WorldWideScience

Sample records for biological physics methods

  1. 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.

  2. EDITORIAL: Physical Biology

    Science.gov (United States)

    Roscoe, Jane

    2004-06-01

    Physical Biology is a new peer-reviewed publication from Institute of Physics Publishing. Launched in 2004, the journal will foster the integration of biology with the traditionally more quantitative fields of physics, chemistry, computer science and other math-based disciplines. Its primary aim is to further the understanding of biological systems at all levels of complexity, ranging from the role of structure and dynamics of a single molecule to cellular networks and organisms. The journal encourages the development of a new biology-driven physics based on the extraordinary and increasingly rich data arising in biology, and provides research directions for those involved in the creation of novel bio-engineered systems. Physical Biology will publish a stimulating combination of full length research articles, communications, perspectives, reviews and tutorials from a wide range of disciplines covering topics such as: Single-molecule studies and nanobiotechnology Molecular interactions and protein folding Charge transfer and photobiology Ion channels; structure, function and ion regulation Molecular motors and force generation Subcellular processes Biological networks and neural systems Modeling aspects of molecular and cell biology Cell-cell signaling and interaction Biological patterns and development Evolutionary processes Novel tools and methods in physical biology Experts in the areas encompassed by the journal's scope have been appointed to the Editorial Scientific Committee and the composition of the Committee will be updated regularly to reflect the developments in this new and exciting field. Physical Biology is free online to everyone in 2004; you are invited to take advantage of this offer by visiting the journal homepage at http://physbio.iop.org This special print edition of Physical Biology is a combination of issues 1 and 2 of this electronic-only journal and it brings together an impressive range of articles in the fields covered, including a popular

  3. Comparison on decolorization of palm oil mill effluent by biological, chemical and physical methods

    Directory of Open Access Journals (Sweden)

    Chantaphaso, S.

    2001-11-01

    Full Text Available Decolorization of palm oil mill effluent pretreated by enzyme from Aspergillus niger ATCC 6275 was investigated. The culture filtrate after separation of suspended solids was used for decolorization by biological, chemical and physical methods. Results indicated that the chemical method (using coagulant was more effective than the biological method (using commercial peroxidase, two strains of white-rot fungi Phanerochaete chrysosporium and Coriolus versicolor and physical method (using activated carbon, pararubber seed and sand filter. Studies on the effect of coagulant concentrations on decolorization revealed that using the combination of 10 ml/l polyferric sulphate and 10 g/l calcium oxide gave the highest color removal of 84.5% and organic matter (in term of chemical oxygen demand, COD removal of 86.5%.

  4. Radiation effects analysis in a group of interventional radiologists using biological and physical dosimetry methods

    Energy Technology Data Exchange (ETDEWEB)

    Ramos, M., E-mail: WEMLmirapas@iqn.upv.e [Department of Chemical and Nuclear Engineering, Polytechnic University of Valencia, Camino de Vera s/n, 46022 Valencia (Spain); Montoro, A.; Almonacid, M. [Radiation Protection Service, Hospital Universitario La Fe Valencia (Spain); Ferrer, S. [Department of Chemical and Nuclear Engineering, Polytechnic University of Valencia, Camino de Vera s/n, 46022 Valencia (Spain); Barquinero, J.F. [Biological Dosimetry Service, Unit of Anthropology, Department of Animal and Vegetable Biology and Ecology, Universitat Autonoma de Barcelona (UAB) (Spain); Tortosa, R. [Radiation Protection Service, Hospital Universitario La Fe Valencia (Spain); Verdu, G. [Department of Chemical and Nuclear Engineering, Polytechnic University of Valencia, Camino de Vera s/n, 46022 Valencia (Spain); Rodriguez, P. [Biological Dosimetry Service, Unit of Anthropology, Department of Animal and Vegetable Biology and Ecology, Universitat Autonoma de Barcelona (UAB) (Spain); Barrios, L.L. [Department of Physiology and Cellular Biology, Unit of Cellular Biology (UAB) (Spain); Villaescusa, J.I. [Radiation Protection Service, Hospital Universitario La Fe Valencia (Spain)

    2010-08-15

    Interventional radiologists and staff members are frequently exposed to protracted and fractionated low doses of ionizing radiation, which extend during all their professional activities. These exposures can derive, due to the effects of direct and scattered radiation, in deterministic effects (radiodermitis, aged skin, cataracts, telangiectasia in nasal region, vasocellular epitelioms, hands depilation) and/or stochastic ones (cancer incidence). A methodology has been proposed for estimating the radiation risk or detriment from a group of six exposed interventional radiologists of the Hospital Universitario La Fe (Valencia, Spain), which had developed general exposition symptoms attributable to deterministic effects of ionizing radiation. Equivalent doses have been periodically registered using TLD's and wrist dosimeters, H{sub p}(10) and H{sub p}(0.07), respectively, and estimated through the observation of translocations in lymphocytes of peripheral blood (biological methods), by extrapolating the yield of translocations to their respective dose-effect curves. The software RADRISK has been applied for estimating radiation risks in these occupational radiation exposures. This software is based on transport models from epidemiological studies of population exposed to external sources of ionizing radiation, such as Hiroshima and Nagasaki atomic bomb survivors [UNSCEAR, Sources and effects of ionizing radiation: 2006 report to the general assembly, with scientific annexes. New York: United Nations; 2006]. The minimum and maximum average excess ratio for skin cancer has been, using wrist physical doses, of [1.03x10{sup -3}, 5.06x10{sup -2}], concluding that there is not an increased risk of skin cancer incidence. The minimum and maximum average excess ratio for leukemia has been, using TLD physical doses, of [7.84x10{sup -2}, 3.36x10{sup -1}], and using biological doses, of [1.40x10{sup -1}, 1.51], which is considerably higher than incidence rates, showing an

  5. Biological scaling and physics

    Indian Academy of Sciences (India)

    A R P Rau

    2002-09-01

    Kleiber’s law in biology states that the specific metabolic rate (metabolic rate per unit mass) scales as -1/4 in terms of the mass of the organism. A long-standing puzzle is the (- 1/4) power in place of the usual expectation of (- 1/3) based on the surface to volume ratio in three-dimensions. While recent papers by physicists have focused exclusively on geometry in attempting to explain the puzzle, we consider here a specific law of physics that governs fluid flow to show how the (- 1/4) power arises under certain conditions. More generally, such a line of approach that identifies a specific physical law as involved and then examines the implications of a power law may illuminate better the role of physics in biology.

  6. Quantum physics meets biology.

    Science.gov (United States)

    Arndt, Markus; Juffmann, Thomas; Vedral, Vlatko

    2009-12-01

    Quantum physics and biology have long been regarded as unrelated disciplines, describing nature at the inanimate microlevel on the one hand and living species on the other hand. Over the past decades the life sciences have succeeded in providing ever more and refined explanations of macroscopic phenomena that were based on an improved understanding of molecular structures and mechanisms. Simultaneously, quantum physics, originally rooted in a world-view of quantum coherences, entanglement, and other nonclassical effects, has been heading toward systems of increasing complexity. The present perspective article shall serve as a "pedestrian guide" to the growing interconnections between the two fields. We recapitulate the generic and sometimes unintuitive characteristics of quantum physics and point to a number of applications in the life sciences. We discuss our criteria for a future "quantum biology," its current status, recent experimental progress, and also the restrictions that nature imposes on bold extrapolations of quantum theory to macroscopic phenomena.

