assessment

Energy Technology Data Exchange (ETDEWEB)

Buiatti, M. [Florence, Univ. (Italy). Dipt. di Biologia Animale e Genetica

1998-01-01

The molecular revolution and the development of biology-derived industry have led in the last fifty years to an unprecedented `lead forward` of life sciences in terms of experimental data. Less success has been achieved in the organisation of such data and in the consequent development of adequate explanatory and predictive theories and models. After a brief historical excursus inborn difficulties of mathematisation of biological objects and processes derived from the complex dynamics of life are discussed along with the logical tools (simplifications, choice of observation points etc.) used to overcome them. `Autistic`, monodisciplinary attitudes towards biological modeling of mathematicians, physicists, biologists aimed in each case at the use of the tools of other disciplines to solve `selfish` problems are also taken into account and a warning against derived dangers (reification of mono disciplinary metaphors, lack of falsification etc.) is given. Finally `top.down` (deductive) and `bottom up` (inductive) heuristic interactive approaches to mathematisation are critically discussed with the help of serie of examples.

Mathematical modeling in biology: A critical assessment

International Nuclear Information System (INIS)

Buiatti, M.

1998-01-01

The molecular revolution and the development of biology-derived industry have led in the last fifty years to an unprecedented 'lead forward' of life sciences in terms of experimental data. Less success has been achieved in the organisation of such data and in the consequent development of adequate explanatory and predictive theories and models. After a brief historical excursus inborn difficulties of mathematisation of biological objects and processes derived from the complex dynamics of life are discussed along with the logical tools (simplifications, choice of observation points etc.) used to overcome them. 'Autistic', monodisciplinary attitudes towards biological modeling of mathematicians, physicists, biologists aimed in each case at the use of the tools of other disciplines to solve 'selfish' problems are also taken into account and a warning against derived dangers (reification of mono disciplinary metaphors, lack of falsification etc.) is given. Finally 'top.down' (deductive) and 'bottom up' (inductive) heuristic interactive approaches to mathematisation are critically discussed with the help of serie of examples

Stories of staying and leaving: A mixed methods analysis of biology undergraduate choice, persistence, and departure

Science.gov (United States)

Lang, Sarah Adrienne

Using a sequential, explanatory mixed methods design, this dissertation study compared students who persist in the biology major (persisters) with students who leave the biology major (switchers) in terms of how their pre-college experiences, college biology experiences, and biology performance figured into their choice of biology and their persistence in or departure from the biology major. This study combined (1) quantitative comparisons of biology persisters and switchers via a questionnaire developed for the study and survival analysis of a larger population of biology freshmen with (2) qualitative comparison of biology switchers and persisters via semi-structured life story interviews and homogenous focus groups. 319 students (207 persisters and 112 switchers) participated in the questionnaire and 36 students (20 persisters and 16 switchers) participated in life story and focus group interviews. All participants were undergraduates who entered The University of Texas at Austin as biology freshmen in the fall semesters of 2000 through 2004. Findings of this study suggest: (1) Regardless of eventual major, biology students enter college with generally the same suite of experiences, sources of personal encouragement, and reasons for choosing the biology major; (2) Despite the fact that they have also had poor experiences in the major, biology persisters do not actively decide to stay in the biology major; they simply do not leave; (3) Based upon survival analysis, biology students are most at-risk of leaving the biology major during the first two years of college and if they are African-American or Latino, women, or seeking a Bachelor of Arts degree (rather than a Bachelor of Science); (4) Biology switchers do not leave biology due to preference for other disciplines; they leave due to difficulties or dissatisfaction with aspects of the biology major, including their courses, faculty, and peers; (5) Biology performance has a differential effect on persistence in

Biological Environmental Sampling Technologies Assessment

Science.gov (United States)

2015-12-01

modular set of aerosol detector, collector, and identifier components. Before the award, the JBTDS program office engaged its combat developers and...collection and identification processes are not integrated into one unit. Concern was also expressed regarding operation of the smartphone -based Biomeme one3...DESCRIPTION (JBTDS) The Joint Biological Tactical Detection System (JBTDS) will be employed as a modular set of capabilities (detector, collector, and

Biologic interventions for fatigue in rheumatoid arthritis

DEFF Research Database (Denmark)

Almeida, Celia; Choy, Ernest H S; Hewlett, Sarah

2016-01-01

BACKGROUND: Fatigue is a common and potentially distressing symptom for patients with rheumatoid arthritis (RA), with no accepted evidence-based management guidelines. Evidence suggests that biologic interventions improve symptoms and signs in RA as well as reducing joint damage. OBJECTIVES......: To evaluate the effect of biologic interventions on fatigue in rheumatoid arthritis. SEARCH METHODS: We searched the following electronic databases up to 1 April 2014: Cochrane Central Register of Controlled Trials (CENTRAL), MEDLINE, EMBASE, Cochrane Database of Systematic Reviews, Current Controlled Trials...... and contacted key authors. SELECTION CRITERIA: We included randomised controlled trials if they evaluated a biologic intervention in people with rheumatoid arthritis and had self reported fatigue as an outcome measure. DATA COLLECTION AND ANALYSIS: Two reviewers selected relevant trials, assessed methodological...

Development on Vulnerability Assessment Methods of PPS

Institute of Scientific and Technical Information of China (English)

MIAO; Qiang; ZHANG; Wen-liang; BU; Li-xin; YIN; Hong-he; LI; Xin-jun; FANG; Xin

2013-01-01

Through investigating information from domestic and abroad,joint the domestic assessment experience,we present a set of physical protection system(PPS)vulnerability assessment methods for on-operating nuclear power plants and for on-designing nuclear facilities.The methods will help to strengthen and upgrade the security measures of the nuclear facilities,improve the effectiveness and

Development of capillary electrophoresis methods for quantitative determination of taurine in vehicle system and biological media.

Science.gov (United States)

da Silva, Dayse L P; Rüttinger, Hans H; Mrestani, Yahia; Baum, Walter F; Neubert, Reinhard H H

2006-06-01

CE methods have been developed for the determination of taurine in pharmaceutical formulation (microemulsion) and in biological media such as sweat. The CE system with end-column pulsed amperometric detection has been found to be an interesting method in comparison with UV and fluorescence detection for its simplicity and rapidity. A gold-disk electrode of 100 mm diameter was used as the working electrode. The effects of a field decoupler at the end of the capillary, separation voltage, injection and pressure times were investigated. A detection limit of 4 x 10(-5) mol/L was reached using integrated pulsed amperometric detection, a method successfully applied to taurine analysis of the biological samples such as sweat. For taurine analysis of oil-in-water microemulsion, fluorescence detector was the favored method, the detection limit of which was 4 x 10(-11) mol/L.

Studies on Microbiological and Biological Methods for Detection of Irradiated Food

International Nuclear Information System (INIS)

Ibrahim, H.M.A.

2013-01-01

The main aim of this study is to evaluate a microbiological and biological methods used for the detection of irradiated foods in Egypt. The microbiological methods included were shift in microflora load and direct epifluroescent filter technique compared with aerobic plate count (DEFT/APC), while the biological method was DNA comet assay. The selected foods were black, strawberry, fresh-and frozen-de boned chicken. The samples of these foods were exposed to different doses of gamma radiation according to the purpose of irradiation for each food. The results indicated that the characteristics of microbial population of all irradiated samples have been changed. The very lower count of viable bacterial count (APC) and mold and yeasts counts in the samples than the reported normal count as well as the absence of Gram- negative bacteria and Enterobacteriaceae group from these samples could be used as an indication for radiation treatment of these foods. The large difference between microbial counts obtained by DEFT test and that obtained by APC test could also be used for screening radiation treatment of these foods. Photographic and image analysis of DNA comet assay showed that irradiation of these foods caused damage to the food cells DNA (fragmentation) at different levels according to the doses used and kind of foods. This DNA damage can be followed or described by DNA comet assay test. On the basis of comet assay, the discrimination between unirradiated and irradiated food samples was very possible. In general the results showed that DEFT/APC method had the potential to detect irradiated food samples either at zero time of storage or throughout the storage period post- irradiation. DNA comet assay as a rapid, simple and inexpensive screening test approved to be successful for detection of irradiated food samples under investigation. Determination of rough applied irradiation dose is possible if photographic analysis is combined with image analysis

Towards the Identification of an In Vitro Tool for Assessing the Biological Behavior of Aerosol Supplied Nanomaterials

Directory of Open Access Journals (Sweden)

Luisana Di Cristo

2018-03-01

Full Text Available Nanoparticles (NP-based inhalation systems for drug delivery can be administered in liquid form, by nebulization or using pressurized metered dose inhalers, and in solid form by means of dry powder inhalers. However, NP delivery to the lungs has many challenges including the formulation instability due to particle-particle interactions and subsequent aggregation, causing poor deposition in the small distal airways and subsequent alveolar macrophages activity, which could lead to inflammation. This work aims at providing an in vitro experimental design for investigating the correlation between the physico-chemical properties of NP, and their biological behavior, when they are used as NP-based inhalation treatments, comparing two different exposure systems. By means of an aerosol drug delivery nebulizer, human lung cells cultured at air–liquid interface (ALI were exposed to two titanium dioxide NP (NM-100 and NM-101, obtained from the JRC repository. In parallel, ALI cultures were exposed to NP suspension by direct inoculation, i.e., by adding the NP suspensions on the apical side of the cell cultures with a pipette. The formulation stability of NP, measured as hydrodynamic size distributions, the cell viability, cell monolayer integrity, cell morphology and pro-inflammatory cytokines secretion were investigated. Our results demonstrated that the formulation stability of NM-100 and NM-101 was strongly dependent on the aggregation phenomena that occur in the conditions adopted for the biological experiments. Interestingly, comparable biological data between the two exposure methods used were observed, suggesting that the conventional exposure coupled to ALI culturing conditions offers a relevant in vitro tool for assessing the correlation between the physico-chemical properties of NP and their biological behavior, when NP are used as drug delivery systems.

Biological assessment of aquatic pollution: a review, with emphasis on plants as biomonitors.

Science.gov (United States)

Doust, J L; Schmidt, M; Doust, L L

1994-05-01

In a number of disciplines including ecology, ecotoxicology, water quality management, water resource management, fishery biology etc., there is significant interest in the testing of new materials, environmental samples (of water or sediments) and specific sites, in terms of their effects on biota. In the first instance, we consider various sources of aquatic pollution, sources typically associated with developed areas of the world. Historically, much water quality assessment has been performed by researchers with a background in chemistry or engineering, thus chemical analysis was a dominant form of assessment. However, chemical analyses, particularly of such materials as organochlorines and polyaromatic hydrocarbons can be expensive, and local environmental factors may cause the actual exposure of an organism to be little correlated with chemical concentrations in the surrounding water or sediments. To a large extent toxicity testing has proceeded independently of environmental quality assessment in situ, and the work has been done by different, and differently-trained researchers. Here we attempt to bring together the various forms of biological assessment of aquatic pollution, because in our opinion it is worth developing a coherent framework for the application of this powerful tool. Biotic assessment in its most primitive form involves the simple tracking of mortality in exposed organisms. However, in most natural environments it is extended, chronic exposure to contaminants that has the most wide-ranging and irreversible repercussions--thus measures of sub-lethal impairment are favoured. From an ecological standpoint, it is most valuable to assess ecological effects by direct study of in situ contaminant body burdens and impairment of growth and reproduction compared with 'clean' sites. A distinction is made here between bioindication and biomonitoring, and a case is made for including aquatic macrophytes (angiosperms) in studies of contaminant levels and

Impacts of Insufficient Instructional Materials on Teaching Biology: Higher Education Systems in Focus

Science.gov (United States)

Edessa, Sutuma

2017-01-01

The purpose of this study was to assess and determine impacts of insufficient instructional materials and ineffective lesson delivery methods on teaching in biology higher education. The participants of this study were 60 trainees who graduated in Bachelor of Sciences from eight public universities in majoring biology. Data for the study was…

Biological studies of the U.S. subseabed disposal program

International Nuclear Information System (INIS)

Gomez, L.S.; Marietta, M.G.; Hessler, R.R.; Smith, K.L. Jr.; Talbert, D.M.; Yayanos, A.A.; Jackson, D.W.

1980-01-01

The Subseabed Disposal Program (SDP) of the U.S. is assessing the feasibility of emplacing high level radioactive wastes (HLW) within deep-sea sediments and is developing the means for assessing the feasibility of the disposal practices of other nations. This paper discusses the role and status of biological research in the SDP. Studies of the disposal methods and of the conceived barriers (canister, waste form and sediment) suggest that biological knowledge will be principally needed to address the impact of accidental releases of radionuclides. Current experimental work is focusing on the deep-sea ecosystem to determine: (1) the structure of benthic communities, including their microbial component; (2) the faunal composition of deep midwater nekton; (3) the biology of deep-sea amphipods; (4) benthic community metabolism; (5) the rates of bacterial processes; (6) the metabolism of deep-sea animals, and (7) the radiation sensitivity of deep-sea organisms. A multi-compartment model is being developed to assess quantitatively, the impact (on the environment and on man) of releases of radionuclides into the sea

Next Generation Risk Assessment: Incorporation of Recent Advances in Molecular, Computational, and Systems Biology (Final Report)

Science.gov (United States)

EPA announced the release of the final report, Next Generation Risk Assessment: Incorporation of Recent Advances in Molecular, Computational, and Systems Biology. This report describes new approaches that are faster, less resource intensive, and more robust that can help ...

Positioning genomics in biology education: content mapping of undergraduate biology textbooks.

Science.gov (United States)

Wernick, Naomi L B; Ndung'u, Eric; Haughton, Dominique; Ledley, Fred D

2014-12-01

Biological thought increasingly recognizes the centrality of the genome in constituting and regulating processes ranging from cellular systems to ecology and evolution. In this paper, we ask whether genomics is similarly positioned as a core concept in the instructional sequence for undergraduate biology. Using quantitative methods, we analyzed the order in which core biological concepts were introduced in textbooks for first-year general and human biology. Statistical analysis was performed using self-organizing map algorithms and conventional methods to identify clusters of terms and their relative position in the books. General biology textbooks for both majors and nonmajors introduced genome-related content after text related to cell biology and biological chemistry, but before content describing higher-order biological processes. However, human biology textbooks most often introduced genomic content near the end of the books. These results suggest that genomics is not yet positioned as a core concept in commonly used textbooks for first-year biology and raises questions about whether such textbooks, or courses based on the outline of these textbooks, provide an appropriate foundation for understanding contemporary biological science.

The Tipping Point: Biological Terrorism

Directory of Open Access Journals (Sweden)

Scott Cary

2009-01-01

Full Text Available This article presents a strategic, operational, and tactical analysis of information currently available on the state of bio-weapons development by non-state actors, primarily Islamist jihadists. It discusses the evidence supporting a practical assessment that non-state actors have begun to acquire, and in the near-term intend to employ, bio-weapons. A pathogen and method of attack specifically designed to achieve the strategic goals of jihadists are presented as functional examples of the problem of the emerging global bio-weapons threat.Is a terrorist attack utilizing biological weapons a real threat? If so, is there a way to predict the circumstances under which it might happen or how it might be conducted? This article explores what is known and cannot be known about these questions, and will examine the threat of biological terrorism in the context of the strategic goals, operational methods, and tactical intentions of Islamist terrorists.

Practice makes pretty good: assessment of primary literature reading abilities across multiple large-enrollment biology laboratory courses.