  7. Biological scaling and physics.

    Science.gov (United States)

    Rau, A R P

    2002-09-01

    Kleiber's law in biology states that the specific metabolic rate (metabolic rate per unit mass) scales as M- 1/4 in terms of the mass M of the organism. A long-standing puzzle is the (- 1/4) power in place of the usual expectation of (- 1/3) based on the surface to volume ratio in three-dimensions. While recent papers by physicists have focused exclusively on geometry in attempting to explain the puzzle, we consider here a specific law of physics that governs fluid flow to show how the (- 1/4) power arises under certain conditions. More generally, such a line of approach that identifies a specific physical law as involved and then examines the implications of a power law may illuminate better the role of physics in biology.

  8. Biological physics--origin and perspectives.

    Science.gov (United States)

    Sackmann, Erich

    2002-03-12

    Biology and Physics share common ancestors. The two sciences have drifted apart during the last century, although they have often mutually fertilized each other. Often the discovery of a new physical method has triggered dramatic progresses in biology but there are also numerous examples of biology-inspired new developments in physics. In this special issue of ChemPhysChem, various facets and new developments of the interface between physics and biology are pointed out.

  9. TOPICAL REVIEW: Single-molecule experiments in biological physics: methods and applications

    Science.gov (United States)

    Ritort, F.

    2006-08-01

    I review single-molecule experiments (SMEs) in biological physics. Recent technological developments have provided the tools to design and build scientific instruments of high enough sensitivity and precision to manipulate and visualize individual molecules and measure microscopic forces. Using SMEs it is possible to manipulate molecules one at a time and measure distributions describing molecular properties, characterize the kinetics of biomolecular reactions and detect molecular intermediates. SMEs provide additional information about thermodynamics and kinetics of biomolecular processes. This complements information obtained in traditional bulk assays. In SMEs it is also possible to measure small energies and detect large Brownian deviations in biomolecular reactions, thereby offering new methods and systems to scrutinize the basic foundations of statistical mechanics. This review is written at a very introductory level, emphasizing the importance of SMEs to scientists interested in knowing the common playground of ideas and the interdisciplinary topics accessible by these techniques. The review discusses SMEs from an experimental perspective, first exposing the most common experimental methodologies and later presenting various molecular systems where such techniques have been applied. I briefly discuss experimental techniques such as atomic-force microscopy (AFM), laser optical tweezers (LOTs), magnetic tweezers (MTs), biomembrane force probes (BFPs) and single-molecule fluorescence (SMF). I then present several applications of SME to the study of nucleic acids (DNA, RNA and DNA condensation) and proteins (protein-protein interactions, protein folding and molecular motors). Finally, I discuss applications of SMEs to the study of the nonequilibrium thermodynamics of small systems and the experimental verification of fluctuation theorems. I conclude with a discussion of open questions and future perspectives.

  10. Assessment of occupational exposure and individual radiosensitivity in people exposed to radiation using methods of physical and biological dosimetry

    International Nuclear Information System (INIS)

    This paper examined people professionally in contact with sources of ionizing radiation.The incidence of chromosomal aberrations, the radionuclide content in the urine of the radiochemical method and calculation of internal doses based on the results of direct measurement of the concentration of incorporated radionuclides 137Cs and 241Am using human radiation spectrometer (HRS). According to the results of physical and biological dosimetry identified individual cumulative doses and the ratio defined cohort surveyed by radiosensitivity Key words: chromosomal aberrations, physical methods of dosimetry, radiation sensitivity, ionizing radiation, biodosimetry

  11. Catalogue of methods of calculation, interpolation, smoothing, and reduction for the physical, chemical, and biological parameters of deep hydrology (CATMETH) (NODC Accession 7700442)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The document presents the methods, formulas and citations used by the BNDO to process physical, chemical, and biological data for deep hydrology including...

  12. Basic radiotherapy physics and biology

    CERN Document Server

    Chang, David S; Das, Indra J; Mendonca, Marc S; Dynlacht, Joseph R

    2014-01-01

    This book is a concise and well-illustrated review of the physics and biology of radiation therapy intended for radiation oncology residents, radiation therapists, dosimetrists, and physicists. It presents topics that are included on the Radiation Therapy Physics and Biology examinations and is designed with the intent of presenting information in an easily digestible format with maximum retention in mind. The inclusion of mnemonics, rules of thumb, and reader-friendly illustrations throughout the book help to make difficult concepts easier to grasp. Basic Radiotherapy Physics and Biology is a

  13. Nuclear physics and biology

    International Nuclear Information System (INIS)

    This paper is about nuclear instrumentation and biological concepts, based on images from appropriate Β detectors. First, three detectors are described: the SOFI detector, for gene mapping, the SOFAS detector, for DNA sequencing and the RIHR detector, for in situ hybridization. Then, the paper presents quantitative imaging in molecular genetic and functional imaging. (TEC)

  14. How physics can inspire biology

    Science.gov (United States)

    Kornyshev, Alexei

    2009-07-01

    In July 1997 Adrian Parsegian, a biophysicist at the National Institutes of Health in the US and a former president of the Biophysical Society, published an article in Physics Today in which he outlined his thoughts about the main obstacles to a happy marriage between physics and biology. Parsegian started his article with a joke about a physicist talking to his biology-trained friend.

  15. From biologically-inspired physics to physics-inspired biology From biologically-inspired physics to physics-inspired biology

    Science.gov (United States)

    Kornyshev, Alexei A.

    2010-10-01

    D student at the Frumkin Institute in Moscow attending hot theoretical seminars chaired by Benjamin Levich (1917-1986, a pupil of Landau and the founding father of physical-chemical hydrodynamics), I particularly remember one of his many jokes he used to spice up his seminar. When some overly enthusiastic speaker was telling us with 100% confidence how the electron transfers between atomic moieties in a solvent near an electrode, and what the molecules exactly do to promote the transfer, he used to ask the speaker: 'How do you know it? Have you been there?' Today this is no longer a question or even a joke. We have plenty of experimental tools to 'get there'. The list of such techniques is too long to cover fully, I may just refer to FIONA (fluorescence imaging with nanometer accuracy) which allows us to trace the motion of myosin on actin or kinesin on microtubules and similar aspects of protein motility in vivo and in vitro (fluorescence methods were at the center of the Biological and Molecular Machine Program at Kavli ITP, Santa Barbara, where the founders of those techniques taught us what we can learn using them) or visualizing the positions of adsorbed counterions on DNA by synchrotron radiation. Therefore, the following dogmas can be given: Dogma 1: 'Seeing is believing'. Once, I asked an Assistant Professor from one of the top US universities, who was preaching such methods, had he tried to plot his data in some coordinates, where I would have expected his data to lie on a straight line. The answer was, 'Come on, what you speak about is 20th century science; it's no longer interesting!' I am afraid he was not unique in his generation, voting for what I would call 'MTV-science'. This science does make you dance, but on its own is not sufficient without a deep theoretical analysis of what you actually see. Otherwise, 'what you see is what you get' and not more. Dogma 2: 'A theory must contain not more than exponential functions, logarithms and alike. Otherwise the

  16. Graphical methods and Cold War scientific practice: the Stommel Diagram's intriguing journey from the physical to the biological environmental sciences.