Science.gov (United States)

Sato, Brian K; Kadandale, Pavan; He, Wenliang; Murata, Paige M N; Latif, Yama; Warschauer, Mark

2014-01-01

Primary literature is essential for scientific communication and is commonly utilized in undergraduate biology education. Despite this, there is often little time spent training our students how to critically analyze a paper. To address this, we introduced a primary literature module in multiple upper-division laboratory courses. In this module, instructors conduct classroom discussions that dissect a paper as researchers do. While previous work has identified classroom interventions that improve primary literature comprehension within a single course, our goal was to determine whether including a scientific paper module in our classes could produce long-term benefits. On the basis of performance in an assessment exam, we found that our module resulted in longitudinal gains, including increased comprehension and critical-thinking abilities in subsequent lab courses. These learning gains were specific to courses utilizing our module, as no longitudinal gains were seen in students who had taken other upper-division labs that lacked extensive primary literature discussion. In addition, we assessed whether performance on our assessment correlated with a variety of factors, including grade point average, course performance, research background, and self-reported confidence in understanding of the article. Furthermore, all of the study conclusions are independent of biology disciplines, as we observe similar trends within each course. © 2014 B. K. Sato et al. CBE—Life Sciences Education © 2014 The American Society for Cell Biology. This article is distributed by The American Society for Cell Biology under license from the author(s). It is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

Biological durability of wood in relation to end-use - Part 1. Towards a European standard for laboratory testing of the biological durability of wood

NARCIS (Netherlands)

Acker, Van J.; Stevens, M.; Carey, J.; Sierra-Alvarez, R.; Militz, H.; Bayon, Le I.; Kleist, G.; Peek, R.D.

2003-01-01

The determination of biological durability of wood is an issue requiring sufficient reliability regarding end-use related prediction of performance. Five test institutes joined efforts to check standard test methods and to improve methodology and data interpretation for assessment of natural

Assessment of students’ health condition by indicators of adaptation potential, biological age and bio-energetic reserves of organism

Directory of Open Access Journals (Sweden)

O.V. Martyniuk

2015-06-01

Full Text Available Purpose: to assess students’ health condition by indicators of adaptation potential, biological age and express-assessment. Material: in the research 47 first and second year girl students participated, who belonged to main health group. Results: we distributed the girl students into three groups: 14.89% of them were included in group with “safe” health condition; 34.04% - in group of “third state”; 51.06% were related to group with “ dangerous” health condition. We established that dangerous level was characterized by energy potential of below middle and low level. It is accompanied by accelerated processes of organism’s age destructions and tension of regulation mechanisms. Conclusions: the received results permit to further develop and generalize the data of students’ health’s assessment by indicators of adaptation potentials, biological age and physical health’s condition.

Characterization of Radiation Fields for Assessing Concrete Degradation in Biological Shields of NPPs

Science.gov (United States)

Remec, Igor; Rosseel, Thomas M.; Field, Kevin G.; Pape, Yann Le

2017-09-01

Life extensions of nuclear power plants (NPPs) to 60 years of operation and the possibility of subsequent license renewal to 80 years have renewed interest in long-term material degradation in NPPs. Large irreplaceable sections of most nuclear generating stations are constructed from concrete, including safety-related structures such as biological shields and containment buildings; therefore, concrete degradation is being considered with particular focus on radiation-induced effects. Based on the projected neutron fluence values (E > 0.1 MeV) in the concrete biological shields of the US pressurized water reactor fleet and the currently available data on radiation effects on concrete, some decrease in mechanical properties of concrete cannot be ruled out during extended operation beyond 60 years. An expansion of the irradiated concrete database is desirable to ensure reliable risk assessment for extended operation of nuclear power plants.

Personality, Assessment Methods and Academic Performance

Science.gov (United States)

Furnham, Adrian; Nuygards, Sarah; Chamorro-Premuzic, Tomas

2013-01-01

This study examines the relationship between personality and two different academic performance (AP) assessment methods, namely exams and coursework. It aimed to examine whether the relationship between traits and AP was consistent across self-reported versus documented exam results, two different assessment techniques and across different…

A proposed impact assessment method for genetically modified plants (AS-GMP Method)

International Nuclear Information System (INIS)

Jesus-Hitzschky, Katia Regina Evaristo de; Silveira, Jose Maria F.J. da

2009-01-01

An essential step in the development of products based on biotechnology is an assessment of their potential economic impacts and safety, including an evaluation of the potential impact of transgenic crops and practices related to their cultivation on the environment and human or animal health. The purpose of this paper is to provide an assessment method to evaluate the impact of biotechnologies that uses quantifiable parameters and allows a comparative analysis between conventional technology and technologies using GMOs. This paper introduces a method to perform an impact analysis associated with the commercial release and use of genetically modified plants, the Assessment System GMP Method. The assessment is performed through indicators that are arranged according to their dimension criterion likewise: environmental, economic, social, capability and institutional approach. To perform an accurate evaluation of the GMP specific indicators related to genetic modification are grouped in common fields: genetic insert features, GM plant features, gene flow, food/feed field, introduction of the GMP, unexpected occurrences and specific indicators. The novelty is the possibility to include specific parameters to the biotechnology under assessment. In this case by case analysis the factors of moderation and the indexes are parameterized to perform an available assessment.

Ground truth methods for optical cross-section modeling of biological aerosols

Science.gov (United States)

Kalter, J.; Thrush, E.; Santarpia, J.; Chaudhry, Z.; Gilberry, J.; Brown, D. M.; Brown, A.; Carter, C. C.

2011-05-01

Light detection and ranging (LIDAR) systems have demonstrated some capability to meet the needs of a fastresponse standoff biological detection method for simulants in open air conditions. These systems are designed to exploit various cloud signatures, such as differential elastic backscatter, fluorescence, and depolarization in order to detect biological warfare agents (BWAs). However, because the release of BWAs in open air is forbidden, methods must be developed to predict candidate system performance against real agents. In support of such efforts, the Johns Hopkins University Applied Physics Lab (JHU/APL) has developed a modeling approach to predict the optical properties of agent materials from relatively simple, Biosafety Level 3-compatible bench top measurements. JHU/APL has fielded new ground truth instruments (in addition to standard particle sizers, such as the Aerodynamic particle sizer (APS) or GRIMM aerosol monitor (GRIMM)) to more thoroughly characterize the simulant aerosols released in recent field tests at Dugway Proving Ground (DPG). These instruments include the Scanning Mobility Particle Sizer (SMPS), the Ultraviolet Aerodynamic Particle Sizer (UVAPS), and the Aspect Aerosol Size and Shape Analyser (Aspect). The SMPS was employed as a means of measuring smallparticle concentrations for more accurate Mie scattering simulations; the UVAPS, which measures size-resolved fluorescence intensity, was employed as a path toward fluorescence cross section modeling; and the Aspect, which measures particle shape, was employed as a path towards depolarization modeling.

Electrochemical Cathodic Polarization, a Simplified Method That Can Modified and Increase the Biological Activity of Titanium Surfaces: A Systematic Review.

Directory of Open Access Journals (Sweden)

Jose Carlos Bernedo Alcazar

Full Text Available The cathodic polarization seems to be an electrochemical method capable of modifying and coat biomolecules on titanium surfaces, improving the surface activity and promoting better biological responses.The aim of the systematic review is to assess the scientific literature to evaluate the cellular response produced by treatment of titanium surfaces by applying the cathodic polarization technique.The literature search was performed in several databases including PubMed, Web of Science, Scopus, Science Direct, Scielo and EBSCO Host, until June 2016, with no limits used. Eligibility criteria were used and quality assessment was performed following slightly modified ARRIVE and SYRCLE guidelines for cellular studies and animal research.Thirteen studies accomplished the inclusion criteria and were considered in the review. The quality of reporting studies in animal models was low and for the in vitro studies it was high. The in vitro and in vivo results reported that the use of cathodic polarization promoted hydride surfaces, effective deposition, and adhesion of the coated biomolecules. In the experimental groups that used the electrochemical method, cellular viability, proliferation, adhesion, differentiation, or bone growth were better or comparable with the control groups.The use of the cathodic polarization method to modify titanium surfaces seems to be an interesting method that could produce active layers and consequently enhance cellular response, in vitro and in vivo animal model studies.

Risk assessment, eradication, and biological control: global efforts to limit Australian acacia invasions

Science.gov (United States)

Wilson, John R.U.; Gairifo, Carla; Gibson, Michelle R.; Arianoutsou, Margarita; Bakar, Baki B.; Baret, Stephane; Celesti-Grapow, Laura; DiTomaso, Joseph M.; Dufour-Dror, Jean-Marc; Kueffer, Christoph; Kull, Christian A.; Hoffman, John H.; Impson, Fiona A.C.; Loope, Lloyd L.; Marchante, Elizabete; Harchante, Helia; Moore, Joslin L.; Murphy, Daniel J.; Tassin, Jacques; Witt, Arne; Zenni, Rafael D.; Richardson, David M.

2011-01-01

Aim Many Australian Acacia species have been planted around the world, some are highly valued, some are invasive, and some are both highly valued and invasive. We review global efforts to minimize the risk and limit the impact of invasions in this widely used plant group. Location Global. Methods Using information from literature sources, knowledge and experience of the authors, and the responses from a questionnaire sent to experts around the world, we reviewed: (1) a generalized life cycle of Australian acacias and how to control each life stage, (2) different management approaches and (3) what is required to help limit or prevent invasions. Results Relatively few Australian acacias have been introduced in large numbers, but all species with a long and extensive history of planting have become invasive somewhere. Australian acacias, as a group, have a high risk of becoming invasive and causing significant impacts as determined by existing assessment schemes. Moreover, in most situations, long-lived seed banks mean it is very difficult to control established infestations. Control has focused almost exclusively on widespread invaders, and eradication has rarely been attempted. Classical biological control is being used in South Africa with increasing success. Main conclusions A greater emphasis on pro-active rather than reactive management is required given the difficulties managing established invasions of Australian acacias. Adverse effects of proposed new introductions can be minimized by conducting detailed risk assessments in advance, planning for on-going monitoring and management, and ensuring resources are in place for long-term mitigation. Benign alternatives (e.g. sterile hybrids) could be developed to replace existing utilized taxa. Eradication should be set as a management goal more often to reduce the invasion debt. Introducing classical biological control agents that have a successful track-record in South Africa to other regions and identifying new

Methods and models in mathematical biology deterministic and stochastic approaches

CERN Document Server

Müller, Johannes

2015-01-01

This book developed from classes in mathematical biology taught by the authors over several years at the Technische Universität München. The main themes are modeling principles, mathematical principles for the analysis of these models, and model-based analysis of data. The key topics of modern biomathematics are covered: ecology, epidemiology, biochemistry, regulatory networks, neuronal networks, and population genetics. A variety of mathematical methods are introduced, ranging from ordinary and partial differential equations to stochastic graph theory and  branching processes. A special emphasis is placed on the interplay between stochastic and deterministic models.

Assessment methods in surgical training in the United Kingdom

Directory of Open Access Journals (Sweden)

Evgenios Evgeniou

2013-02-01

Full Text Available A career in surgery in the United Kingdom demands a commitment to a long journey of assessment. The assessment methods used must ensure that the appropriate candidates are selected into a programme of study or a job and must guarantee public safety by regulating the progression of surgical trainees and the certification of trained surgeons. This review attempts to analyse the psychometric properties of various assessment methods used in the selection of candidates to medical school, job selection, progression in training, and certification. Validity is an indicator of how well an assessment measures what it is designed to measure. Reliability informs us whether a test is consistent in its outcome by measuring the reproducibility and discriminating ability of the test. In the long journey of assessment in surgical training, the same assessment formats are frequently being used for selection into a programme of study, job selection, progression, and certification. Although similar assessment methods are being used for different purposes in surgical training, the psychometric properties of these assessment methods have not been examined separately for each purpose. Because of the significance of these assessments for trainees and patients, their reliability and validity should be examined thoroughly in every context where the assessment method is being used.

Biological assessments for the low energy demonstration accelerator, 1996 and 1997

Energy Technology Data Exchange (ETDEWEB)

Cross, S.

1998-12-31

The Department of Energy (DOE) plans to build, install, and operate a Low Energy Demonstration Accelerator (LMA) in Technical Area 53 of the Los Alamos National Laboratory (LANL). LEDA will demonstrate the accelerator technology necessary to produce tritium, but is not designed to produce tritium at LANL. USFWS reviewers of the Biological Assessment prepared for LEDA insisted that the main drainage be monitored to measure and document changes to vegetation, soils, wildlife, and habitats due to LEDA effluent discharges. The Biology Team of ESH-20 (LANL`s Ecology Group) has performed these monitoring activities during 1996 and 1997 to document baseline conditions before LEDA released significant effluent discharges. Quarterly monitoring of the outfall which will discharge LEDA blowdown effluent had one exceedance of permitted parameters, a high chlorine discharge that was quickly remedied. Samples from 12 soil pits in the drainage area contained no hydric indicators, such as organic matter in the upper layers, streaking, organic pans, and oxidized rhizospheres. Vegetation transacts in the meadows that LEDA discharges will flow through contained 44 species of herbaceous plants, all upland taxa. Surveys of resident birds, reptiles, and amphibians documented a fauna typical of local dry canyons. No threatened or endangered species inhabit the project area, but increased effluent releases may make the area more attractive to many wildlife species, an endangered raptor, and several other species of concern. Biological best management practices especially designed for LEDA are discussed, including protection of floodplains, erosion control measures, hazards posed by increased usage of the area by deer and elk and revegetation of disturbed areas.

Environmental risk assessment for Neodryinus typhlocybae, biological control agent against Metcalfa pruinosa, for Austria

Directory of Open Access Journals (Sweden)

Gudrun Strauss

2013-03-01

Full Text Available The potential environmental risks of Neodryinus typhlocybae, a parasitic wasp from North America, were evaluated with regard to its safe use as an exotic biocontrol agent for the planthopper Metcalfa pruinosa in Austria. Following an earlier host range study of N. typhlocybae conducted in the laboratory, the present study assessed the potential for establishment and spread as well as negative indirect effects on non-target organisms. The potential release sites in Austria were analysed for matching of the climatic requirements for establishment of N. typhlocybae. The two proposed release locations, Vienna and Graz, have a predominantly similar climate to the parasitoid’s region of origin, though the comparably cooler mean summer temperatures might result in a low emergence rate of the partial second generation. The natural spread potential of N. typhlocybae was reviewed and is considered to be sufficiently good for released individuals to reach nearby sites infested with M. pruinosa. However, a perceptible spreading of N. typhlocybae females only occurs a few years after release and seems to be strongly dependent on the host density. Gelis areator, a hyperparasitoid of N. typhlocybae known to occur in Austria, might have negative effects on the population of the beneficial organism. Advantages and disadvantages of chemical and biological control methods against M. pruinosa were evaluated. It is concluded that N. typhlocybae is very well suited as a biological control agent for M. pruinosa in Austria, as no adverse effects on non-target species are expected but its release offers advantages with regard to sustainable and environmentally friendly pest management.

The Expanded FindCore Method for Identification of a Core Atom Set for Assessment of Protein Structure Prediction

Science.gov (United States)

Snyder, David A.; Grullon, Jennifer; Huang, Yuanpeng J.; Tejero, Roberto; Montelione, Gaetano T.

2014-01-01

Maximizing the scientific impact of NMR-based structure determination requires robust and statistically sound methods for assessing the precision of NMR-derived structures. In particular, a method to define a core atom set for calculating superimpositions and validating structure predictions is critical to the use of NMR-derived structures as targets in the CASP competition. FindCore (D.A. Snyder and G.T. Montelione PROTEINS 2005;59:673–686) is a superimposition independent method for identifying a core atom set, and partitioning that set into domains. However, as FindCore optimizes superimposition by sensitively excluding not-well-defined atoms, the FindCore core may not comprise all atoms suitable for use in certain applications of NMR structures, including the CASP assessment process. Adapting the FindCore approach to assess predicted models against experimental NMR structures in CASP10 required modification of the FindCore method. This paper describes conventions and a standard protocol to calculate an “Expanded FindCore” atom set suitable for validation and application in biological and biophysical contexts. A key application of the Expanded FindCore method is to identify a core set of atoms in the experimental NMR structure for which it makes sense to validate predicted protein structure models. We demonstrate the application of this Expanded FindCore method in characterizing well-defined regions of 18 NMR-derived CASP10 target structures. The Expanded FindCore protocol defines “expanded core atom sets” that match an expert’s intuition of which parts of the structure are sufficiently well-defined to use in assessing CASP model predictions. We also illustrate the impact of this analysis on the CASP GDT assessment scores. PMID:24327305

A biological tool to assess flow connectivity in reference temporary streams from the Mediterranean Basin

Energy Technology Data Exchange (ETDEWEB)

Cid, N., E-mail: ncid@ub.edu [Grup de Recerca “Freshwater Ecology and Management (FEM)”, Departament d' Ecologia, Universitat de Barcelona, Catalonia (Spain); Verkaik, I. [Grup de Recerca “Freshwater Ecology and Management (FEM)”, Departament d' Ecologia, Universitat de Barcelona, Catalonia (Spain); García-Roger, E.M. [Grup de Recerca “Freshwater Ecology and Management (FEM)”, Departament d' Ecologia, Universitat de Barcelona, Catalonia (Spain); Institut Cavanilles de Biodiversitat i Biologia Evolutiva, Universitat de València (Spain); Rieradevall, M.; Bonada, N. [Grup de Recerca “Freshwater Ecology and Management (FEM)”, Departament d' Ecologia, Universitat de Barcelona, Catalonia (Spain); Sánchez-Montoya, M.M. [Department of Ecology and Hydrology, Regional Campus of International Excellence “Campus Mare Nostrum”—University of Murcia (Spain); Leibniz-Institute of Freshwater Ecology and Inland Fisheries (IGB), Berlin (Germany); Gómez, R.; Suárez, M.L.; Vidal-Abarca, M.R. [Department of Ecology and Hydrology, Regional Campus of International Excellence “Campus Mare Nostrum”—University of Murcia (Spain); Demartini, D.; Buffagni, A.; Erba, S. [Instituto di Ricerca Sulle Acque (CNR-IRSA) (Italy); Karaouzas, I.; Skoulikidis, N. [Hellenic Center for Marine Research (HCMR) (Greece); Prat, N. [Grup de Recerca “Freshwater Ecology and Management (FEM)”, Departament d' Ecologia, Universitat de Barcelona, Catalonia (Spain)

2016-01-01

Many streams in the Mediterranean Basin have temporary flow regimes. While timing for seasonal drought is predictable, they undergo strong inter-annual variability in flow intensity. This high hydrological variability and associated ecological responses challenge the ecological status assessment of temporary streams, particularly when setting reference conditions. This study examined the effects of flow connectivity in aquatic macroinvertebrates from seven reference temporary streams across the Mediterranean Basin where hydrological variability and flow conditions are well studied. We tested for the effect of flow cessation on two streamflow indices and on community composition, and, by performing random forest and classification tree analyses we identified important biological predictors for classifying the aquatic state either as flowing or disconnected pools. Flow cessation was critical for one of the streamflow indices studied and for community composition. Macroinvertebrate families found to be important for classifying the aquatic state were Hydrophilidae, Simuliidae, Hydropsychidae, Planorbiidae, Heptageniidae and Gerridae. For biological traits, trait categories associated to feeding habits, food, locomotion and substrate relation were the most important and provided more accurate predictions compared to taxonomy. A combination of selected metrics and associated thresholds based on the most important biological predictors (i.e. Bio-AS Tool) were proposed in order to assess the aquatic state in reference temporary streams, especially in the absence of hydrological data. Although further development is needed, the tool can be of particular interest for monitoring, restoration, and conservation purposes, representing an important step towards an adequate management of temporary rivers not only in the Mediterranean Basin but also in other regions vulnerable to the effects of climate change. - Highlights: • The effect of flow connectivity on macroinvertebrate

A new method of quantitative cavitation assessment in the field of a lithotripter.

Science.gov (United States)

Jöchle, K; Debus, J; Lorenz, W J; Huber, P

1996-01-01

Transient cavitation seems to be a very important effect regarding the interaction of pulsed high-energy ultrasound with biologic tissues. Using a newly developed laser optical system we are able to determine the life-span of transient cavities (relative error less than +/- 5%) in the focal region of a lithotripter (Lithostar, Siemens). The laser scattering method is based on the detection of scattered laser light reflected during a bubble's life. This method requires no sort of sensor material in the pathway of the sound field. Thus, the method avoids any interference with bubble dynamics during the measurement. The knowledge of the time of bubble decay allows conclusions to be reached on the destructive power of the cavities. By combining the results of life-span measurements with the maximum bubble radius using stroboscopic photographs we found that the measured time of bubble decay and the predicted time using Rayleigh's law only differs by about 13% even in the case of complex bubble fields. It can be shown that the laser scattering method is feasible to assess cavitation events quantitatively. Moreover, it will enable us to compare different medical ultrasound sources that have the capability to generate cavitation.

Fuzzy method of recognition of high molecular substances in evidence-based biology

Science.gov (United States)

Olevskyi, V. I.; Smetanin, V. T.; Olevska, Yu. B.

2017-10-01

Nowadays modern requirements to achieving reliable results along with high quality of researches put mathematical analysis methods of results at the forefront. Because of this, evidence-based methods of processing experimental data have become increasingly popular in the biological sciences and medicine. Their basis is meta-analysis, a method of quantitative generalization of a large number of randomized trails contributing to a same special problem, which are often contradictory and performed by different authors. It allows identifying the most important trends and quantitative indicators of the data, verification of advanced hypotheses and discovering new effects in the population genotype. The existing methods of recognizing high molecular substances by gel electrophoresis of proteins under denaturing conditions are based on approximate methods for comparing the contrast of electrophoregrams with a standard solution of known substances. We propose a fuzzy method for modeling experimental data to increase the accuracy and validity of the findings of the detection of new proteins.

Assessment of biological variation and analytical imprecision of CA 125, CEA, and TPA in relation to monitoring of ovarian cancer

DEFF Research Database (Denmark)

Tuxen, M.K.; Sölétormos, G.; Petersen, P.H.

1999-01-01

biological variation. The aim of the study was to assess (i) the analytical imprecision (CVA) and the average inherent intra- and interindividual biological variation (CVTI and CVG, respectively) for CA 125, CEA, and TPA in a group of healthy women; (ii) the significance of changes in serial results of each...

Biologically inspired technologies in NASA's morphing project

Science.gov (United States)

McGowan, Anna-Maria R.; Cox, David E.; Lazos, Barry S.; Waszak, Martin R.; Raney, David L.; Siochi, Emilie J.; Pao, S. Paul

2003-07-01

For centuries, biology has provided fertile ground for hypothesis, discovery, and inspiration. Time-tested methods used in nature are being used as a basis for several research studies conducted at the NASA Langley Research Center as a part of Morphing Project, which develops and assesses breakthrough vehicle technologies. These studies range from low drag airfoil design guided by marine and avian morphologies to soaring techniques inspired by birds and the study of small flexible wing vehicles. Biology often suggests unconventional yet effective approaches such as non-planar wings, dynamic soaring, exploiting aeroelastic effects, collaborative control, flapping, and fibrous active materials. These approaches and other novel technologies for future flight vehicles are being studied in NASA's Morphing Project. This paper will discuss recent findings in the aeronautics-based, biologically-inspired research in the project.

Assessing protein conformational sampling methods based on bivariate lag-distributions of backbone angles

KAUST Repository

Maadooliat, Mehdi; Gao, Xin; Huang, Jianhua Z.

2012-01-01

Despite considerable progress in the past decades, protein structure prediction remains one of the major unsolved problems in computational biology. Angular-sampling-based methods have been extensively studied recently due to their ability to capture the continuous conformational space of protein structures. The literature has focused on using a variety of parametric models of the sequential dependencies between angle pairs along the protein chains. In this article, we present a thorough review of angular-sampling-based methods by assessing three main questions: What is the best distribution type to model the protein angles? What is a reasonable number of components in a mixture model that should be considered to accurately parameterize the joint distribution of the angles? and What is the order of the local sequence-structure dependency that should be considered by a prediction method? We assess the model fits for different methods using bivariate lag-distributions of the dihedral/planar angles. Moreover, the main information across the lags can be extracted using a technique called Lag singular value decomposition (LagSVD), which considers the joint distribution of the dihedral/planar angles over different lags using a nonparametric approach and monitors the behavior of the lag-distribution of the angles using singular value decomposition. As a result, we developed graphical tools and numerical measurements to compare and evaluate the performance of different model fits. Furthermore, we developed a web-tool (http://www.stat.tamu. edu/~madoliat/LagSVD) that can be used to produce informative animations. © The Author 2012. Published by Oxford University Press.

Assessing protein conformational sampling methods based on bivariate lag-distributions of backbone angles

KAUST Repository

Maadooliat, Mehdi

2012-08-27

Despite considerable progress in the past decades, protein structure prediction remains one of the major unsolved problems in computational biology. Angular-sampling-based methods have been extensively studied recently due to their ability to capture the continuous conformational space of protein structures. The literature has focused on using a variety of parametric models of the sequential dependencies between angle pairs along the protein chains. In this article, we present a thorough review of angular-sampling-based methods by assessing three main questions: What is the best distribution type to model the protein angles? What is a reasonable number of components in a mixture model that should be considered to accurately parameterize the joint distribution of the angles? and What is the order of the local sequence-structure dependency that should be considered by a prediction method? We assess the model fits for different methods using bivariate lag-distributions of the dihedral/planar angles. Moreover, the main information across the lags can be extracted using a technique called Lag singular value decomposition (LagSVD), which considers the joint distribution of the dihedral/planar angles over different lags using a nonparametric approach and monitors the behavior of the lag-distribution of the angles using singular value decomposition. As a result, we developed graphical tools and numerical measurements to compare and evaluate the performance of different model fits. Furthermore, we developed a web-tool (http://www.stat.tamu. edu/~madoliat/LagSVD) that can be used to produce informative animations. © The Author 2012. Published by Oxford University Press.

An in vivo model to assess magnesium alloys and their biological effect on human bone marrow stromal cells.

Science.gov (United States)

Yoshizawa, Sayuri; Chaya, Amy; Verdelis, Kostas; Bilodeau, Elizabeth A; Sfeir, Charles

2015-12-01

Magnesium (Mg) alloys have many unique qualities which make them ideal candidates for bone fixation devices, including biocompatibility and degradation in vivo. Despite a rise in Mg alloy production and research, there remains no standardized system to assess their degradation or biological effect on human stem cells in vivo. In this study, we developed a novel in vivo model to assess Mg alloys for craniofacial and orthopedic applications. Our model consists of a collagen sponge seeded with human bone marrow stromal cells (hBMSCs) around a central Mg alloy rod. These scaffolds were implanted subcutaneously in mice and analyzed after eight weeks. Alloy degradation and biological effect were determined by microcomputed tomography (microCT), histological staining, and immunohistochemistry (IHC). MicroCT showed greater volume loss for pure Mg compared to AZ31 after eight weeks in vivo. Histological analysis showed that hBMSCs were retained around the Mg implants after 8 weeks. Furthermore, immunohistochemistry showed the expression of dentin matrix protein 1 and osteopontin around both pure Mg and AZ31 with implanted hBMSCs. In addition, histological sections showed a thin mineral layer around all degrading alloys at the alloy-tissue interface. In conclusion, our data show that degrading pure Mg and AZ31 implants are cytocompatible and do not inhibit the osteogenic property of hBMSCs in vivo. These results demonstrate that this model can be used to efficiently assess the biological effect of corroding Mg alloys in vivo. Importantly, this model may be modified to accommodate additional cell types and clinical applications. Magnesium (Mg) alloys have been investigated as ideal candidates for bone fixation devices due to high biocompatibility and degradation in vivo, and there is a growing need of establishing an efficient in vivo material screening system. In this study, we assessed degradation rate and biological effect of Mg alloys by transplanting Mg alloy rod with

Mollified birth in natural-age-grid Galerkin methods for age-structured biological systems

International Nuclear Information System (INIS)

Ayati, Bruce P; Dupont, Todd F

2009-01-01

We present natural-age-grid Galerkin methods for a model of a biological population undergoing aging. We use a mollified birth term in the method and analysis. The error due to mollification is of arbitrary order, depending on the choice of mollifier. The methods in this paper generalize the methods presented in [1], where the approximation space in age was taken to be a discontinuous piecewise polynomial subspace of L 2 . We refer to these methods as 'natural-age-grid' Galerkin methods since transport in the age variable is computed through the smooth movement of the age grid at the natural dimensionless velocity of one. The time variable has been left continuous to emphasize this smooth motion, as well as the independence of the time and age discretizations. The methods are shown to be superconvergent in the age variable

Fair value versus historical cost-based valuation for biological assets: predictability of financial information

Directory of Open Access Journals (Sweden)

Josep M. Argilés

2011-08-01

This paper performs an empirical study with a sample of Spanish farms valuing biological assets at HC and a sample applying FV, finding no significant differences between both valuation methods to assess future cash flows. However, most tests reveal more predictive power of future earnings under fair valuation of biological assets, which is not explained by differences in volatility of earnings and profitability. The study also evidences the existence of flawed HC accounting practices for biological assets in agriculture, which suggests scarce information content of this valuation method in the predominant small business units existing in the agricultural sector in advanced Western countries.

Biologically Based Methods for Control of Fumonisin-Producing Fusarium Species and Reduction of the Fumonisins

Science.gov (United States)

Alberts, Johanna F.; van Zyl, Willem H.; Gelderblom, Wentzel C. A.

2016-01-01

Infection by the fumonisin-producing Fusarium spp. and subsequent fumonisin contamination of maize adversely affect international trade and economy with deleterious effects on human and animal health. In developed countries high standards of the major food suppliers and retailers are upheld and regulatory controls deter the importation and local marketing of fumonisin-contaminated food products. In developing countries regulatory measures are either lacking or poorly enforced, due to food insecurity, resulting in an increased mycotoxin exposure. The lack and poor accessibility of effective and environmentally safe control methods have led to an increased interest in practical and biological alternatives to reduce fumonisin intake. These include the application of natural resources, including plants, microbial cultures, genetic material thereof, or clay minerals pre- and post-harvest. Pre-harvest approaches include breeding for resistant maize cultivars, introduction of biocontrol microorganisms, application of phenolic plant extracts, and expression of antifungal proteins and fumonisin degrading enzymes in transgenic maize cultivars. Post-harvest approaches include the removal of fumonisins by natural clay adsorbents and enzymatic degradation of fumonisins through decarboxylation and deamination by recombinant carboxylesterase and aminotransferase enzymes. Although, the knowledge base on biological control methods has expanded, only a limited number of authorized decontamination products and methods are commercially available. As many studies detailed the use of natural compounds in vitro, concepts in reducing fumonisin contamination should be developed further for application in planta and in the field pre-harvest, post-harvest, and during storage and food-processing. In developed countries an integrated approach, involving good agricultural management practices, hazard analysis and critical control point (HACCP) production, and storage management, together with

Biologically Based Methods for Control of Fumonisin-Producing Fusarium Species and Reduction of the Fumonisins.