    Science.gov (United States)

    Vance, Tiffany C; Doel, Ronald E

    2010-01-01

    In the last quarter of the twentieth century, an innovative three-dimensional graphical technique was introduced into biological oceanography and ecology, where it spread rapidly. Used to improve scientists' understanding of the importance of scale within oceanic ecosystems, this influential diagram addressed biological scales from phytoplankton to fish, physical scales from diurnal tides to ocean currents, and temporal scales from hours to ice ages. Yet the Stommel Diagram (named for physical oceanographer Henry Stommel, who created it in 1963) had not been devised to aid ecological investigations. Rather, Stommel intended it to help plan large-scale research programs in physical oceanography, particularly as Cold War research funding enabled a dramatic expansion of physical oceanography in the 1960s. Marine ecologists utilized the Stommel Diagram to enhance research on biological production in ocean environments, a key concern by the 1970s amid growing alarm about overfishing and ocean pollution. Before the end of the twentieth century, the diagram had become a significant tool within the discipline of ecology. Tracing the path that Stommel's graphical techniques traveled from the physical to the biological environmental sciences reveals a great deal about practices in these distinct research communities and their relative professional and institutional standings in the Cold War era. Crucial to appreciating the course of that path is an understanding of the divergent intellectual and social contexts of the physical versus the biological environmental sciences.

  17. AFM₁ in Milk: Physical, Biological, and Prophylactic Methods to Mitigate Contamination.

    Science.gov (United States)

    Giovati, Laura; Magliani, Walter; Ciociola, Tecla; Santinoli, Claudia; Conti, Stefania; Polonelli, Luciano

    2015-10-01

    Aflatoxins (AFs) are toxic, carcinogenic, immunosuppressive secondary metabolites produced by some Aspergillus species which colonize crops, including many dietary staple foods and feed components. AFB₁ is the prevalent and most toxic among AFs. In the liver, it is biotransformed into AFM₁, which is then excreted into the milk of lactating mammals, including dairy animals. AFM₁ has been shown to be cause of both acute and chronic toxicoses. The presence of AFM₁ in milk and dairy products represents a worldwide concern since even small amounts of this metabolite may be of importance as long-term exposure is concerned. Contamination of milk may be mitigated either directly, decreasing the AFM₁ content in contaminated milk, or indirectly, decreasing AFB₁ contamination in the feed of dairy animals. Current strategies for AFM₁ mitigation include good agricultural practices in pre-harvest and post-harvest management of feed crops (including storage) and physical or chemical decontamination of feed and milk. However, no single strategy offers a complete solution to the issue. PMID:26512694

  18. Bacterial exposure to metal-oxide nanoparticles: Methods, physical interactions, and biological effects

    Science.gov (United States)

    Horst, Allison Marie

    Nanotechnology is a major endeavor of this century, with proposed applications in fields ranging from agriculture to energy to medicine. Nanoscale titanium dioxide (nano-TiO2) is among the most widely produced nanoparticles worldwide, and already exists in consumer products including impermanent personal care products and surface coatings. Inevitably, nano-TiO2 will be transported into the environment via consumer or industrial waste, where its effects on organisms are largely unknown. Out of concern for the possible ill-effects of nanoparticles in the environment, there is now a field of study in nanotoxicology. Bacteria are ideal organisms for nanotoxicology research because they are environmentally important, respond rapidly to intoxication, and provide evidence for effects in higher organisms. My doctoral research focuses on the effects and interactions of nano-TiO2 in aqueous systems with planktonic bacteria. This dissertation describes four projects and the outcomes of the research: (1) A discovery, using a combination of environmental- and cryogenic-scanning electron microscopy and dynamic light scattering (DLS), that initially agglomerated nano-TiO2 is dispersed upon bacterial contact, as nanoparticles preferentially sorbed to cell surfaces. (2) Establishment of a method to disperse nanoparticles in an aqueous culture medium for nanotoxicology studies. A combination of electrostatic repulsion, steric hindrance and sonication yielded a high initial level of nano-TiO2 dispersion (i.e. E. coli growth and membrane processes. Together, this research is towards: better understanding outcomes of interactions between nanoparticles and bacteria, advancing methods in the relatively new field of nanotoxicology that are transferable to other nanoparticle and media chemistries, and improving our understanding of structure-activity relationships (e.g. size and doping effects) leading to intoxication in environmental organisms.

  19. Statistics in science the foundations of statistical methods in biology, physics and economics

    CERN Document Server

    Costantini, Domenico

    1990-01-01

    An inference may be defined as a passage of thought according to some method. In the theory of knowledge it is customary to distinguish deductive and non-deductive inferences. Deductive inferences are truth preserving, that is, the truth of the premises is preserved in the con­ clusion. As a result, the conclusion of a deductive inference is already 'contained' in the premises, although we may not know this fact until the inference is performed. Standard examples of deductive inferences are taken from logic and mathematics. Non-deductive inferences need not preserve truth, that is, 'thought may pass' from true premises to false conclusions. Such inferences can be expansive, or, ampliative in the sense that the performances of such inferences actually increases our putative knowledge. Standard non-deductive inferences do not really exist, but one may think of elementary inductive inferences in which conclusions regarding the future are drawn from knowledge of the past. Since the body of scientific knowledge i...

  20. Quantitative biology: where modern biology meets physical sciences.

    Science.gov (United States)

    Shekhar, Shashank; Zhu, Lian; Mazutis, Linas; Sgro, Allyson E; Fai, Thomas G; Podolski, Marija

    2014-11-01

    Quantitative methods and approaches have been playing an increasingly important role in cell biology in recent years. They involve making accurate measurements to test a predefined hypothesis in order to compare experimental data with predictions generated by theoretical models, an approach that has benefited physicists for decades. Building quantitative models in experimental biology not only has led to discoveries of counterintuitive phenomena but has also opened up novel research directions. To make the biological sciences more quantitative, we believe a two-pronged approach needs to be taken. First, graduate training needs to be revamped to ensure biology students are adequately trained in physical and mathematical sciences and vice versa. Second, students of both the biological and the physical sciences need to be provided adequate opportunities for hands-on engagement with the methods and approaches necessary to be able to work at the intersection of the biological and physical sciences. We present the annual Physiology Course organized at the Marine Biological Laboratory (Woods Hole, MA) as a case study for a hands-on training program that gives young scientists the opportunity not only to acquire the tools of quantitative biology but also to develop the necessary thought processes that will enable them to bridge the gap between these disciplines.

  1. Physical Properties of Biological Membranes

    CERN Document Server

    Heimburg, Thomas

    2009-01-01

    Biological membranes mainly consist of lipids and proteins. While the proteins have many functions as single molecules, the membrane as a whole displays physical properties that cannot be explained on the single molecule level. For example, membranes show melting events, phase behavior, and elasticity. Biomembranes adapt their composition such that the physical properties are maintained when the external conditions change. This gives a role to changes in composition, to temperature and pressure. This article introduces into the physics of membranes as a whole and shows how phenomena as permeability, pulse propagation and the effect of anesthetics arise.

  2. Stochastic Methods in Biology

    CERN Document Server

    Kallianpur, Gopinath; Hida, Takeyuki

    1987-01-01

    The use of probabilistic methods in the biological sciences has been so well established by now that mathematical biology is regarded by many as a distinct dis­ cipline with its own repertoire of techniques. The purpose of the Workshop on sto­ chastic methods in biology held at Nagoya University during the week of July 8-12, 1985, was to enable biologists and probabilists from Japan and the U. S. to discuss the latest developments in their respective fields and to exchange ideas on the ap­ plicability of the more recent developments in stochastic process theory to problems in biology. Eighteen papers were presented at the Workshop and have been grouped under the following headings: I. Population genetics (five papers) II. Measure valued diffusion processes related to population genetics (three papers) III. Neurophysiology (two papers) IV. Fluctuation in living cells (two papers) V. Mathematical methods related to other problems in biology, epidemiology, population dynamics, etc. (six papers) An important f...

  3. Biology-inspired AMO physics

    Science.gov (United States)

    Mathur, Deepak

    2015-01-01

    This Topical Review presents an overview of increasingly robust interconnects that are being established between atomic, molecular and optical (AMO) physics and the life sciences. AMO physics, outgrowing its historical role as a facilitator—a provider of optical methodologies, for instance—now seeks to partner biology in its quest to link systems-level descriptions of biological entities to insights based on molecular processes. Of course, perspectives differ when AMO physicists and biologists consider various processes. For instance, while AMO physicists link molecular properties and dynamics to potential energy surfaces, these have to give way to energy landscapes in considerations of protein dynamics. But there are similarities also: tunnelling and non-adiabatic transitions occur both in protein dynamics and in molecular dynamics. We bring to the fore some such differences and similarities; we consider imaging techniques based on AMO concepts, like 4D fluorescence microscopy which allows access to the dynamics of cellular processes, multiphoton microscopy which offers a built-in confocality, and microscopy with femtosecond laser beams to saturate the suppression of fluorescence in spatially controlled fashion so as to circumvent the diffraction limit. Beyond imaging, AMO physics contributes with optical traps that probe the mechanical and dynamical properties of single ‘live’ cells, highlighting differences between healthy and diseased cells. Trap methodologies have also begun to probe the dynamics governing of neural stem cells adhering to each other to form neurospheres and, with squeezed light to probe sub-diffusive motion of yeast cells. Strong field science contributes not only by providing a source of energetic electrons and γ-rays via laser-plasma accelerations schemes, but also via filamentation and supercontinuum generation, enabling mainstream collision physics into play in diverse processes like DNA damage induced by low-energy collisions to

  4. Physics and applications of microfluidics in biology.

    Science.gov (United States)

    Beebe, David J; Mensing, Glennys A; Walker, Glenn M

    2002-01-01

    Fluid flow at the microscale exhibits unique phenomena that can be leveraged to fabricate devices and components capable of performing functions useful for biological studies. The physics of importance to microfluidics are reviewed. Common methods of fabricating microfluidic devices and systems are described. Components, including valves, mixers, and pumps, capable of controlling fluid flow by utilizing the physics of the microscale are presented. Techniques for sensing flow characteristics are described and examples of devices and systems that perform bioanalysis are presented. The focus of this review is microscale phenomena and the use of the physics of the scale to create devices and systems that provide functionality useful to the life sciences.

  5. [Reduction of biology to fundamental physics].

    Science.gov (United States)

    Okhonin, V A

    2001-01-01

    It was shown that, while interpreting life as a physical phenomenon, fundamental physics allows for the following alternatives: relativity of animate and inanimate upon canonical transformations; the impossibility of the change from animate to inanimate state of isolated systems; the abandonment of attempts to reduce biology to the physics of isolated systems. The possibility of reducing biology to phenomenological physics was considered. A number of equations for the general phenomenological dynamics of density matrix was proposed.

  6. Bridging Physics and Biology Teaching through Modeling

    OpenAIRE

    Hoskinson, Anne-Marie; Couch, Brian A.; Zwickl, Benjamin M.; Hinko, Kathleen; Caballero, Marcos D.

    2013-01-01

    As the frontiers of biology become increasingly interdisciplinary, the physics education community has engaged in ongoing efforts to make physics classes more relevant to life sciences majors. These efforts are complicated by the many apparent differences between these fields, including the types of systems that each studies, the behavior of those systems, the kinds of measurements that each makes, and the role of mathematics in each field. Nonetheless, physics and biology are both sciences t...

  7. Biology is the new physics

    OpenAIRE

    Hunter, Philip

    2010-01-01

    The application of mathematics and computer science to biology is changing the nature of research. Philip Hunter explores the cross-fertilization of ideas between the disciplines and how it creates new job opportunities for biologists and mathematicians

  8. Intermediate physics for medicine and biology

    CERN Document Server

    Hobbie, Russell K

    2015-01-01

    This classic text has been used in over 20 countries by advanced undergraduate and beginning graduate students in biophysics, physiology, medical physics, neuroscience, and biomedical engineering. It bridges the gap between an introductory physics course and the application of physics to the life and biomedical sciences. Extensively revised and updated, the fifth edition incorporates new developments at the interface between physics and biomedicine. New coverage includes cyclotrons, photodynamic therapy, color vision, x-ray crystallography, the electron microscope, cochlear implants, deep brain stimulation, nanomedicine, and other topics highlighted in the National Research Council report BIO2010. As with the previous edition, the first half of the text is primarily biological physics, emphasizing the use of ideas from physics to understand biology and physiology, and the second half is primarily medical physics, describing the use of physics in medicine for diagnosis (mainly imaging) and therapy. Among the m...

  9. Biological physics and synchrotron radiation

    Energy Technology Data Exchange (ETDEWEB)

    Filhol, J.M.; Chavanne, J. [European Synchrotron Radiation Facility, 38 - Grenoble (France); Weckert, E. [Hasylab at Desy, Hamburg (Germany)] [and others

    2001-07-01

    This conference deals with the applications of synchrotron radiation to current problems in biology and medicine. Seven sessions take stock on the subject: sources and detectors; inelastic scattering and dynamics; muscle diffraction; reaction mechanisms; macromolecular assemblies; medical applications; imaging and spectroscopy. The document presents the papers abstracts. (A.L.B.)

  10. Biological physics and synchrotron radiation

    International Nuclear Information System (INIS)

    This conference deals with the applications of synchrotron radiation to current problems in biology and medicine. Seven sessions take stock on the subject: sources and detectors; inelastic scattering and dynamics; muscle diffraction; reaction mechanisms; macromolecular assemblies; medical applications; imaging and spectroscopy. The document presents the papers abstracts. (A.L.B.)

  11. Nuclear physics mathematical methods

    International Nuclear Information System (INIS)

    The nuclear physics mathematical methods, applied to the collective motion theory, to the reduction of the degrees of freedom and to the order and disorder phenomena; are investigated. In the scope of the study, the following aspects are discussed: the entropy of an ensemble of collective variables; the interpretation of the dissipation, applying the information theory; the chaos and the universality; the Monte-Carlo method applied to the classical statistical mechanics and quantum mechanics; the finite elements method, and the classical ergodicity

  12. Modelling biological complexity: a physical scientist's perspective

    OpenAIRE

    Coveney, Peter V.; Fowler, Philip W.

    2005-01-01

    We discuss the modern approaches of complexity and self-organization to understanding dynamical systems and how these concepts can inform current interest in systems biology. From the perspective of a physical scientist, it is especially interesting to examine how the differing weights given to philosophies of science in the physical and biological sciences impact the application of the study of complexity. We briefly describe how the dynamics of the heart and circadian rhythms, canonical exa...