Science.gov (United States)

Alberts, Johanna F; van Zyl, Willem H; Gelderblom, Wentzel C A

2016-01-01

Infection by the fumonisin-producing Fusarium spp. and subsequent fumonisin contamination of maize adversely affect international trade and economy with deleterious effects on human and animal health. In developed countries high standards of the major food suppliers and retailers are upheld and regulatory controls deter the importation and local marketing of fumonisin-contaminated food products. In developing countries regulatory measures are either lacking or poorly enforced, due to food insecurity, resulting in an increased mycotoxin exposure. The lack and poor accessibility of effective and environmentally safe control methods have led to an increased interest in practical and biological alternatives to reduce fumonisin intake. These include the application of natural resources, including plants, microbial cultures, genetic material thereof, or clay minerals pre- and post-harvest. Pre-harvest approaches include breeding for resistant maize cultivars, introduction of biocontrol microorganisms, application of phenolic plant extracts, and expression of antifungal proteins and fumonisin degrading enzymes in transgenic maize cultivars. Post-harvest approaches include the removal of fumonisins by natural clay adsorbents and enzymatic degradation of fumonisins through decarboxylation and deamination by recombinant carboxylesterase and aminotransferase enzymes. Although, the knowledge base on biological control methods has expanded, only a limited number of authorized decontamination products and methods are commercially available. As many studies detailed the use of natural compounds in vitro, concepts in reducing fumonisin contamination should be developed further for application in planta and in the field pre-harvest, post-harvest, and during storage and food-processing. In developed countries an integrated approach, involving good agricultural management practices, hazard analysis and critical control point (HACCP) production, and storage management, together with

Biologically Based Methods for Control of Fumonisin-producing Fusarium species and Reduction of the Fumonisins

Directory of Open Access Journals (Sweden)

Johanna Francina Alberts

2016-04-01

Full Text Available Infection by the fumonisin-producing Fusarium spp. and subsequent fumonisin contamination of maize adversely affect international trade and economy with deleterious effects on human and animal health. In developed countries high standards of the major food suppliers and retailers are upheld and regulatory controls deter the importation and local marketing of fumonisin-contaminated food products. In developing countries regulatory measures are either lacking or poorly enforced, due to food insecurity, resulting in an increased mycotoxin exposure. The lack and poor accessibility of effective and environmentally safe control methods have led to an increased interest in practical and biological alternatives to reduce fumonisin intake. These include the application of natural resources, including plants, microbial cultures, genetic material thereof or clay minerals pre- and postharvest. Pre-harvest approaches include breeding for resistant maize cultivars, introduction of biocontrol microorganisms, application of phenolic plant extracts, and expression of antifungal proteins and fumonisin degrading enzymes in transgenic maize cultivars. Postharvest approaches include the removal of fumonisins by natural clay adsorbents and enzymatic degradation of fumonisins through decarboxylation and deamination by recombinant carboxylesterase and aminotransferase enzymes. Although the knowledge base on biological control methods has expanded, only a limited number of authorized decontamination products and methods are commercially available. As many studies detailed the use of natural compounds in vitro, concepts in reducing fumonisin contamination should be developed further for application in planta and in the field pre-harvest, postharvest, and during storage and food-processing. In developed countries an integrated approach, involving good agricultural management practices, hazard analysis and critical control point (HACCP production and storage management

Testing an Automated Accuracy Assessment Method on Bibliographic Data

Directory of Open Access Journals (Sweden)

Marlies Olensky

2014-12-01

Full Text Available This study investigates automated data accuracy assessment as described in data quality literature for its suitability to assess bibliographic data. The data samples comprise the publications of two Nobel Prize winners in the field of Chemistry for a 10-year-publication period retrieved from the two bibliometric data sources, Web of Science and Scopus. The bibliographic records are assessed against the original publication (gold standard and an automatic assessment method is compared to a manual one. The results show that the manual assessment method reflects truer accuracy scores. The automated assessment method would need to be extended by additional rules that reflect specific characteristics of bibliographic data. Both data sources had higher accuracy scores per field than accumulated per record. This study contributes to the research on finding a standardized assessment method of bibliographic data accuracy as well as defining the impact of data accuracy on the citation matching process.

SPECIFIC METHOD OF RISK ASSESSMENT IN TOURISM ENTERPRISES

Directory of Open Access Journals (Sweden)

Andreea ARMEAN

2014-12-01

Full Text Available The objective of this paper is to present an innovative method of risk assessment for tourism businesses. The contribution to literature is the novelty of this method of following paths: is an ante-factum assessment not post-factum; risk assessment is based on perception rather than results; is based on specific risks tourism enterprises not on the overall risks. Is an asset-research methodology and consists in generating its own method of risk assessment based on the ideas summarized from the literature studied. The aim established is tourism enterprises from Romania. The data necessary for the application of this method will result from applying to top level management of tourism enterprises, a questionnaire about risk perception. The results from this study will help identify and measure the risks specific to tourism enterprises. The applicability of the results is to improve risk management in these enterprises.

A saprobic index for biological assessment of river water quality in Brazil (Minas Gerais and Rio de Janeiro states).

Science.gov (United States)

Junqueira, Marilia Vilela; Friedrich, Günther; Pereira de Araujo, Paulo Roberto

2010-04-01

Based upon several years of experience in investigations with macrozoobenthos in rivers in the states of Minas Gerais and Rio de Janeiro, a biological assessment system has been developed to indicate pollution levels caused by easily degradable organic substances from sewers. The biotic index presented here is aimed at determining water's saprobic levels and was, therefore, named the "Saprobic Index for Brazilian Rivers in Minas Gerais and Rio de Janeiro states" (ISMR). For this purpose, saprobic valences and weights have been established for 122 taxa of tropical macrozoobenthos. Investigations were carried out in little, medium sized and big rivers in mountains and plains. Through ISMR, a classification of water quality and the respective cartographic representation can be obtained. Data collection and treatment methods, as well as the limitations of the biotic index, are thoroughly described. ISMR can also be used as an element to establish complex multimetric indexes intended for an ecological integrity assessment, where it is essential to indicate organic pollution.

Biological basis of detoxication

National Research Council Canada - National Science Library

Caldwell, John; Jakoby, William B

1983-01-01

This volume considers that premise that most of the major patterns of biological conversion of foreign compounds are known and may have predictive value in assessing the biological course for novel compounds...

Optimization and validation of spectrophotometric methods for determination of finasteride in dosage and biological forms

Science.gov (United States)

Amin, Alaa S.; Kassem, Mohammed A.

2012-01-01

Aim and Background: Three simple, accurate and sensitive spectrophotometric methods for the determination of finasteride in pure, dosage and biological forms, and in the presence of its oxidative degradates were developed. Materials and Methods: These methods are indirect, involve the addition of excess oxidant potassium permanganate for method A; cerric sulfate [Ce(SO4)2] for methods B; and N-bromosuccinimide (NBS) for method C of known concentration in acid medium to finasteride, and the determination of the unreacted oxidant by measurement of the decrease in absorbance of methylene blue for method A, chromotrope 2R for method B, and amaranth for method C at a suitable maximum wavelength, λmax: 663, 528, and 520 nm, for the three methods, respectively. The reaction conditions for each method were optimized. Results: Regression analysis of the Beer plots showed good correlation in the concentration ranges of 0.12–3.84 μg mL–1 for method A, and 0.12–3.28 μg mL–1 for method B and 0.14 – 3.56 μg mL–1 for method C. The apparent molar absorptivity, Sandell sensitivity, detection and quantification limits were evaluated. The stoichiometric ratio between the finasteride and the oxidant was estimated. The validity of the proposed methods was tested by analyzing dosage forms and biological samples containing finasteride with relative standard deviation ≤ 0.95. Conclusion: The proposed methods could successfully determine the studied drug with varying excess of its oxidative degradation products, with recovery between 99.0 and 101.4, 99.2 and 101.6, and 99.6 and 101.0% for methods A, B, and C, respectively. PMID:23781478

Integrating quantitative thinking into an introductory biology course improves students' mathematical reasoning in biological contexts.

Science.gov (United States)

Hester, Susan; Buxner, Sanlyn; Elfring, Lisa; Nagy, Lisa

2014-01-01

Recent calls for improving undergraduate biology education have emphasized the importance of students learning to apply quantitative skills to biological problems. Motivated by students' apparent inability to transfer their existing quantitative skills to biological contexts, we designed and taught an introductory molecular and cell biology course in which we integrated application of prerequisite mathematical skills with biology content and reasoning throughout all aspects of the course. In this paper, we describe the principles of our course design and present illustrative examples of course materials integrating mathematics and biology. We also designed an outcome assessment made up of items testing students' understanding of biology concepts and their ability to apply mathematical skills in biological contexts and administered it as a pre/postcourse test to students in the experimental section and other sections of the same course. Precourse results confirmed students' inability to spontaneously transfer their prerequisite mathematics skills to biological problems. Pre/postcourse outcome assessment comparisons showed that, compared with students in other sections, students in the experimental section made greater gains on integrated math/biology items. They also made comparable gains on biology items, indicating that integrating quantitative skills into an introductory biology course does not have a deleterious effect on students' biology learning.

Integrating Quantitative Thinking into an Introductory Biology Course Improves Students’ Mathematical Reasoning in Biological Contexts

Science.gov (United States)

Hester, Susan; Buxner, Sanlyn; Elfring, Lisa; Nagy, Lisa

2014-01-01

Recent calls for improving undergraduate biology education have emphasized the importance of students learning to apply quantitative skills to biological problems. Motivated by students’ apparent inability to transfer their existing quantitative skills to biological contexts, we designed and taught an introductory molecular and cell biology course in which we integrated application of prerequisite mathematical skills with biology content and reasoning throughout all aspects of the course. In this paper, we describe the principles of our course design and present illustrative examples of course materials integrating mathematics and biology. We also designed an outcome assessment made up of items testing students’ understanding of biology concepts and their ability to apply mathematical skills in biological contexts and administered it as a pre/postcourse test to students in the experimental section and other sections of the same course. Precourse results confirmed students’ inability to spontaneously transfer their prerequisite mathematics skills to biological problems. Pre/postcourse outcome assessment comparisons showed that, compared with students in other sections, students in the experimental section made greater gains on integrated math/biology items. They also made comparable gains on biology items, indicating that integrating quantitative skills into an introductory biology course does not have a deleterious effect on students’ biology learning. PMID:24591504

Dose estimation by biological methods

International Nuclear Information System (INIS)

Guerrero C, C.; David C, L.; Serment G, J.; Brena V, M.

1997-01-01

The human being is exposed to strong artificial radiation sources, mainly of two forms: the first is referred to the occupationally exposed personnel (POE) and the second, to the persons that require radiological treatment. A third form less common is by accidents. In all these conditions it is very important to estimate the absorbed dose. The classical biological dosimetry is based in the dicentric analysis. The present work is part of researches to the process to validate the In situ Fluorescent hybridation (FISH) technique which allows to analyse the aberrations on the chromosomes. (Author)

Clinical experimental stress studies: methods and assessment.

Science.gov (United States)

Bali, Anjana; Jaggi, Amteshwar Singh

2015-01-01

Stress is a state of threatened homeostasis during which a variety of adaptive processes are activated to produce physiological and behavioral changes. Stress induction methods are pivotal for understanding these physiological or pathophysiological changes in the body in response to stress. Furthermore, these methods are also important for the development of novel pharmacological agents for stress management. The well-described methods to induce stress in humans include the cold pressor test, Trier Social Stress Test, Montreal Imaging Stress Task, Maastricht Acute Stress Test, CO2 challenge test, Stroop test, Paced Auditory Serial Addition Task, noise stress, and Mannheim Multicomponent Stress Test. Stress assessment in humans is done by measuring biochemical markers such as cortisol, cortisol awakening response, dexamethasone suppression test, salivary α-amylase, plasma/urinary norepinephrine, norepinephrine spillover rate, and interleukins. Physiological and behavioral changes such as galvanic skin response, heart rate variability, pupil size, and muscle and/or skin sympathetic nerve activity (microneurography) and cardiovascular parameters such as heart rate, blood pressure, and self-reported anxiety are also monitored to assess stress response. This present review describes these commonly employed methods to induce stress in humans along with stress assessment methods.

Thiosemicarbazones: preparation methods, synthetic applications and biological importance

International Nuclear Information System (INIS)

Tenorio, Romulo P.; Goes, Alexandre J.S.; Lima, Jose G. de; Faria, Antonio R. de; Alves, Antonio J.; Aquino, Thiago M. de

2005-01-01

Thiosemicarbazones are a class of compounds known by their chemical and biological properties, such as antitumor, antibacterial, antiviral and antiprotozoal activity. Their ability to form chelates with metals has great importance in their biological activities. Their synthesis is very simple, versatile and clean, usually giving high yields. They are largely employed as intermediates, in the synthesis of others compounds. This article is a survey of some of these characteristics showing their great importance to organic and medicinal chemistry. (author)

Assessment of biological effects of environmental pollution along the NW Mediterranean Sea using mussels as sentinel organisms

International Nuclear Information System (INIS)

Zorita, Izaskun; Apraiz, Itxaso; Ortiz-Zarragoitia, Maren; Orbea, Amaia; Cancio, Ibon; Soto, Manu; Marigomez, Ionan; Cajaraville, Miren P.

2007-01-01

With the aim of assessing the biological effects of pollution along three gradients of pollution in the NW Mediterranean Sea, a biomonitoring survey was implemented using a battery of biomarkers (lysosomal membrane stability, lysosomal structural changes, metallothionein (MT) induction and peroxisome proliferation) in mussels over a period of two years as part of the EU-funded BEEP project. Mussels from the most impacted zones (Fos, Genova and Barcelona harbours) showed enlarged lysosomes accompanied by reduced labilisation period of lysosomal membranes, indicating disturbed health. MT levels did not reveal significant differences between stations and were significantly correlated with gonad index, suggesting that they were influenced by gamete development. Peroxisomal acyl-CoA oxidase (AOX) activity was significantly inhibited in polluted stations possibly due to interactions among mixtures of pollutants. In conclusion, the application of a battery of effect and exposure biomarkers provided relevant data for the assessment of biological effects of environmental pollution along the NW Mediterranean Sea. - The biomarker approach is suitable for assessment of environmental pollution in the NW Mediterranean Sea

Assessment of biological effects of environmental pollution along the NW Mediterranean Sea using mussels as sentinel organisms

Energy Technology Data Exchange (ETDEWEB)

Zorita, Izaskun [Biologia Zelularra eta Histologia Laborategia, Zoologia eta Biologia Zelularra Saila, Zientzia eta Teknologia Fakultatea, Euskal Herriko Unibertsitatea/Univ. del Pais Vasco, 644 P.K., E-48080 Bilbao, Basque Country (Spain); Apraiz, Itxaso [Biologia Zelularra eta Histologia Laborategia, Zoologia eta Biologia Zelularra Saila, Zientzia eta Teknologia Fakultatea, Euskal Herriko Unibertsitatea/Univ. del Pais Vasco, 644 P.K., E-48080 Bilbao, Basque Country (Spain); Ortiz-Zarragoitia, Maren [Biologia Zelularra eta Histologia Laborategia, Zoologia eta Biologia Zelularra Saila, Zientzia eta Teknologia Fakultatea, Euskal Herriko Unibertsitatea/Univ. del Pais Vasco, 644 P.K., E-48080 Bilbao, Basque Country (Spain); Orbea, Amaia [Biologia Zelularra eta Histologia Laborategia, Zoologia eta Biologia Zelularra Saila, Zientzia eta Teknologia Fakultatea, Euskal Herriko Unibertsitatea/Univ. del Pais Vasco, 644 P.K., E-48080 Bilbao, Basque Country (Spain); Cancio, Ibon [Biologia Zelularra eta Histologia Laborategia, Zoologia eta Biologia Zelularra Saila, Zientzia eta Teknologia Fakultatea, Euskal Herriko Unibertsitatea/Univ. del Pais Vasco, 644 P.K., E-48080 Bilbao, Basque Country (Spain); Soto, Manu [Biologia Zelularra eta Histologia Laborategia, Zoologia eta Biologia Zelularra Saila, Zientzia eta Teknologia Fakultatea, Euskal Herriko Unibertsitatea/Univ. del Pais Vasco, 644 P.K., E-48080 Bilbao, Basque Country (Spain); Marigomez, Ionan [Biologia Zelularra eta Histologia Laborategia, Zoologia eta Biologia Zelularra Saila, Zientzia eta Teknologia Fakultatea, Euskal Herriko Unibertsitatea/Univ. del Pais Vasco, 644 P.K., E-48080 Bilbao, Basque Country (Spain); Cajaraville, Miren P. [Biologia Zelularra eta Histologia Laborategia, Zoologia eta Biologia Zelularra Saila, Zientzia eta Teknologia Fakultatea, Euskal Herriko Unibertsitatea/Univ. del Pais Vasco, 644 P.K., E-48080 Bilbao, Basque Country (Spain)]. E-mail: mirenp.cajaraville@ehu.es

2007-07-15

With the aim of assessing the biological effects of pollution along three gradients of pollution in the NW Mediterranean Sea, a biomonitoring survey was implemented using a battery of biomarkers (lysosomal membrane stability, lysosomal structural changes, metallothionein (MT) induction and peroxisome proliferation) in mussels over a period of two years as part of the EU-funded BEEP project. Mussels from the most impacted zones (Fos, Genova and Barcelona harbours) showed enlarged lysosomes accompanied by reduced labilisation period of lysosomal membranes, indicating disturbed health. MT levels did not reveal significant differences between stations and were significantly correlated with gonad index, suggesting that they were influenced by gamete development. Peroxisomal acyl-CoA oxidase (AOX) activity was significantly inhibited in polluted stations possibly due to interactions among mixtures of pollutants. In conclusion, the application of a battery of effect and exposure biomarkers provided relevant data for the assessment of biological effects of environmental pollution along the NW Mediterranean Sea. - The biomarker approach is suitable for assessment of environmental pollution in the NW Mediterranean Sea.