  13. Physical Biology : challenges for our second decade

    Science.gov (United States)

    Levine, Herbert

    2014-06-01

    It is quite an honor to be asked to become the third editor-in-chief of Physical Biology . I am following in the footsteps of Tim Newman, who served with energy and enthusiasm. Hopefully, the entire community fully appreciates his contributions to moving the field forward. Thank you, Tim! With the honor, however, goes a clear responsibility. Our journal has survived its birth pangs and emerged as a serious venue for publishing quality research papers using physical science to address the workings of living matter. With the support of scientists in this field and with the ongoing commitment of the IOP, we have successfully reached adolescence. Yet, there is clearly much room to grow and there are clear challenges in defining and maintaining our special niche in the publishing landscape. In this still-developing state, the journal very much mimics the state of the field of physical biology itself. Few scientists continue to question the relevance of physical science for the investigation of the living world. But, will our new perspective and the methods that come with it really lead to radically new principles of how life works? Or, will breakthroughs continue to come from experimental biology (perhaps aided by the traditional physicist-as-tool-builder paradigm), leaving us to put quantitative touches on established fundamentals? In thinking about these questions for the field and for the journal, I have tried to understand what is really unique about our joint endeavors. I have become convinced that living matter represents a new challenge to our physical-science based conceptual framework. Not only is it far from equilibrium, as has been generally recognized, but it violates our simple notions of the separability of constituents, their interactions and the resulting large-scale behavior. Unlike, say, atomic physicists who can do productive research while safely ignoring the latest developments in QCD (let alone particle physics at higher energies), we do not yet

  14. Basic biology in health physics

    International Nuclear Information System (INIS)

    This report describes the consequences of the interaction of ionizing radiation with living cells and tissues. The basic processes of living cells, which are relevant to an understanding of health physics problems, are outlined with particular reference to cell-death, cancer induction and genetic effects. (author)

  15. Bridging Physics and Biology Teaching through Modeling

    CERN Document Server

    Hoskinson, Anne-Marie; Zwickl, Benjamin M; Hinko, Kathleen; Caballero, Marcos D

    2013-01-01

    As the frontiers of biology become increasingly interdisciplinary, the physics education community has engaged in ongoing efforts to make physics classes more relevant to life sciences majors. These efforts are complicated by the many apparent differences between these fields, including the types of systems that each studies, the behavior of those systems, the kinds of measurements that each makes, and the role of mathematics in each field. Nonetheless, physics and biology are both fundamental sciences that rely on observations and measurements to construct models of the natural world. In the present theoretical article, we propose that efforts to bridge the teaching of these two disciplines must emphasize shared scientific practices, particularly scientific modeling. We define modeling using language common to both disciplines and highlight how an understanding of the modeling process can help reconcile apparent differences between physics and biology. We elaborate how models can be used for explanatory, pre...

  16. Ontology of physics for biology: representing physical dependencies as a basis for biological processes

    Science.gov (United States)

    2013-01-01

    Background In prior work, we presented the Ontology of Physics for Biology (OPB) as a computational ontology for use in the annotation and representations of biophysical knowledge encoded in repositories of physics-based biosimulation models. We introduced OPB:Physical entity and OPB:Physical property classes that extend available spatiotemporal representations of physical entities and processes to explicitly represent the thermodynamics and dynamics of physiological processes. Our utilitarian, long-term aim is to develop computational tools for creating and querying formalized physiological knowledge for use by multiscale “physiome” projects such as the EU’s Virtual Physiological Human (VPH) and NIH’s Virtual Physiological Rat (VPR). Results Here we describe the OPB:Physical dependency taxonomy of classes that represent of the laws of classical physics that are the “rules” by which physical properties of physical entities change during occurrences of physical processes. For example, the fluid analog of Ohm’s law (as for electric currents) is used to describe how a blood flow rate depends on a blood pressure gradient. Hooke’s law (as in elastic deformations of springs) is used to describe how an increase in vascular volume increases blood pressure. We classify such dependencies according to the flow, transformation, and storage of thermodynamic energy that occurs during processes governed by the dependencies. Conclusions We have developed the OPB and annotation methods to represent the meaning—the biophysical semantics—of the mathematical statements of physiological analysis and the biophysical content of models and datasets. Here we describe and discuss our approach to an ontological representation of physical laws (as dependencies) and properties as encoded for the mathematical analysis of biophysical processes. PMID:24295137

  17. Ask not what physics can do for biology--ask what biology can do for physics.

    Science.gov (United States)

    Frauenfelder, Hans

    2014-01-01

    Stan Ulam, the famous mathematician, said once to Hans Frauenfelder: 'Ask not what Physics can do for biology, ask what biology can do for physics'. The interaction between biologists and physicists is a two-way street. Biology reveals the secrets of complex systems, physics provides the physical tools and the theoretical concepts to understand the complexity. The perspective gives a personal view of the path to some of the physical concepts that are relevant for biology and physics (Frauenfelder et al 1999 Rev. Mod. Phys. 71 S419-S442). Schrödinger's book (Schrödinger 1944 What is Life? (Cambridge: Cambridge University Press)), loved by physicists and hated by eminent biologists (Dronamraju 1999 Genetics 153 1071-6), still shows how a great physicist looked at biology well before the first protein structure was known. PMID:25292354

  18. Physical, Chemical, and Biological Methods and Data from the Urban Land-Use-Gradient Study, Des Plaines and Fox River Basins, Illinois, 1999-2001

    Science.gov (United States)

    Adolphson, Debbie L.; Arnold, Terri L.; Fitzpatrick, Faith A.; Harris, Mitchell A.; Richards, Kevin D.; Scudder, Barbara C.; Stewart, Jana S.

    2001-01-01

    Physical, chemical, and biological data were collected at 46 sites in the Fox and Des Plaines River Basins as part of the upper Illinois River Basin study of the U.S. Geological Survey?s National Water-Quality Assessment Program. The data, collected from 1999 to 2001, will be used to determine the effects of urbanization on streams in the Chicago, Illinois, metropolitan area. To examine the possible effects of urbanization on stream-water quality, the sampling sites were selected to represent a gradient of land use changing from agriculture into urban. Urban land use for the selected sites ranged from less than 1 percent urban to 92 percent urban. Data-collection methods are presented in the text portion of this report. Physical characteristics of the stream that were collected include descriptive and qualitative habitat and geomorphic measures. Water samples were analyzed for nutrients (nitrogen and phosphorus), 11 major ions, 46 wastewater indicators, pH, and specific conductance. Aquatic communities were sampled to identify and quantify populations of selected algae, benthic macroinvertebrates, and fish. There were 72 unique fish species collected at all of the sites. The number of benthic macroinvertebrate taxa collected at all the sites ranged from 15 to 48. The data and the associated data documentation are presented on a CD-ROM included with this report.

  19. Intermediate Physics for Medicine and Biology

    CERN Document Server

    Hobbie, Russell K

    2007-01-01

    Intended for advanced undergraduate and beginning graduate students in biophysics, physiology, medical physics, cell biology, and biomedical engineering, this wide-ranging text bridges the gap between introductory physics and its application to the life and biomedical sciences. This extensively revised and updated fourth edition reflects new developments at the burgeoning interface between physics and biomedicine. Among the many topics treated are: forces in the skeletal system; fluid flow, with examples from the circulatory system; the logistic equation; scaling; transport of neutral particles by diffusion and by solvent drag; membranes and osmosis; equipartition of energy in statistical mechanics; the chemical potential and free energy; biological magnetic fields; membranes and gated channels in membranes; linear and nonlinear feedback systems; nonlinear phenomena, including biological clocks and chaotic behavior; signal analysis, noise and stochastic resonance detection of weak signals; image formation and...

  20. Method for biological purification

    Science.gov (United States)

    Lucido, John A.; Keenan, Daniel; Premuzic, Eugene T.; Lin, Mow S.; Shelenkova, Ludmila

    2001-03-27

    An apparatus is disclosed for containing a microorganism culture in an active exponential growth and delivering a supply of microorganisms to an environment containing wastes for bio-augmenting the biodegradation of the wastes. The apparatus comprises a bioreactor and an operably connected controller. The bioreactor has a bioreactor chamber for containing a supply of microorganisms, a second chamber for containing a supply of water and inorganic nutrients, and a third chamber for containing a supply of organic nutrients. The bioreactor is operably connected to the controller in which a first pump is operably connected in fluid communication between the bioreactor chamber and the second chamber and third chamber, and a second pump is operably connected in fluid communication between the bioreactor chamber and the environment containing wastes to be biodegraded. The controller further includes a timer and regulator operably connected to the first and second pumps to effectively maintain the microorganisms in exponential growth in the bioreactor chamber and to deliver microorganisms to an environment to be treated. Also, disclosed is a method for bio-augmenting the biodegradation of wastes.