BinQuasi: a peak detection method for ChIP-sequencing data with biological replicates.

Science.gov (United States)

Goren, Emily; Liu, Peng; Wang, Chao; Wang, Chong

2018-04-19

ChIP-seq experiments that are aimed at detecting DNA-protein interactions require biological replication to draw inferential conclusions, however there is no current consensus on how to analyze ChIP-seq data with biological replicates. Very few methodologies exist for the joint analysis of replicated ChIP-seq data, with approaches ranging from combining the results of analyzing replicates individually to joint modeling of all replicates. Combining the results of individual replicates analyzed separately can lead to reduced peak classification performance compared to joint modeling. Currently available methods for joint analysis may fail to control the false discovery rate at the nominal level. We propose BinQuasi, a peak caller for replicated ChIP-seq data, that jointly models biological replicates using a generalized linear model framework and employs a one-sided quasi-likelihood ratio test to detect peaks. When applied to simulated data and real datasets, BinQuasi performs favorably compared to existing methods, including better control of false discovery rate than existing joint modeling approaches. BinQuasi offers a flexible approach to joint modeling of replicated ChIP-seq data which is preferable to combining the results of replicates analyzed individually. Source code is freely available for download at https://cran.r-project.org/package=BinQuasi, implemented in R. pliu@iastate.edu or egoren@iastate.edu. Supplementary material is available at Bioinformatics online.

Methods to characterize environmental settings of stream and groundwater sampling sites for National Water-Quality Assessment

Science.gov (United States)

Nakagaki, Naomi; Hitt, Kerie J.; Price, Curtis V.; Falcone, James A.

2012-01-01

Characterization of natural and anthropogenic features that define the environmental settings of sampling sites for streams and groundwater, including drainage basins and groundwater study areas, is an essential component of water-quality and ecological investigations being conducted as part of the U.S. Geological Survey's National Water-Quality Assessment program. Quantitative characterization of environmental settings, combined with physical, chemical, and biological data collected at sampling sites, contributes to understanding the status of, and influences on, water-quality and ecological conditions. To support studies for the National Water-Quality Assessment program, a geographic information system (GIS) was used to develop a standard set of methods to consistently characterize the sites, drainage basins, and groundwater study areas across the nation. This report describes three methods used for characterization-simple overlay, area-weighted areal interpolation, and land-cover-weighted areal interpolation-and their appropriate applications to geographic analyses that have different objectives and data constraints. In addition, this document records the GIS thematic datasets that are used for the Program's national design and data analyses.

Assessment of different pre-treatment methods for the removal of limonene in citrus waste and their effect on methane potential and methane production rate.

Science.gov (United States)

Ruiz, Begoña; de Benito, Amparo; Rivera, José Daniel; Flotats, Xavier

2016-12-01

The objective of this study was to assess the limonene removal efficiency of three pre-treatment methods when applied to citrus waste and to evaluate their effects on the biochemical methane potential and the methane production rate using batch anaerobic tests. The methods tested were based on removal (biological pretreatment by fungi) or recovery (steam distillation and ethanol extraction) of limonene. All the treatments decreased the concentration of limonene in orange peel, with average efficiencies of 22%, 44% and 100% for the biological treatment, steam distillation and ethanol extraction, respectively. By-products from limonene biodegradation by fungi exhibited an inhibitory effect also, not making interesting the biological pretreatment. The methane potential and production rate of the treated orange peel increased significantly after applying the recovery strategies, which separated and recovered simultaneously other inhibitory components of the citrus essential oil. Apart from the high recovery efficiency of the ethanol extraction process, it presented a favourable energy balance. © The Author(s) 2016.

Systems Biology as an Integrated Platform for Bioinformatics, Systems Synthetic Biology, and Systems Metabolic Engineering

Science.gov (United States)

Chen, Bor-Sen; Wu, Chia-Chou

2013-01-01

Systems biology aims at achieving a system-level understanding of living organisms and applying this knowledge to various fields such as synthetic biology, metabolic engineering, and medicine. System-level understanding of living organisms can be derived from insight into: (i) system structure and the mechanism of biological networks such as gene regulation, protein interactions, signaling, and metabolic pathways; (ii) system dynamics of biological networks, which provides an understanding of stability, robustness, and transduction ability through system identification, and through system analysis methods; (iii) system control methods at different levels of biological networks, which provide an understanding of systematic mechanisms to robustly control system states, minimize malfunctions, and provide potential therapeutic targets in disease treatment; (iv) systematic design methods for the modification and construction of biological networks with desired behaviors, which provide system design principles and system simulations for synthetic biology designs and systems metabolic engineering. This review describes current developments in systems biology, systems synthetic biology, and systems metabolic engineering for engineering and biology researchers. We also discuss challenges and future prospects for systems biology and the concept of systems biology as an integrated platform for bioinformatics, systems synthetic biology, and systems metabolic engineering. PMID:24709875

Systems Biology as an Integrated Platform for Bioinformatics, Systems Synthetic Biology, and Systems Metabolic Engineering

Directory of Open Access Journals (Sweden)

Bor-Sen Chen

2013-10-01

Full Text Available Systems biology aims at achieving a system-level understanding of living organisms and applying this knowledge to various fields such as synthetic biology, metabolic engineering, and medicine. System-level understanding of living organisms can be derived from insight into: (i system structure and the mechanism of biological networks such as gene regulation, protein interactions, signaling, and metabolic pathways; (ii system dynamics of biological networks, which provides an understanding of stability, robustness, and transduction ability through system identification, and through system analysis methods; (iii system control methods at different levels of biological networks, which provide an understanding of systematic mechanisms to robustly control system states, minimize malfunctions, and provide potential therapeutic targets in disease treatment; (iv systematic design methods for the modification and construction of biological networks with desired behaviors, which provide system design principles and system simulations for synthetic biology designs and systems metabolic engineering. This review describes current developments in systems biology, systems synthetic biology, and systems metabolic engineering for engineering and biology researchers. We also discuss challenges and future prospects for systems biology and the concept of systems biology as an integrated platform for bioinformatics, systems synthetic biology, and systems metabolic engineering.

Lipidomic analysis of biological samples: Comparison of liquid chromatography, supercritical fluid chromatography and direct infusion mass spectrometry methods.

Science.gov (United States)

Lísa, Miroslav; Cífková, Eva; Khalikova, Maria; Ovčačíková, Magdaléna; Holčapek, Michal

2017-11-24

Lipidomic analysis of biological samples in a clinical research represents challenging task for analytical methods given by the large number of samples and their extreme complexity. In this work, we compare direct infusion (DI) and chromatography - mass spectrometry (MS) lipidomic approaches represented by three analytical methods in terms of comprehensiveness, sample throughput, and validation results for the lipidomic analysis of biological samples represented by tumor tissue, surrounding normal tissue, plasma, and erythrocytes of kidney cancer patients. Methods are compared in one laboratory using the identical analytical protocol to ensure comparable conditions. Ultrahigh-performance liquid chromatography/MS (UHPLC/MS) method in hydrophilic interaction liquid chromatography mode and DI-MS method are used for this comparison as the most widely used methods for the lipidomic analysis together with ultrahigh-performance supercritical fluid chromatography/MS (UHPSFC/MS) method showing promising results in metabolomics analyses. The nontargeted analysis of pooled samples is performed using all tested methods and 610 lipid species within 23 lipid classes are identified. DI method provides the most comprehensive results due to identification of some polar lipid classes, which are not identified by UHPLC and UHPSFC methods. On the other hand, UHPSFC method provides an excellent sensitivity for less polar lipid classes and the highest sample throughput within 10min method time. The sample consumption of DI method is 125 times higher than for other methods, while only 40μL of organic solvent is used for one sample analysis compared to 3.5mL and 4.9mL in case of UHPLC and UHPSFC methods, respectively. Methods are validated for the quantitative lipidomic analysis of plasma samples with one internal standard for each lipid class. Results show applicability of all tested methods for the lipidomic analysis of biological samples depending on the analysis requirements

New method for assessing risks of email

Science.gov (United States)

Raja, Seyyed H.; Afrooz, Farzad

2013-03-01

E-mail technology, has become one of the requirements of human lives for correspondence between individuals. Given this, the important point is that the messages, server and client of e-mail and correspondences that exchanged between different people have acceptable security, to make people sure to use of this technology. In the information age, many of financial and non financial transactions are done electronically, data exchange takes place via the internet and theft and manipulation of data can make exorbitant cost in terms of integrity, financial, political, economic and culture. E-mail correspondence in there is same and it is very important. With review took place, a method that will focus on email system for risks assessment is not provided. We are examining ways of assessing for other systems and their strengths and weaknesses, then we use Mr Convery method for assessing email risks which it is for assessing network risks. At the end of paper we have offered special table for email risk assessment.

Arbuscular mycorrhiza in soil quality assessment

DEFF Research Database (Denmark)

Kling, M.; Jakobsen, I.

1998-01-01

aggregates and to the protection of plants against drought and root pathogens. Assessment of soil quality, defined as the capacity of a soil to function within ecosystem boundaries to sustain biological productivity, maintain environmental quality, and promote plant health, should therefore include both......Arbuscular mycorrhizal (AM) fungi constitute a living bridge for the transport of nutrients from soil to plant roots, and are considered as the group of soil microorganisms that is of most direct importance to nutrient uptake by herbaceous plants. AM fungi also contribute to the formation of soil...... quantitative and qualitative measurements of this important biological resource. Various methods for the assessment of the potential for mycorrhiza formation and function are presented. Examples are given of the application of these methods to assess the impact of pesticides on the mycorrhiza....

Electrical Impedance Spectroscopy for Quality Assessment of Meat and Fish: A Review on Basic Principles, Measurement Methods, and Recent Advances

Directory of Open Access Journals (Sweden)

Xin Zhao

2017-01-01

Full Text Available Electrical impedance spectroscopy (EIS, as an effective analytical technique for electrochemical system, has shown a wide application for food quality and safety assessment recently. Individual differences of livestock cause high variation in quality of raw meat and fish and their commercialized products. Therefore, in order to obtain the definite quality information and ensure the quality of each product, a fast and on-line detection technology is demanded to be developed to monitor product processing. EIS has advantages of being fast, nondestructive, inexpensive, and easily implemented and shows potential to develop on-line detecting instrument to replace traditional methods to realize time, cost, skilled persons saving and further quality grading. This review outlines the fundamental theories and two common measurement methods of EIS applied to biological tissue, summarizes its application specifically for quality assessment of meat and fish, and discusses challenges and future trends of EIS technology applied for meat and fish quality assessment.

Usefulness and limits of biological dosimetry based on cytogenetic methods

International Nuclear Information System (INIS)

Leonard, A.; Rueff, J.; Gerber, G. B.; Leonard, E. D.

2005-01-01

Damage from occupational or accidental exposure to ionising radiation is often assessed by monitoring chromosome aberrations in peripheral blood lymphocytes, and these procedures have, in several cases, assisted physicians in the management of irradiated persons. Thereby, circulating lymphocytes, which are in the G0 stage of the cell cycle are stimulated with a mitogenic agent, usually phytohaemagglutinin, to replicate in vitro their DNA and enter cell division, and are then observed for abnormalities. Comparison with dose response relationships obtained in vitro allows an estimate of exposure based on scoring: - Unstable aberrations by the conventional, well-established analysis of metaphases for chromosome abnormalities or for micronuclei; - So-called stable aberrations by the classical G-banding (Giemsa-Stain-banding) technique or by the more recently developed fluorescent in situ hybridisation (FISH) method using fluorescent-labelled probes for centromeres and chromosomes. Three factors need to be considered in applying such biological dosimetry: (1) Radiation doses in the body are often inhomogeneous. A comparison of the distribution of the observed aberrations among with that expected from a normal poisson distribution can allow conclusions to be made with regard to the inhomogeneity of exposure by means of the so-called contaminated poisson distribution method; however, its application requires a sufficiently large number of aberrations, i.e. an exposure to a rather large dose at a high dose rate. (2) Exposure can occur at a low dose rate (e.g. from spread or lost radioactive sources) rendering a comparison with in vitro exposure hazardous. Dose-effect relationships of most aberrations that were scored, such as translocations, follow a square law. Repair intervening during exposure reduces the quadratic component with decreasing dose rate as exposure is spread over a longer period of time. No valid solution for this problem has yet been developed, although

Mass balance to assess the efficiency of a mechanical-biological treatment

International Nuclear Information System (INIS)

Araujo Morais, J. de; Ducom, G.; Achour, F.; Rouez, M.; Bayard, R.

2008-01-01

Using mechanical-biological treatment of residual municipal solid waste, it is possible to significantly lower landfill volume and gas and leachate emissions. Moreover, the landfill characteristics are improved. The performance of the Mende (France) mechanical-biological treatment plant is assessed via mass balances coupled with manual sorting according to the MODECOM TM methodology and biochemical methane potential after 90 days of incubation. The site includes mechanical sorting operations, a rotary sequential bioreactor, controlled aerobic stabilisation corridors, maturation platforms, and a sanitary landfill site for waste disposal in separated cells. Results showed that several steps could be improved: after a first sieving step, about 12% of the potentially biodegradable matter is landfilled directly without any treatment; mechanical disintegration of papers and cardboards in the rotary sequential bioreactor is insufficient and leads to a high proportion of papers and cardboards being landfilled without further treatment. Two fine fractions go through stabilisation and maturation steps. At the end of the maturation step, about 54% of the potentially biodegradable matter is degraded. The biochemical methane potential after 90 days of incubation is reduced by 81% for one of the two fine fractions and reduced by 88% for the other one. Considering the whole plant, there is a reduction of nearly 20% DM of the entering residual municipal solid waste

7th Annual Systems Biology Symposium: Systems Biology and Engineering

Energy Technology Data Exchange (ETDEWEB)

Galitski, Timothy P.

2008-04-01

Systems biology recognizes the complex multi-scale organization of biological systems, from molecules to ecosystems. The International Symposium on Systems Biology has been hosted by the Institute for Systems Biology in Seattle, Washington, since 2002. The annual two-day event gathers the most influential researchers transforming biology into an integrative discipline investingating complex systems. Engineering and application of new technology is a central element of systems biology. Genome-scale, or very small-scale, biological questions drive the enigneering of new technologies, which enable new modes of experimentation and computational analysis, leading to new biological insights and questions. Concepts and analytical methods in engineering are now finding direct applications in biology. Therefore, the 2008 Symposium, funded in partnership with the Department of Energy, featured global leaders in "Systems Biology and Engineering."

Biological indicators for radiation absorbed dose: a review

International Nuclear Information System (INIS)

Paul, S.F.D.; Venkatachalam, P.; Jeevanram, R.K.

1996-01-01

Biological dosimetry has an important role to play in assessing the cumulative radiation exposure of persons working with radiation and also in estimating the true dose received during accidents involving external and internal exposure. Various biodosimetric methods have been tried to estimate radiation dose for the above purposes. Biodosimetric methods include cytogenetic, immunological and mutational assays. Each technique has certain advantages and disadvantages. We present here a review of each technique, the actual method used for detection of dose, the sensitivity of detection and its use in long term studies. (author)

Method for determination of radioactive iodine isotopes in environmental objects and biologic materials

International Nuclear Information System (INIS)

Dubynin, O.D.; Pogodin, R.I.

1981-01-01

The method proposed for determination of radioactive iodine isotopes content in environmental objects and biologic materials is based on the extraction of iodine with carbon tetrachloride and subsequent precipitation of bismuthyl iodine (BiOI) in perchloric medium. Sample preparation for analysis is carried out using conventional alkaline ashing methods. Quantitative iodine separation is hampered if macroquantities of Cl - , Br - , SO 4 2 - , SO 8 2 - , Cr 2 O 7 2 - and other ions are present in the solution. Iodine extraction is carried out before its precipitation. Separated iodine preparation activity is measured using scintillation (NaI) Tl gamma spectrometer. The method's sensitivity when measuring iodine-131 preparations makes up 0.07 Bq per 1 sample with the error +-25 %

Quantitative imaging biomarkers: a review of statistical methods for technical performance assessment.

Science.gov (United States)

Raunig, David L; McShane, Lisa M; Pennello, Gene; Gatsonis, Constantine; Carson, Paul L; Voyvodic, James T; Wahl, Richard L; Kurland, Brenda F; Schwarz, Adam J; Gönen, Mithat; Zahlmann, Gudrun; Kondratovich, Marina V; O'Donnell, Kevin; Petrick, Nicholas; Cole, Patricia E; Garra, Brian; Sullivan, Daniel C

2015-02-01

Technological developments and greater rigor in the quantitative measurement of biological features in medical images have given rise to an increased interest in using quantitative imaging biomarkers to measure changes in these features. Critical to the performance of a quantitative imaging biomarker in preclinical or clinical settings are three primary metrology areas of interest: measurement linearity and bias, repeatability, and the ability to consistently reproduce equivalent results when conditions change, as would be expected in any clinical trial. Unfortunately, performance studies to date differ greatly in designs, analysis method, and metrics used to assess a quantitative imaging biomarker for clinical use. It is therefore difficult or not possible to integrate results from different studies or to use reported results to design studies. The Radiological Society of North America and the Quantitative Imaging Biomarker Alliance with technical, radiological, and statistical experts developed a set of technical performance analysis methods, metrics, and study designs that provide terminology, metrics, and methods consistent with widely accepted metrological standards. This document provides a consistent framework for the conduct and evaluation of quantitative imaging biomarker performance studies so that results from multiple studies can be compared, contrasted, or combined. © The Author(s) 2014 Reprints and permissions: sagepub.co.uk/journalsPermissions.nav.

Development of analytical methods for the determination of some radiologically important elements in biological materials using neutron activation analysis

International Nuclear Information System (INIS)

Dang, H.S.; Jaiswal, D.D.; Pullat, V.R.; Krishnamony, S.

1998-01-01

This paper describes the analytical methods developed for the estimation of Cs, I, Sr, Th and U in biological materials such as food and human tissues. The methods employ both, the instrumental neutron activation analysis (INAA) and radiochemical neutron activation analysis (RNAA). The adequacy of these methods to determine the concentrations of the above elements in dietary and tissue materials was also studied. The study showed that the analytical methods described in this paper are adequate for the determination of Cs, Sr, Th and U in all kinds of biological samples. In the case of I however, the method is adequate only for determining its concentration in thyroid, but needs to be modified to improve its sensitivity for the determination of I in diet samples. (author)

A simple method of fabricating mask-free microfluidic devices for biological analysis.

KAUST Repository

Yi, Xin

2010-09-07

We report a simple, low-cost, rapid, and mask-free method to fabricate two-dimensional (2D) and three-dimensional (3D) microfluidic chip for biological analysis researches. In this fabrication process, a laser system is used to cut through paper to form intricate patterns and differently configured channels for specific purposes. Bonded with cyanoacrylate-based resin, the prepared paper sheet is sandwiched between glass slides (hydrophilic) or polymer-based plates (hydrophobic) to obtain a multilayer structure. In order to examine the chip\\'s biocompatibility and applicability, protein concentration was measured while DNA capillary electrophoresis was carried out, and both of them show positive results. With the utilization of direct laser cutting and one-step gas-sacrificing techniques, the whole fabrication processes for complicated 2D and 3D microfluidic devices are shorten into several minutes which make it a good alternative of poly(dimethylsiloxane) microfluidic chips used in biological analysis researches.

Methods of geodiversity assessment and theirs application

Science.gov (United States)

Zwoliński, Zbigniew; Najwer, Alicja; Giardino, Marco

2016-04-01

The concept of geodiversity has rapidly gained the approval of scientists around the world (Wiedenbein 1993, Sharples 1993, Kiernan 1995, 1996, Dixon 1996, Eberhard 1997, Kostrzewski 1998, 2011, Gray 2004, 2008, 2013, Zwoliński 2004, Serrano, Ruiz- Flano 2007, Gordon et al. 2012). However, the problem recognition is still at an early stage, and in effect not explicitly understood and defined (Najwer, Zwoliński 2014). Nevertheless, despite widespread use of the concept, little progress has been made in its assessment and mapping. Less than the last decade can be observing investigation of methods for geodiversity assessment and its visualisation. Though, many have acknowledged the importance of geodiversity evaluation (Kozłowski 2004, Gray 2004, Reynard, Panizza 2005, Zouros 2007, Pereira et al. 2007, Hjort et al. 2015). Hitherto, only a few authors have undertaken that kind of methodological issues. Geodiversity maps are being created for a variety of purposes and therefore their methods are quite manifold. In the literature exists some examples of the geodiversity maps applications for the geotourism purpose, basing mainly on the geological diversity, in order to point the scale of the area's tourist attractiveness (Zwoliński 2010, Serrano and Gonzalez Trueba 2011, Zwoliński and Stachowiak 2012). In some studies, geodiversity maps were created and applied to investigate the spatial or genetic relationships with the richness of particular natural environmental components (Burnett et al. 1998, Silva 2004, Jačková, Romportl 2008, Hjort et al. 2012, 2015, Mazurek et al. 2015, Najwer et al. 2014). There are also a few examples of geodiversity assessment in order to geoconservation and efficient management and planning of the natural protected areas (Serrano and Gonzalez Trueba 2011, Pellitero et al. 2011, 2014, Jaskulska et al. 2013, Melelli 2014, Martinez-Grana et al. 2015). The most popular method of assessing the diversity of abiotic components of the natural

What influences the choice of assessment methods in health technology assessments? Statistical analysis of international health technology assessments from 1989 to 2002.

Science.gov (United States)

Draborg, Eva; Andersen, Christian Kronborg

2006-01-01

Health technology assessment (HTA) has been used as input in decision making worldwide for more than 25 years. However, no uniform definition of HTA or agreement on assessment methods exists, leaving open the question of what influences the choice of assessment methods in HTAs. The objective of this study is to analyze statistically a possible relationship between methods of assessment used in practical HTAs, type of assessed technology, type of assessors, and year of publication. A sample of 433 HTAs published by eleven leading institutions or agencies in nine countries was reviewed and analyzed by multiple logistic regression. The study shows that outsourcing of HTA reports to external partners is associated with a higher likelihood of using assessment methods, such as meta-analysis, surveys, economic evaluations, and randomized controlled trials; and with a lower likelihood of using assessment methods, such as literature reviews and "other methods". The year of publication was statistically related to the inclusion of economic evaluations and shows a decreasing likelihood during the year span. The type of assessed technology was related to economic evaluations with a decreasing likelihood, to surveys, and to "other methods" with a decreasing likelihood when pharmaceuticals were the assessed type of technology. During the period from 1989 to 2002, no major developments in assessment methods used in practical HTAs were shown statistically in a sample of 433 HTAs worldwide. Outsourcing to external assessors has a statistically significant influence on choice of assessment methods.

Inventory of LCIA selection methods for assessing toxic releases. Methods and typology report part B

DEFF Research Database (Denmark)

Larsen, Henrik Fred; Birkved, Morten; Hauschild, Michael Zwicky

method(s) in Work package 8 (WP8) of the OMNIITOX project. The selection methods and the other CRS methods are described in detail, a set of evaluation criteria are developed and the methods are evaluated against these criteria. This report (Deliverable 11B (D11B)) gives the results from task 7.1d, 7.1e......This report describes an inventory of Life Cycle Impact Assessment (LCIA) selection methods for assessing toxic releases. It consists of an inventory of current selection methods and other Chemical Ranking and Scoring (CRS) methods assessed to be relevant for the development of (a) new selection...... and 7.1f of WP 7 for selection methods. The other part of D11 (D11A) is reported in another report and deals with characterisation methods. A selection method is a method for prioritising chemical emissions to be included in an LCIA characterisation of toxic releases, i.e. calculating indicator scores...

Assessment of medical communication skills by computer: assessment method and student experiences

NARCIS (Netherlands)

Hulsman, R. L.; Mollema, E. D.; Hoos, A. M.; de Haes, J. C. J. M.; Donnison-Speijer, J. D.

2004-01-01

BACKGROUND A computer-assisted assessment (CAA) program for communication skills designated ACT was developed using the objective structured video examination (OSVE) format. This method features assessment of cognitive scripts underlying communication behaviour, a broad range of communication

A Comparative Study of Compression Methods and the Development of CODEC Program of Biological Signal for Emergency Telemedicine Service

Energy Technology Data Exchange (ETDEWEB)

Yoon, T.S.; Kim, J.S. [Changwon National University, Changwon (Korea); Lim, Y.H. [Visionite Co., Ltd., Seoul (Korea); Yoo, S.K. [Yonsei University, Seoul (Korea)

2003-05-01

In an emergency telemedicine system such as the High-quality Multimedia based Real-time Emergency Telemedicine(HMRET) service, it is very important to examine the status of the patient continuously using the multimedia data including the biological signals(ECG, BP, Respiration, S{sub p}O{sub 2}) of the patient. In order to transmit these data real time through the communication means which have the limited transmission capacity, it is also necessary to compress the biological data besides other multimedia data. For this purpose, we investigate and compare the ECG compression techniques in the time domain and in the wavelet transform domain, and present an effective lossless compression method of the biological signals using JPEG Huffman table for an emergency telemedicine system. And, for the HMRET service, we developed the lossless compression and reconstruction program of the biological signals in MSVC++ 6.0 using DPCM method and JPEG Huffman table, and tested in an internet environment. (author). 15 refs., 17 figs., 7 tabs.

Concepts, methods and models to assess environmental impact

International Nuclear Information System (INIS)

Pentreath, R.J.

2002-01-01

The environmental impact of chemicals generally in the environment is a subject that has been approached in recent years in ways that are different in concept and practice. They range from chemical 'toxicity' and 'residual' risk assessments based on individuals, to broader based, ecological risk assessments. At the same time, approaches to considering what in the environment should be protected, and how, has also changed. Approaches to this subject vary from strict conservation of identified species and areas, to the more general concepts of wishing to maintain the biological diversity within and amongst all species and habitats, and of protecting large habitat areas against irreversible human damage. Against this background, approaches to the issue of the possible impact of radionuclides in the environment over the last decade or so have centred around the various statements made by the ICRP; either attempting to support them, or seeking to compensate for their perceived deficiencies. There have been arguments that, because man is an integral part of 'the environment', and is afforded such a high level of protection, then all other components of it would be axiomatically protected. There have also been calculations to demonstrate that, in hypothetical situations, if radionuclide concentrations in the environment were such that the 1 mSv a -1 dose limit to man was not exceeded, then the concentrations of radionuclides in the animals and plants in their food chain would therefore receive dose-rates less than those likely to cause them 'harm' at the population level. Some countries have been more direct. In the USA, dose 'standards' for the protection of populations of all aquatic animals have been introduced, and consideration is being given to the introduction of dose 'standards' for populations of all terrestrial plants and animals. The introduction of a set of 'no effects' dose-rate screening reference levels for different types of fauna, to be applied to

Impaired Perception of Biological Motion in Parkinson’s Disease

Science.gov (United States)

Jaywant, Abhishek; Shiffrar, Maggie; Roy, Serge; Cronin-Golomb, Alice

2016-01-01

Objective We examined biological motion perception in Parkinson’s disease (PD). Biological motion perception is related to one’s own motor function and depends on the integrity of brain areas affected in PD, including posterior superior temporal sulcus. If deficits in biological motion perception exist, they may be specific to perceiving natural/fast walking patterns that individuals with PD can no longer perform, and may correlate with disease-related motor dysfunction. Method 26 non-demented individuals with PD and 24 control participants viewed videos of point-light walkers and scrambled versions that served as foils, and indicated whether each video depicted a human walking. Point-light walkers varied by gait type (natural, parkinsonian) and speed (0.5, 1.0, 1.5 m/s). Participants also completed control tasks (object motion, coherent motion perception), a contrast sensitivity assessment, and a walking assessment. Results The PD group demonstrated significantly less sensitivity to biological motion than the control group (pperception (p=.02, Cohen’s d=.68). There was no group difference in coherent motion perception. Although individuals with PD had slower walking speed and shorter stride length than control participants, gait parameters did not correlate with biological motion perception. Contrast sensitivity and coherent motion perception also did not correlate with biological motion perception. Conclusion PD leads to a deficit in perceiving biological motion, which is independent of gait dysfunction and low-level vision changes, and may therefore arise from difficulty perceptually integrating form and motion cues in posterior superior temporal sulcus. PMID:26949927

Teaching Methods in Biology Education and Sustainability Education Including Outdoor Education for Promoting Sustainability—A Literature Review

Directory of Open Access Journals (Sweden)

Eila Jeronen

2016-12-01

Full Text Available There are very few studies concerning the importance of teaching methods in biology education and environmental education including outdoor education for promoting sustainability at the levels of primary and secondary schools and pre-service teacher education. The material was selected using special keywords from biology and sustainable education in several scientific databases. The article provides an overview of 24 selected articles published in peer-reviewed scientific journals from 2006–2016. The data was analyzed using qualitative content analysis. Altogether, 16 journals were selected and 24 articles were analyzed in detail. The foci of the analyses were teaching methods, learning environments, knowledge and thinking skills, psychomotor skills, emotions and attitudes, and evaluation methods. Additionally, features of good methods were investigated and their implications for teaching were emphasized. In total, 22 different teaching methods were found to improve sustainability education in different ways. The most emphasized teaching methods were those in which students worked in groups and participated actively in learning processes. Research points toward the value of teaching methods that provide a good introduction and supportive guidelines and include active participation and interactivity.

Vegetation improvement and soil biological quality in the Sahel of ...

African Journals Online (AJOL)

The method of Tropical Soil Biology and Fertility (TSBF) was used to assess macro-fauna abundance and diversity in different land use types (cropland, shallow land, degraded land and forest). Four sites were selected, in the Sahelian zone of Burkina Faso, with contrasted Normalized Difference Vegetation Index (NDVI).

Design and methods of the Southeast Stream Quality Assessment (SESQA), 2014

Science.gov (United States)

Journey, Celeste A.; Van Metre, Peter C.; Bell, Amanda H.; Button, Daniel T.; Garrett, Jessica D.; Nakagaki, Naomi; Qi, Sharon L.; Bradley, Paul M.

2015-07-15

During 2014, the U.S. Geological Survey (USGS) National Water-Quality Assessment Program (NAWQA) assessed stream quality across the Piedmont and southern Appalachian Mountain regions of the southeastern United States. This Southeast Stream Quality Assessment (SESQA) simultaneously characterized watershed and stream-reach water-quality stressors along with instream biological conditions, in order to better understand regional stressor-effects relations. The goal of SESQA is to provide communities and policymakers with information about those human and environmental factors that have the greatest impact on stream quality across the region. The SESQA design focused on hydrologic alteration and urbanization because of their importance as ecological stressors of particular concern to Southeast region resource managers.

Statistical methods in personality assessment research.