  1. Bridging physics and biology teaching through modeling

    Science.gov (United States)

    Hoskinson, Anne-Marie; Couch, Brian A.; Zwickl, Benjamin M.; Hinko, Kathleen A.; Caballero, Marcos D.

    2014-05-01

    As the frontiers of biology become increasingly interdisciplinary, the physics education community has engaged in ongoing efforts to make physics classes more relevant to life science majors. These efforts are complicated by the many apparent differences between these fields, including the types of systems that each studies, the behavior of those systems, the kinds of measurements that each makes, and the role of mathematics in each field. Nonetheless, physics and biology are both sciences that rely on observations and measurements to construct models of the natural world. In this article, we propose that efforts to bridge the teaching of these two disciplines must emphasize shared scientific practices, particularly scientific modeling. We define modeling using language common to both disciplines and highlight how an understanding of the modeling process can help reconcile apparent differences between the teaching of physics and biology. We elaborate on how models can be used for explanatory, predictive, and functional purposes and present common models from each discipline demonstrating key modeling principles. By framing interdisciplinary teaching in the context of modeling, we aim to bridge physics and biology teaching and to equip students with modeling competencies applicable in any scientific discipline.

  2. Biology is more theoretical than physics.

    Science.gov (United States)

    Gunawardena, Jeremy

    2013-06-01

    The word "theory" is used in at least two senses--to denote a body of widely accepted laws or principles, as in "Darwinian theory" or "quantum theory," and to suggest a speculative hypothesis, often relying on mathematical analysis, that has not been experimentally confirmed. It is often said that there is no place for the second kind of theory in biology and that biology is not theoretical but based on interpretation of data. Here, ideas from a previous essay are expanded upon to suggest, to the contrary, that the second kind of theory has always played a critical role and that biology, therefore, is a good deal more theoretical than physics.

  3. Physical biology of human brain development

    OpenAIRE

    Silvia eBudday; Paul eSteinmann; Ellen eKuhl

    2015-01-01

    Neurodevelopment is a complex, dynamic process that involves a precisely orchestrated sequence of genetic, environmental, biochemical, and physical events. Developmental biology and genetics have shaped our understanding of the molecular and cellular mechanisms during neurodevelopment. Recent studies suggest that physical forces play a central role in translating these cellular mechanisms into the complex surface morphology of the human brain. However, the precise impact of neuronal different...

  4. Strange Bedfellows; Physical and Biological Oceanographers

    Science.gov (United States)

    Wooster, W. S.

    2002-12-01

    When I started graduate study at Scripps in 1947, both the text, "The Oceans", and the curriculum - all students took the introductory courses in physics, chemistry, biology, and geology - conspired to create awareness of the interactions among these fields. In their preface, the authors spoke of the book as "an aid to the beginner and specialist alike in the coordination of the various fields of oceanography." Harald Sverdrup, perhaps the best known physical oceanographer of his day, introduced us to the interdisciplinary organization, ICES, wrote an important paper (1953) on "the vernal blooming of phytoplankton", and together with fishery biologist O.E.Sette, launched the world renowned CalCOFI program. Another noted physical oceanographer, Henry Stommel, 1949, teamed up with biologist Gordon Riley in a major study of the quantitative ecology of plankton. At the time, physical and biological oceanographers often seemed to be engaged in the same mission. The curriculum format, with its four basic courses, spread to most other graduate programs in oceanography, but the forces of specialization also spread. While the biological oceanographers have always seen the need to understand the milieu within which their creatures function, the physicists often seemed to chafe against wasting their time on squishy subjects like biology when there were so many more important and fascinating things to study. Interactions were further complicated by the confusion between "biological oceanography" and "marine biology", and by the status of "fishery biology" which was often disdained by oceanographers of all stripes. I propose to discuss the evolution of the relationship among these fields during the 60 years since "The Oceans" was first published, concluding with the present marriage of convenience, or at least amicable co-habitation, forced by the widespread concern over the threat of global warming and the need to understand its consequences. It has become clear that

  5. Biological dosimetry - Dose estimation method using biomakers

    International Nuclear Information System (INIS)

    The individual radiation dose estimation is an important step in the radiation risk assessment. In case of radiation incident or radiation accident, sometime, physical dosimetry method can not be used for calculating the individual radiation dose, the other complement method such as biological dosimetry is very necessary. This method is based on the quantitative specific biomarkers induced by ionizing radiation, such as dicentric chromosomes, translocations, micronuclei... in human peripheral blood lymphocytes. The basis of the biological dosimetry method is the close relationship between the biomarkers and absorbed dose or dose rate; the effects of in vitro and in vivo are similar, so it is able to generate the calibration dose-effect curve in vitro for in vivo assessment. Possibilities and perspectives for performing biological dosimetry method in radiation protection area are presented in this report. (author)

  6. Physical biology of human brain development

    Directory of Open Access Journals (Sweden)

    Silvia eBudday

    2015-07-01

    Full Text Available Neurodevelopment is a complex, dynamic process that involves a precisely orchestrated sequence of genetic, environmental, biochemical, and physical events. Developmental biology and genetics have shaped our understanding of the molecular and cellular mechanisms during neurodevelopment. Recent studies suggest that physical forces play a central role in translating these cellular mechanisms into the complex surface morphology of the human brain. However, the precise impact of neuronal differentiation, migration, and connection on the physical forces during cortical folding remains unknown. Here we review the cellular mechanisms of neurodevelopment with a view towards surface morphogenesis, pattern selection, and evolution of shape. We revisit cortical folding as the instability problem of constrained differential growth in a multi-layered system. To identify the contributing factors of differential growth, we map out the timeline of neurodevelopment in humans and highlight the cellular events associated with extreme radial and tangential expansion. We demonstrate how computational modeling of differential growth can bridge the scales-from phenomena on the cellular level towards form and function on the organ level-to make quantitative, personalized predictions. Physics-based models can quantify cortical stresses, identify critical folding conditions, rationalize pattern selection, and predict gyral wavelengths and gyrification indices. We illustrate that physical forces can explain cortical malformations as emergent properties of developmental disorders. Combining biology and physics holds promise to advance our understanding of human brain development and enable early diagnostics of cortical malformations with the ultimate goal to improve treatment of neurodevelopmental disorders including epilepsy, autism spectrum disorders, and schizophrenia.

  7. Pragmatic information in biology and physics.

    Science.gov (United States)

    Roederer, Juan G

    2016-03-13

    I will show how an objective definition of the concept of information and the consideration of recent results about information processing in the human brain help clarify some fundamental aspects of physics and biology. Rather than attempting to define information ab initio, I introduce the concept of interaction between material bodies as a primary concept. Two distinct categories can be identified: (i) interactions which can always be reduced to a superposition of physical interactions (forces) between elementary constituents; and (ii) interactions between complex bodies which cannot be expressed as a superposition of interactions between parts, and in which patterns and forms (in space and/or time) play the determining role. Pragmatic information is then defined as the link between a given pattern and the ensuing pattern-specific change. I will show that pragmatic information is a biological concept; it plays no active role in the purely physical domain-it only does so when a living organism intervenes. The consequences for physics (including foundations of quantum mechanics) and biology (including brain function) will be discussed. This will include speculations about three fundamental transitions, from the quantum to the classical domain, from natural inanimate to living systems, and from subhuman to human brain information-processing operations, introduced here in their direct connection with the concept of pragmatic information.

  8. Pragmatic information in biology and physics.

    Science.gov (United States)

    Roederer, Juan G

    2016-03-13

    I will show how an objective definition of the concept of information and the consideration of recent results about information processing in the human brain help clarify some fundamental aspects of physics and biology. Rather than attempting to define information ab initio, I introduce the concept of interaction between material bodies as a primary concept. Two distinct categories can be identified: (i) interactions which can always be reduced to a superposition of physical interactions (forces) between elementary constituents; and (ii) interactions between complex bodies which cannot be expressed as a superposition of interactions between parts, and in which patterns and forms (in space and/or time) play the determining role. Pragmatic information is then defined as the link between a given pattern and the ensuing pattern-specific change. I will show that pragmatic information is a biological concept; it plays no active role in the purely physical domain-it only does so when a living organism intervenes. The consequences for physics (including foundations of quantum mechanics) and biology (including brain function) will be discussed. This will include speculations about three fundamental transitions, from the quantum to the classical domain, from natural inanimate to living systems, and from subhuman to human brain information-processing operations, introduced here in their direct connection with the concept of pragmatic information. PMID:26857662

  9. BOOK REVIEW Handbook of Physics in Medicine and Biology Handbook of Physics in Medicine and Biology

    Science.gov (United States)

    Tabakov, Slavik

    2010-11-01

    ; artificial muscle; cardiovascular system; control of cardiac output and arterial blood pressure regulation; fluid dynamics of the cardiovascular system; fluid dynamics; modeling and simulation of the cardiovascular system to determine work using bond graphs; anatomy and physics of respiration. The diagrams and data in this section could be used as reference material, but some chapters (such as that on the cardiovascular system) again take the form of physiological explanations. The best chapters in this section are on fluid dynamics and modeling. The fourth section (about 30 pages) includes two chapters on electrodes and recording of bioelectrical signals: theory and practice. Both chapters deal with electrodes and are well written and illustrated reference materials. This section could have been larger but the equipment associated with bioelectrical signals (such as ECG and EEG) is described in the next section. The fifth section (about 210 pages) includes 19 chapters on medical sensing and imaging; electrocardiogram: electrical information retrieval and diagnostics from the beating heart; electroencephalography: basic concepts and brain applications; bioelectric impedance analysis; x-ray and computed tomography; confocal microscopy; magnetic resonance imaging; positron emission tomography; in vivo fluorescence imaging and spectroscopy; optical coherence tomography; ultrasonic imaging; near-field imaging; atomic force microscopy; scanning ion conductance microscopy; quantitative thermographic imaging; intracoronary thermography; schlieren imaging: optical techniques to visualize thermal interactions with biological tissues; helium ion microscopy; electron microscopy: SEM/TEM. This is by far the largest section covering various methods and medical equipment and the variation in emphasis/quality is more prominent. The chapters on ECG and EEG are again more physiological with less physics, but the chapter on bioelectric impedance analysis is a good interdisciplinary article

  10. Physical Properties of Biological Entities: An Introduction to the Ontology of Physics for Biology

    OpenAIRE

    Cook, Daniel L.; Bookstein, Fred L.; John H Gennari

    2011-01-01

    As biomedical investigators strive to integrate data and analyses across spatiotemporal scales and biomedical domains, they have recognized the benefits of formalizing languages and terminologies via computational ontologies. Although ontologies for biological entities—molecules, cells, organs—are well-established, there are no principled ontologies of physical properties—energies, volumes, flow rates—of those entities. In this paper, we introduce the Ontology of Physics for Biology (OPB), a ...

  11. Physics and Biology Collaborate to Color the World

    OpenAIRE

    Liu, Dennis W. C.

    2013-01-01

    To understand how life works, it is essential to understand physics and chemistry. Physics informs and enlightens biology in myriad dimensions, yet many biology courses proceed with little or no consideration of physical properties or principles. The intersection between physics and biology is explored in this review of online media.

  12. Bridging Physics and Biology Using Resistance and Axons

    Science.gov (United States)

    Dyer, Joshua M.

    2014-01-01

    When teaching physics, it is often difficult to get biology-oriented students to see the relevance of physics. A complaint often heard is that biology students are required to take physics for the Medical College Admission Test (MCAT) as part of a "weeding out" process, but that they don't feel like they need physics for biology.…

  13. Methods of experimental physics

    CERN Document Server

    Pergament, M I

    2014-01-01

    IntroductionIndirect Data and Inverse ProblemsExperiment and Stochasticity of the Physical WorldGeneral Properties of Measuring-Recording SystemsLinear Measuring-Recording SystemsTransfer Function and Convolution EquationTransfer Ratio, Amplitude-Frequency and Phase-Frequency Characteristics, and Relation Between Input and Output Signals in Fourier SpaceSome ConsequencesDiscretizationCommunication Theory ApproachDetermination of the Measuring-Recording System ParametersStudying Pulse Processes<

  14. Robustness: confronting lessons from physics and biology.

    Science.gov (United States)

    Lesne, Annick

    2008-11-01

    The term robustness is encountered in very different scientific fields, from engineering and control theory to dynamical systems to biology. The main question addressed herein is whether the notion of robustness and its correlates (stability, resilience, self-organisation) developed in physics are relevant to biology, or whether specific extensions and novel frameworks are required to account for the robustness properties of living systems. To clarify this issue, the different meanings covered by this unique term are discussed; it is argued that they crucially depend on the kind of perturbations that a robust system should by definition withstand. Possible mechanisms underlying robust behaviours are examined, either encountered in all natural systems (symmetries, conservation laws, dynamic stability) or specific to biological systems (feedbacks and regulatory networks). Special attention is devoted to the (sometimes counterintuitive) interrelations between robustness and noise. A distinction between dynamic selection and natural selection in the establishment of a robust behaviour is underlined. It is finally argued that nested notions of robustness, relevant to different time scales and different levels of organisation, allow one to reconcile the seemingly contradictory requirements for robustness and adaptability in living systems. PMID:18823391

  15. The common extremalities in biology and physics maximum energy dissipation principle in chemistry, biology, physics and evolution

    CERN Document Server

    Moroz, Adam

    2011-01-01

    This book is the first unified systemic description of dissipative phenomena, taking place in biology, and non-dissipative (conservative) phenomena, which is more relevant to physics. Fully updated and revised, this new edition extends our understanding of nonlinear phenomena in biology and physics from the extreme / optimal perspective. The first book to provide understanding of physical phenomena from a biological perspective and biological phenomena from a physical perspectiveDiscusses emerging fields and analysisProvides examples

  16. Physics and Biology Collaborate to Color the World

    Science.gov (United States)

    Liu, Dennis W. C.

    2013-01-01

    To understand how life works, it is essential to understand physics and chemistry. Most biologists have a clear notion of where chemistry fits into their life sciences research and teaching. Although we are physical beings, physics does not always find a place in the biology curriculum. Physics informs and enlightens biology in myriad dimensions,…

  17. Radiation physics, biophysics, and radiation biology

    Energy Technology Data Exchange (ETDEWEB)

    Hall, E.J.; Zaider, M.