Science.gov (United States)

Schinka, J A; LaLone, L; Broeckel, J A

1997-06-01

Emerging models of personality structure and advances in the measurement of personality and psychopathology suggest that research in personality and personality assessment has entered a stage of advanced development, in this article we examine whether researchers in these areas have taken advantage of new and evolving statistical procedures. We conducted a review of articles published in the Journal of Personality, Assessment during the past 5 years. Of the 449 articles that included some form of data analysis, 12.7% used only descriptive statistics, most employed only univariate statistics, and fewer than 10% used multivariate methods of data analysis. We discuss the cost of using limited statistical methods, the possible reasons for the apparent reluctance to employ advanced statistical procedures, and potential solutions to this technical shortcoming.

Quantum Biology

Directory of Open Access Journals (Sweden)

Alessandro Sergi

2009-06-01

Full Text Available A critical assessment of the recent developmentsof molecular biology is presented.The thesis that they do not lead to a conceptualunderstanding of life and biological systems is defended.Maturana and Varela's concept of autopoiesis is briefly sketchedand its logical circularity avoided by postulatingthe existence of underlying living processes,entailing amplification from the microscopic to the macroscopic scale,with increasing complexity in the passage from one scale to the other.Following such a line of thought, the currently accepted model of condensed matter, which is based on electrostatics and short-ranged forces,is criticized. It is suggested that the correct interpretationof quantum dispersion forces (van der Waals, hydrogen bonding, and so onas quantum coherence effects hints at the necessity of includinglong-ranged forces (or mechanisms for them incondensed matter theories of biological processes.Some quantum effects in biology are reviewedand quantum mechanics is acknowledged as conceptually important to biology since withoutit most (if not all of the biological structuresand signalling processes would not even exist. Moreover, it is suggested that long-rangequantum coherent dynamics, including electron polarization,may be invoked to explain signal amplificationprocess in biological systems in general.

Assessment of active methods for removal of LEO debris

Science.gov (United States)

Hakima, Houman; Emami, M. Reza

2018-03-01

This paper investigates the applicability of five active methods for removal of large low Earth orbit debris. The removal methods, namely net, laser, electrodynamic tether, ion beam shepherd, and robotic arm, are selected based on a set of high-level space mission constraints. Mission level criteria are then utilized to assess the performance of each redirection method in light of the results obtained from a Monte Carlo simulation. The simulation provides an insight into the removal time, performance robustness, and propellant mass criteria for the targeted debris range. The remaining attributes are quantified based on the models provided in the literature, which take into account several important parameters pertaining to each removal method. The means of assigning attributes to each assessment criterion is discussed in detail. A systematic comparison is performed using two different assessment schemes: Analytical Hierarchy Process and utility-based approach. A third assessment technique, namely the potential-loss analysis, is utilized to highlight the effect of risks in each removal methods.

Simulation of biological flow and transport in complex geometries using embedded boundary/volume-of-fluid methods

International Nuclear Information System (INIS)

Trebotich, David

2007-01-01

We have developed a simulation capability to model multiscale flow and transport in complex biological systems based on algorithms and software infrastructure developed under the SciDAC APDEC CET. The foundation of this work is a new hybrid fluid-particle method for modeling polymer fluids in irregular microscale geometries that enables long-time simulation of validation experiments. Both continuum viscoelastic and discrete particle representations have been used to model the constitutive behavior of polymer fluids. Complex flow environment geometries are represented on Cartesian grids using an implicit function. Direct simulation of flow in the irregular geometry is then possible using embedded boundary/volume-of-fluid methods without loss of geometric detail. This capability has been used to simulate biological flows in a variety of application geometries including biomedical microdevices, anatomical structures and porous media

An Integrated Method of Supply Chains Vulnerability Assessment

Directory of Open Access Journals (Sweden)

Jiaguo Liu

2016-01-01

Full Text Available Supply chain vulnerability identification and evaluation are extremely important to mitigate the supply chain risk. We present an integrated method to assess the supply chain vulnerability. The potential failure mode of the supply chain vulnerability is analyzed through the SCOR model. Combining the fuzzy theory and the gray theory, the correlation degree of each vulnerability indicator can be calculated and the target improvements can be carried out. In order to verify the effectiveness of the proposed method, we use Kendall’s tau coefficient to measure the effect of different methods. The result shows that the presented method has the highest consistency in the assessment compared with the other two methods.

Implementing the Science Assessment Standards: Developing and validating a set of laboratory assessment tasks in high school biology

Science.gov (United States)

Saha, Gouranga Chandra

Very often a number of factors, especially time, space and money, deter many science educators from using inquiry-based, hands-on, laboratory practical tasks as alternative assessment instruments in science. A shortage of valid inquiry-based laboratory tasks for high school biology has been cited. Driven by this need, this study addressed the following three research questions: (1) How can laboratory-based performance tasks be designed and developed that are doable by students for whom they are designed/written? (2) Do student responses to the laboratory-based performance tasks validly represent at least some of the intended process skills that new biology learning goals want students to acquire? (3) Are the laboratory-based performance tasks psychometrically consistent as individual tasks and as a set? To answer these questions, three tasks were used from the six biology tasks initially designed and developed by an iterative process of trial testing. Analyses of data from 224 students showed that performance-based laboratory tasks that are doable by all students require careful and iterative process of development. Although the students demonstrated more skill in performing than planning and reasoning, their performances at the item level were very poor for some items. Possible reasons for the poor performances have been discussed and suggestions on how to remediate the deficiencies have been made. Empirical evidences for validity and reliability of the instrument have been presented both from the classical and the modern validity criteria point of view. Limitations of the study have been identified. Finally implications of the study and directions for further research have been discussed.

The STIG : A new SDI assessment method

NARCIS (Netherlands)

Nushi, B.; Van Loenen, B.; Crompvoets, J.

2015-01-01

To stimulate the Spatial Data Infrastructures (SDI) development effectively and efficiently, it is key to assess the progress and benefits of the SDI. Currently, several SDI assessment methods exist. However, these are still in an infant stage and none of these appear to meet the requirements of

Two Dogmas of Biology

Directory of Open Access Journals (Sweden)

Leonore Fleming

2017-01-01

Full Text Available The problem with reductionism in biology is not the reduction, but the implicit attitude of determinism that usually accompanies it. Methodological reductionism is supported by deterministic beliefs, but making such a connection is problematic when it is based on an idea of determinism as fixed predictability. Conflating determinism with predictability gives rise to inaccurate models that overlook the dynamic complexity of our world, as well as ignore our epistemic limitations when we try to model it. Furthermore, the assumption of a strictly deterministic framework is unnecessarily hindering to biology. By removing the dogma of determinism, biological methods, including reductive methods, can be expanded to include stochastic models and probabilistic interpretations. Thus, the dogma of reductionism can be saved once its ties with determinism are severed. In this paper, I analyze two problems that have faced molecular biology for the last 50 years—protein folding and cancer. Both cases demonstrate the long influence of reductionism and determinism on molecular biology, as well as how abandoning determinism has opened the door to more probabilistic and unconstrained reductive methods in biology.

Fundamentals of bioinformatics and computational biology methods and exercises in matlab

CERN Document Server

Singh, Gautam B

2015-01-01

This book offers comprehensive coverage of all the core topics of bioinformatics, and includes practical examples completed using the MATLAB bioinformatics toolbox™. It is primarily intended as a textbook for engineering and computer science students attending advanced undergraduate and graduate courses in bioinformatics and computational biology. The book develops bioinformatics concepts from the ground up, starting with an introductory chapter on molecular biology and genetics. This chapter will enable physical science students to fully understand and appreciate the ultimate goals of applying the principles of information technology to challenges in biological data management, sequence analysis, and systems biology. The first part of the book also includes a survey of existing biological databases, tools that have become essential in today’s biotechnology research. The second part of the book covers methodologies for retrieving biological information, including fundamental algorithms for sequence compar...

TissueCypher™: A systems biology approach to anatomic pathology

Directory of Open Access Journals (Sweden)

Jeffrey W Prichard

2015-01-01

Full Text Available Background: Current histologic methods for diagnosis are limited by intra- and inter-observer variability. Immunohistochemistry (IHC methods are frequently used to assess biomarkers to aid diagnoses, however, IHC staining is variable and nonlinear and the manual interpretation is subjective. Furthermore, the biomarkers assessed clinically are typically biomarkers of epithelial cell processes. Tumors and premalignant tissues are not composed only of epithelial cells but are interacting systems of multiple cell types, including various stromal cell types that are involved in cancer development. The complex network of the tissue system highlights the need for a systems biology approach to anatomic pathology, in which quantification of system processes is combined with informatics tools to produce actionable scores to aid clinical decision-making. Aims: Here, we describe a quantitative, multiplexed biomarker imaging approach termed TissueCypher™ that applies systems biology to anatomic pathology. Applications of TissueCypher™ in understanding the tissue system of Barrett's esophagus (BE and the potential use as an adjunctive tool in the diagnosis of BE are described. Patients and Methods: The TissueCypher™ Image Analysis Platform was used to assess 14 epithelial and stromal biomarkers with known diagnostic significance in BE in a set of BE biopsies with nondysplastic BE with reactive atypia (RA, n = 22 and Barrett's with high-grade dysplasia (HGD, n = 17. Biomarker and morphology features were extracted and evaluated in the confirmed BE HGD cases versus the nondysplastic BE cases with RA. Results: Multiple image analysis features derived from epithelial and stromal biomarkers, including immune biomarkers and morphology, showed significant differences between HGD and RA. Conclusions: The assessment of epithelial cell abnormalities combined with an assessment of cellular changes in the lamina propria may serve as an adjunct to conventional

Synthetic Biology: Putting Synthesis into Biology

Science.gov (United States)

Liang, Jing; Luo, Yunzi; Zhao, Huimin

2010-01-01

The ability to manipulate living organisms is at the heart of a range of emerging technologies that serve to address important and current problems in environment, energy, and health. However, with all its complexity and interconnectivity, biology has for many years been recalcitrant to engineering manipulations. The recent advances in synthesis, analysis, and modeling methods have finally provided the tools necessary to manipulate living systems in meaningful ways, and have led to the coining of a field named synthetic biology. The scope of synthetic biology is as complicated as life itself – encompassing many branches of science, and across many scales of application. New DNA synthesis and assembly techniques have made routine the customization of very large DNA molecules. This in turn has allowed the incorporation of multiple genes and pathways. By coupling these with techniques that allow for the modeling and design of protein functions, scientists have now gained the tools to create completely novel biological machineries. Even the ultimate biological machinery – a self-replicating organism – is being pursued at this moment. It is the purpose of this review to dissect and organize these various components of synthetic biology into a coherent picture. PMID:21064036

Comparison of methods used in European countries to assess buildings' condition

NARCIS (Netherlands)

Vilhena, A.; Costa Branco De Oliveira Pedro, J.A.; De Brito, J.

2011-01-01

This paper presents a comparative analysis of methods used in European countries to assess buildings’ condition. The following methods were compared: a Portuguese method to assess buildings condition, an English housing health and safety rating system, a French method to assess buildings that may be

A direct method for computing extreme value (Gumbel) parameters for gapped biological sequence alignments.

Science.gov (United States)

Quinn, Terrance; Sinkala, Zachariah

2014-01-01

We develop a general method for computing extreme value distribution (Gumbel, 1958) parameters for gapped alignments. Our approach uses mixture distribution theory to obtain associated BLOSUM matrices for gapped alignments, which in turn are used for determining significance of gapped alignment scores for pairs of biological sequences. We compare our results with parameters already obtained in the literature.

Extended morphological processing: a practical method for automatic spot detection of biological markers from microscopic images.

Science.gov (United States)

Kimori, Yoshitaka; Baba, Norio; Morone, Nobuhiro

2010-07-08

A reliable extraction technique for resolving multiple spots in light or electron microscopic images is essential in investigations of the spatial distribution and dynamics of specific proteins inside cells and tissues. Currently, automatic spot extraction and characterization in complex microscopic images poses many challenges to conventional image processing methods. A new method to extract closely located, small target spots from biological images is proposed. This method starts with a simple but practical operation based on the extended morphological top-hat transformation to subtract an uneven background. The core of our novel approach is the following: first, the original image is rotated in an arbitrary direction and each rotated image is opened with a single straight line-segment structuring element. Second, the opened images are unified and then subtracted from the original image. To evaluate these procedures, model images of simulated spots with closely located targets were created and the efficacy of our method was compared to that of conventional morphological filtering methods. The results showed the better performance of our method. The spots of real microscope images can be quantified to confirm that the method is applicable in a given practice. Our method achieved effective spot extraction under various image conditions, including aggregated target spots, poor signal-to-noise ratio, and large variations in the background intensity. Furthermore, it has no restrictions with respect to the shape of the extracted spots. The features of our method allow its broad application in biological and biomedical image information analysis.

Determination of element concentrations in biological reference materials by solid sampling and other analytical methods

International Nuclear Information System (INIS)

Schauenburg, H.; Weigert, P.

1992-01-01

Using solid sampling with graphite furnace atomic absorption spectrometry (GFAAS), values for cadmium, copper, lead and zinc in six biological reference materials were obtained from up to four laboratories participating in three collaborative studies. These results are compared with those obtained with other methods used in routine analysis from laboratories of official food control. Under certain conditions solid sampling with GFAAS seems to be suitable for routine analysis as well as conventional methods. (orig.)

Dielectric relaxation in biological systems physical principles, methods, and applications

CERN Document Server

Feldman, Yuri

2015-01-01

This title covers the theoretical basis and practical aspects of the study of dielectric properties of biological systems, such as water, electrolyte and polyelectrolytes, solutions of biological macromolecules, cells suspensions and cellular systems.

Introducing Biological Microdosimetry for Ionising Radiation

International Nuclear Information System (INIS)

Scott, B.R.; Schoellnberger, H.

2000-01-01

Microdosimetry is important for radiation protection, for understanding mechanisms of radiation action, and for radiation risk assessment. This article introduces a generic, Monte Carlo based approach to biological microdosimetry for ionising radiation. Our Monte Carlo analyses are carried out with a widely used Crystal Ball software. The approach to biological microdosimetry presented relates to quantal biological effects data (e.g. cell survival, mutagenesis, neoplastic transformation) for which there is an initial linear segment to the dose-response curve. The macroscopic dose data considered were selected such that is could be presumed that the vast majority of cells at risk have radiation dose delivered to their critical target. For cell killing, neoplastic transformation, and mutagenesis, the critical biological target for radiation is presumed to be DNA. Our approach to biological microdosimetry does not require detailed information about the mass, volume, and shape of the critical biological target. Further, one does not have to know what formal distribution function applies to the microdose distribution. However, formal distributions are required for the biological data used to derive the non-parametric microdose distributions. Here, we use the binomial distribution to characterise the variability in the number of cells affected by a fixed macroscopic dose. Assuming this variability to arise from variability in the microscopic dose to the critical biological target, a non-parametric microdose distribution is generated by the standard Monte Carlo method. The non-parametric distribution is then fitted using a set of formal distributions (beta, exponential, extreme value, gamma, logistic, log-normal, normal, Pareto, triangular, uniform, and Weibull). The best fit is then evaluated based on statistical criteria (chi-square test). To demonstrate the application of biological microdosimetry, the standard Monte Carlo method is used with radiobiological data for

Introducing Biological Microdosimetry for Ionising Radiation

Energy Technology Data Exchange (ETDEWEB)

Scott, B.R.; Schoellnberger, H

2000-07-01

Microdosimetry is important for radiation protection, for understanding mechanisms of radiation action, and for radiation risk assessment. This article introduces a generic, Monte Carlo based approach to biological microdosimetry for ionising radiation. Our Monte Carlo analyses are carried out with a widely used Crystal Ball software. The approach to biological microdosimetry presented relates to quantal biological effects data (e.g. cell survival, mutagenesis, neoplastic transformation) for which there is an initial linear segment to the dose-response curve. The macroscopic dose data considered were selected such that is could be presumed that the vast majority of cells at risk have radiation dose delivered to their critical target. For cell killing, neoplastic transformation, and mutagenesis, the critical biological target for radiation is presumed to be DNA. Our approach to biological microdosimetry does not require detailed information about the mass, volume, and shape of the critical biological target. Further, one does not have to know what formal distribution function applies to the microdose distribution. However, formal distributions are required for the biological data used to derive the non-parametric microdose distributions. Here, we use the binomial distribution to characterise the variability in the number of cells affected by a fixed macroscopic dose. Assuming this variability to arise from variability in the microscopic dose to the critical biological target, a non-parametric microdose distribution is generated by the standard Monte Carlo method. The non-parametric distribution is then fitted using a set of formal distributions (beta, exponential, extreme value, gamma, logistic, log-normal, normal, Pareto, triangular, uniform, and Weibull). The best fit is then evaluated based on statistical criteria (chi-square test). To demonstrate the application of biological microdosimetry, the standard Monte Carlo method is used with radiobiological data for

A "weight of evidence" approach for the integration of environmental "triad" data to assess ecological risk and biological vulnerability.

Science.gov (United States)

Dagnino, Alessandro; Sforzini, Susanna; Dondero, Francesco; Fenoglio, Stefano; Bona, Elisa; Jensen, John; Viarengo, Aldo

2008-07-01

A new Expert Decision Support System (EDSS) that can integrate Triad data for assessing environmental risk and biological vulnerability at contaminated sites has been developed. Starting with ecosystem relevance, the EDSS assigns different weights to the results obtained from Triad disciplines. The following parameters have been employed: 1) chemical soil analyses (revealing the presence of potentially dangerous substances), 2) ecotoxicological bioassays (utilizing classical endpoints such as survival and reproduction rates), 3) biomarkers (showing sublethal pollutant effects), and 4) ecological parameters (assessing changes in community structure and functions). For each Triad discipline, the EDSS compares the data obtained at the studied field sites with reference values and calculates different 0-1 indexes (e.g., Chemical Risk Index, Ecotoxicological Risk Index, and Ecological Risk Index). The EDSS output consists of 3 indexes: 1) Environmental Risk index (EnvRI), quantifying the levels of biological damage at population-community level, 2) Biological Vulnerability Index (BVI), assessing the potential threats to biological equilibriums, and 3) Genotoxicity Index (GTI), screening genotoxicity effects. The EDSS has been applied in the integration of a battery of Triad data obtained during the European Union-funded Life Intervention in the Fraschetta Area (LINFA) project, which has been carried out in order to estimate the potential risk from soils of a highly anthropized area (Alessandria, Italy) mainly impacted by deposition of atmospheric pollutants. Results obtained during 4 seasonal sampling campaigns (2004-2005) show maximum values of EnvRI in sites A and B (characterized by industrial releases) and lower levels in site D (affected by vehicular traffic emissions). All 3 potentially polluted sites have shown high levels of BVI and GTI, suggesting a general change from reference conditions (site C).

Standard biological parts knowledgebase.

Directory of Open Access Journals (Sweden)

Michal Galdzicki

2011-02-01

Full Text Available We have created the Knowledgebase of Standard Biological Parts (SBPkb as a publically accessible Semantic Web resource for synthetic biology (sbolstandard.org. The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology. Its initial version includes all of the information about parts stored in the Registry of Standard Biological Parts (partsregistry.org. SBPkb transforms this information so that it is computable, using our semantic framework for synthetic biology parts. This framework, known as SBOL-semantic, was built as part of the Synthetic Biology Open Language (SBOL, a project of the Synthetic Biology Data Exchange Group. SBOL-semantic represents commonly used synthetic biology entities, and its purpose is to improve the distribution and exchange of descriptions of biological parts. In this paper, we describe the data, our methods for transformation to SBPkb, and finally, we demonstrate the value of our knowledgebase with a set of sample queries. We use RDF technology and SPARQL queries to retrieve candidate "promoter" parts that are known to be both negatively and positively regulated. This method provides new web based data access to perform searches for parts that are not currently possible.

Standard Biological Parts Knowledgebase

Science.gov (United States)

Galdzicki, Michal; Rodriguez, Cesar; Chandran, Deepak; Sauro, Herbert M.; Gennari, John H.

2011-01-01

We have created the Knowledgebase of Standard Biological Parts (SBPkb) as a publically accessible Semantic Web resource for synthetic biology (sbolstandard.org). The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology. Its initial version includes all of the information about parts stored in the Registry of Standard Biological Parts (partsregistry.org). SBPkb transforms this information so that it is computable, using our semantic framework for synthetic biology parts. This framework, known as SBOL-semantic, was built as part of the Synthetic Biology Open Language (SBOL), a project of the Synthetic Biology Data Exchange Group. SBOL-semantic represents commonly used synthetic biology entities, and its purpose is to improve the distribution and exchange of descriptions of biological parts. In this paper, we describe the data, our methods for transformation to SBPkb, and finally, we demonstrate the value of our knowledgebase with a set of sample queries. We use RDF technology and SPARQL queries to retrieve candidate “promoter” parts that are known to be both negatively and positively regulated. This method provides new web based data access to perform searches for parts that are not currently possible. PMID:21390321

Standard biological parts knowledgebase.

Science.gov (United States)

Galdzicki, Michal; Rodriguez, Cesar; Chandran, Deepak; Sauro, Herbert M; Gennari, John H

2011-02-24

We have created the Knowledgebase of Standard Biological Parts (SBPkb) as a publically accessible Semantic Web resource for synthetic biology (sbolstandard.org). The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology. Its initial version includes all of the information about parts stored in the Registry of Standard Biological Parts (partsregistry.org). SBPkb transforms this information so that it is computable, using our semantic framework for synthetic biology parts. This framework, known as SBOL-semantic, was built as part of the Synthetic Biology Open Language (SBOL), a project of the Synthetic Biology Data Exchange Group. SBOL-semantic represents commonly used synthetic biology entities, and its purpose is to improve the distribution and exchange of descriptions of biological parts. In this paper, we describe the data, our methods for transformation to SBPkb, and finally, we demonstrate the value of our knowledgebase with a set of sample queries. We use RDF technology and SPARQL queries to retrieve candidate "promoter" parts that are known to be both negatively and positively regulated. This method provides new web based data access to perform searches for parts that are not currently possible.

Methods of sperm vitality assessment.

Science.gov (United States)

Moskovtsev, Sergey I; Librach, Clifford L

2013-01-01

Sperm vitality is a reflection of the proportion of live, membrane-intact spermatozoa determined by either dye exclusion or osmoregulatory capacity under hypo-osmotic conditions. In this chapter we address the two most common methods of sperm vitality assessment: eosin-nigrosin staining and the hypo-osmotic swelling test, both utilized in clinical Andrology laboratories.

Human biological monitoring for exposure assessment in response to an incident involving hazardous materials.

Science.gov (United States)

Scheepers, Paul T J; van Brederode, Nelly E; Bos, Peter M J; Nijhuis, Nicole J; van de Weerdt, Rik H J; van der Woude, Irene; Eggens, Martin L

2014-12-15

Biological monitoring in humans (HBM) is widely used in the field of occupational and environmental health. In the situation of an unexpected release of hazardous materials HBM may contribute to the medical support and treatment of exposed individuals from the general population or of emergency responders. Such exposure information may also be used to respond to individual concerns such as questions about a possible relationship between the chemicals released during the incident and health effects. In The Netherlands a guideline was prepared to support early decision-making about the possible use of HBM for exposure assessment during or as soon as possible following a chemical incident. The application of HBM in such an emergency setting is not much different from situations where HBM is normally used but there are some issues that need extra attention such as the choice of the biomarker, the biological media to be sampled, the time point at which biological samples should be collected, the ethics approval and technical implementation of the study protocol and the interpretation and communication of the study results. These issues addressed in the new guideline will support the use of HBM in the management of chemical disasters. Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

Effects of Ionizing Radiation on Biological Molecules—Mechanisms of Damage and Emerging Methods of Detection

Science.gov (United States)

Reisz, Julie A.; Bansal, Nidhi; Qian, Jiang; Zhao, Weiling

2014-01-01

Abstract Significance: The detrimental effects of ionizing radiation (IR) involve a highly orchestrated series of events that are amplified by endogenous signaling and culminating in oxidative damage to DNA, lipids, proteins, and many metabolites. Despite the global impact of IR, the molecular mechanisms underlying tissue damage reveal that many biomolecules are chemoselectively modified by IR. Recent Advances: The development of high-throughput “omics” technologies for mapping DNA and protein modifications have revolutionized the study of IR effects on biological systems. Studies in cells, tissues, and biological fluids are used to identify molecular features or biomarkers of IR exposure and response and the molecular mechanisms that regulate their expression or synthesis. Critical Issues: In this review, chemical mechanisms are described for IR-induced modifications of biomolecules along with methods for their detection. Included with the detection methods are crucial experimental considerations and caveats for their use. Additional factors critical to the cellular response to radiation, including alterations in protein expression, metabolomics, and epigenetic factors, are also discussed. Future Directions: Throughout the review, the synergy of combined “omics” technologies such as genomics and epigenomics, proteomics, and metabolomics is highlighted. These are anticipated to lead to new hypotheses to understand IR effects on biological systems and improve IR-based therapies. Antioxid. Redox Signal. 21: 260–292. PMID:24382094

LNG Safety Assessment Evaluation Methods

Energy Technology Data Exchange (ETDEWEB)

Muna, Alice Baca [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); LaFleur, Angela Christine [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

2015-05-01

Sandia National Laboratories evaluated published safety assessment methods across a variety of industries including Liquefied Natural Gas (LNG), hydrogen, land and marine transportation, as well as the US Department of Defense (DOD). All the methods were evaluated for their potential applicability for use in the LNG railroad application. After reviewing the documents included in this report, as well as others not included because of repetition, the Department of Energy (DOE) Hydrogen Safety Plan Checklist is most suitable to be adapted to the LNG railroad application. This report was developed to survey industries related to rail transportation for methodologies and tools that can be used by the FRA to review and evaluate safety assessments submitted by the railroad industry as a part of their implementation plans for liquefied or compressed natural gas storage ( on-board or tender) and engine fueling delivery systems. The main sections of this report provide an overview of various methods found during this survey. In most cases, the reference document is quoted directly. The final section provides discussion and a recommendation for the most appropriate methodology that will allow efficient and consistent evaluations to be made. The DOE Hydrogen Safety Plan Checklist was then revised to adapt it as a methodology for the Federal Railroad Administration’s use in evaluating safety plans submitted by the railroad industry.

A biological tool to assess flow connectivity in reference temporary streams from the Mediterranean Basin.

Science.gov (United States)

Cid, N; Verkaik, I; García-Roger, E M; Rieradevall, M; Bonada, N; Sánchez-Montoya, M M; Gómez, R; Suárez, M L; Vidal-Abarca, M R; Demartini, D; Buffagni, A; Erba, S; Karaouzas, I; Skoulikidis, N; Prat, N

2016-01-01

Many streams in the Mediterranean Basin have temporary flow regimes. While timing for seasonal drought is predictable, they undergo strong inter-annual variability in flow intensity. This high hydrological variability and associated ecological responses challenge the ecological status assessment of temporary streams, particularly when setting reference conditions. This study examined the effects of flow connectivity in aquatic macroinvertebrates from seven reference temporary streams across the Mediterranean Basin where hydrological variability and flow conditions are well studied. We tested for the effect of flow cessation on two streamflow indices and on community composition, and, by performing random forest and classification tree analyses we identified important biological predictors for classifying the aquatic state either as flowing or disconnected pools. Flow cessation was critical for one of the streamflow indices studied and for community composition. Macroinvertebrate families found to be important for classifying the aquatic state were Hydrophilidae, Simuliidae, Hydropsychidae, Planorbiidae, Heptageniidae and Gerridae. For biological traits, trait categories associated to feeding habits, food, locomotion and substrate relation were the most important and provided more accurate predictions compared to taxonomy. A combination of selected metrics and associated thresholds based on the most important biological predictors (i.e. Bio-AS Tool) were proposed in order to assess the aquatic state in reference temporary streams, especially in the absence of hydrological data. Although further development is needed, the tool can be of particular interest for monitoring, restoration, and conservation purposes, representing an important step towards an adequate management of temporary rivers not only in the Mediterranean Basin but also in other regions vulnerable to the effects of climate change. Copyright © 2015 Elsevier B.V. All rights reserved.

Minimal Residual Disease Assessment in Lymphoma: Methods and Applications.

Science.gov (United States)

Herrera, Alex F; Armand, Philippe

2017-12-01

Standard methods for disease response assessment in patients with lymphoma, including positron emission tomography and computed tomography scans, are imperfect. In other hematologic malignancies, particularly leukemias, the ability to detect minimal residual disease (MRD) is increasingly influencing treatment paradigms. However, in many subtypes of lymphoma, the application of MRD assessment techniques, like flow cytometry or polymerase chain reaction-based methods, has been challenging because of the absence of readily detected circulating disease or canonic chromosomal translocations. Newer MRD detection methods that use next-generation sequencing have yielded promising results in a number of lymphoma subtypes, fueling the hope that MRD detection may soon be applicable in clinical practice for most patients with lymphoma. MRD assessment can provide real-time information about tumor burden and response to therapy, noninvasive genomic profiling, and monitoring of clonal dynamics, allowing for many possible applications that could significantly affect the care of patients with lymphoma. Further validation of MRD assessment methods, including the incorporation of MRD assessment into clinical trials in patients with lymphoma, will be critical to determine how best to deploy MRD testing in routine practice and whether MRD assessment can ultimately bring us closer to the goal of personalized lymphoma care. In this review article, we describe the methods available for detecting MRD in patients with lymphoma and their relative advantages and disadvantages. We discuss preliminary results supporting the potential applications for MRD testing in the care of patients with lymphoma and strategies for including MRD assessment in lymphoma clinical trials.

Suggestions on the Development of Safety Culture Assessment Method

International Nuclear Information System (INIS)

Choi, Young Sung; Choi, Kwang Sik; Kim, Woong Sik

2006-01-01

Several efforts have been made to assess safety culture of organization that operates nuclear power plants in Korea. The MOST and KINS played a major role to develop assessment methods and KHNP applied them to its NPPs. This paper explains the two methods developed by KINS briefly and presents the insights obtained from the two different applications. It concludes with some suggestions for safety culture assessment based on the insights

Record-keeping as an Alternative Method οf Assessment

Directory of Open Access Journals (Sweden)

Androniki Kouvdou

2010-02-01

Full Text Available The basic topic of this chapter is the description of an alternative method of assessment which supplements traditional objective techniques (i.e. testing, while counterbalancing their limitations. This alternative method, known as ‘record-keeping’, involves the systematic collection and recording of information about learner progress and aims at providing a more complete and valid formative assessment of their developmental abilities in specified areas. More particularly, this chapter presents a small-scale case study, which was carried out in the sixth grade of a primary school and lasted three months. The subjects of this case study were four twelve-year-old learners and its purpose was to investigate the potential of ‘record-keeping’ as an alternative method of assessing oracy skills in the foreign language. The data that derived from the case study reinforce the usefulness and validity of the particular method of assessment. The goals of the experimental assessment design, which entailed the recording and gradual development of learner oracy skills as well as the enhancement of motivation and awareness of their relevant sub-skills, were accomplished to a considerable degree. Additionally, the learners responded positively to the implemented assessment project, while being actively involved in it, which further substantiates its effectiveness. Alternative assessment, however, is a large area, whose full potential of implementation calls for further investigation.

[Methods and Applications of Psychological Stress State Assessment].

Science.gov (United States)

Li, Xin; Yang, Yadan; Hou, Yongjie; Chen, Zetao

2015-08-01

In this paper, the response of individual's physiological system under psychological stress state is discussed, and the theoretical support for psychological stress assessment research is provided. The two methods, i.e., the psychological stress assessment of questionnaire and physiological parameter assessment used for current psychological stress assessment are summarized. Then, the future trend of development of psychological stress assessment research is pointed out. We hope that this work could do and provide further support and help to psychological stress assessment studies.