    1993-05-01

    Research at the Center for Radiological Research is a multidisciplenary blend of physics, chemistry and biology aimed at understanding the mechanisms involved in the health problems resulting from human exposure to ionizing radiations. The focus is increased on biochemistry and the application of the techniques of molecular biology to the problems of radiation biology. Research highlights of the program from the past year are described. A mathematical model describing the production of single-strand and double-strand breaks in DNA as a function radiation quality has been completed. For the first time Monte Carlo techniques have been used to obtain directly the spatial distribution of DNA moieties altered by radiation. This information was obtained by including the transport codes a realistic description of the electronic structure of DNA. We have investigated structure activity relationships for the potential oncogenicity of a new generation of bioreductive drugs that function as hypoxic cytotoxins. Experimental and theoretical investigation of the inverse dose rate effect, whereby medium LET radiations actually produce an c effect when the dose is protracted, is now at a point where the basic mechanisms are reasonably understood and the complex interplay between dose, dose rate and radiation quality which is necessary for the effect to be present can now be predicted at least in vitro. In terms of early radiobiological damage, a quantitative link has been established between basic energy deposition and locally multiply damaged sites, the radiochemical precursor of DNA double strand breaks; specifically, the spatial and energy deposition requirements necessary to form LMDs have been evaluated. For the first time, a mechanically understood biological fingerprint'' of high-LET radiation has been established. Specifically measurement of the ratio of inter-to intra-chromosomal aberrations produces a unique signature from alpha-particles or neutrons.

  18. Radiation physics, biophysics, and radiation biology

    International Nuclear Information System (INIS)

    Research at the Center for Radiological Research is a multidisciplenary blend of physics, chemistry and biology aimed at understanding the mechanisms involved in the health problems resulting from human exposure to ionizing radiations. The focus is increased on biochemistry and the application of the techniques of molecular biology to the problems of radiation biology. Research highlights of the program from the past year are described. A mathematical model describing the production of single-strand and double-strand breaks in DNA as a function radiation quality has been completed. For the first time Monte Carlo techniques have been used to obtain directly the spatial distribution of DNA moieties altered by radiation. This information was obtained by including the transport codes a realistic description of the electronic structure of DNA. We have investigated structure activity relationships for the potential oncogenicity of a new generation of bioreductive drugs that function as hypoxic cytotoxins. Experimental and theoretical investigation of the inverse dose rate effect, whereby medium LET radiations actually produce an c effect when the dose is protracted, is now at a point where the basic mechanisms are reasonably understood and the complex interplay between dose, dose rate and radiation quality which is necessary for the effect to be present can now be predicted at least in vitro. In terms of early radiobiological damage, a quantitative link has been established between basic energy deposition and locally multiply damaged sites, the radiochemical precursor of DNA double strand breaks; specifically, the spatial and energy deposition requirements necessary to form LMDs have been evaluated. For the first time, a mechanically understood ''biological fingerprint'' of high-LET radiation has been established. Specifically measurement of the ratio of inter-to intra-chromosomal aberrations produces a unique signature from alpha-particles or neutrons

  19. Radiation physics, biophysics, and radiation biology

    International Nuclear Information System (INIS)

    Research at the Radiological Research Laboratory is a blend of physics, chemistry, and biology, involving research at the basic level with the admixture of a small proportion of pragmatic or applied research in support of radiation protection and/or radiotherapy. Current research topics include: oncogenic transformation assays, mutation studies involving interactions between radiation and environmental contaminants, isolation, characterization and sequencing of a human repair gene, characterization of a dominant transforming gene found in C3H 10T1/2 cells, characterize ab initio the interaction of DNA and radiation, refine estimates of the radiation quality factor Q, a new mechanistic model of oncogenesis showing the role of long-term low dose medium LET radiation, and time dependent modeling of radiation induced chromosome damage and subsequent repair or misrepair

  20. Biological Physics : Poincaré seminar

    CERN Document Server

    Bio-physique : séminaire Poincaré

    2011-01-01

    This new volume in the Poincaré Seminar Series, describing recent developments at the interface between physics and biology, is directed towards a broad audience of physicists, biologists, and mathematicians. Both the theoretical and experimental aspects are covered, and particular care is devoted to the pedagogical nature of the presentations. The first survey article, by Jean-Francois Joanny and Jacques Prost, describes the theoretical advances made in the study of "active gels", with applications to liquid crystals and cell motility. Jasper van der Gucht and Cécile Sykes then report on recent advances made with biomimetic model systems in the understanding of cytokinesis. The next article, by Jonathon Howard, presents several molecular models for motor proteins, which are compared with experimental results for kinesin. David Lacoste and Kirone Mallick then show theoretically that similar ratchet models of motor proteins naturally satisfy a fundamental time-reversal symmetry, the Gallavotti-Cohen fluctuat...

  1. Method for detecting biological toxins

    Energy Technology Data Exchange (ETDEWEB)

    Ligler, F.S.; Campbell, J.R.

    1992-01-01

    Biological toxins are indirectly detected by using polymerase chain reaction to amplify unique nucleic acid sequences coding for the toxins or enzymes unique to toxin synthesis. Buffer, primers coding for the unique nucleic acid sequences and an amplifying enzyme are added to a sample suspected of containing the toxin. The mixture is then cycled thermally to exponentially amplify any of these unique nucleic acid sequences present in the sample. The amplified sequences can be detected by various means, including fluorescence. Detection of the amplified sequences is indicative of the presence of toxin in the original sample. By using more than one set of labeled primers, the method can be used to simultaneously detect several toxins in a sample.

  2. The universal numbers. From Biology to Physics.

    Science.gov (United States)

    Marchal, Bruno

    2015-12-01

    I will explain how the mathematicians have discovered the universal numbers, or abstract computer, and I will explain some abstract biology, mainly self-reproduction and embryogenesis. Then I will explain how and why, and in which sense, some of those numbers can dream and why their dreams can glue together and must, when we assume computationalism in cognitive science, generate a phenomenological physics, as part of a larger phenomenological theology (in the sense of the greek theologians). The title should have been "From Biology to Physics, through the Phenomenological Theology of the Universal Numbers", if that was not too long for a title. The theology will consist mainly, like in some (neo)platonist greek-indian-chinese tradition, in the truth about numbers' relative relations, with each others, and with themselves. The main difference between Aristotle and Plato is that Aristotle (especially in its common and modern christian interpretation) makes reality WYSIWYG (What you see is what you get: reality is what we observe, measure, i.e. the natural material physical science) where for Plato and the (rational) mystics, what we see might be only the shadow or the border of something else, which might be non physical (mathematical, arithmetical, theological, …). Since Gödel, we know that Truth, even just the Arithmetical Truth, is vastly bigger than what the machine can rationally justify. Yet, with Church's thesis, and the mechanizability of the diagonalizations involved, machines can apprehend this and can justify their limitations, and get some sense of what might be true beyond what they can prove or justify rationally. Indeed, the incompleteness phenomenon introduces a gap between what is provable by some machine and what is true about that machine, and, as Gödel saw already in 1931, the existence of that gap is accessible to the machine itself, once it is has enough provability abilities. Incompleteness separates truth and provable, and machines can

  3. The universal numbers. From Biology to Physics.

    Science.gov (United States)

    Marchal, Bruno

    2015-12-01

    I will explain how the mathematicians have discovered the universal numbers, or abstract computer, and I will explain some abstract biology, mainly self-reproduction and embryogenesis. Then I will explain how and why, and in which sense, some of those numbers can dream and why their dreams can glue together and must, when we assume computationalism in cognitive science, generate a phenomenological physics, as part of a larger phenomenological theology (in the sense of the greek theologians). The title should have been "From Biology to Physics, through the Phenomenological Theology of the Universal Numbers", if that was not too long for a title. The theology will consist mainly, like in some (neo)platonist greek-indian-chinese tradition, in the truth about numbers' relative relations, with each others, and with themselves. The main difference between Aristotle and Plato is that Aristotle (especially in its common and modern christian interpretation) makes reality WYSIWYG (What you see is what you get: reality is what we observe, measure, i.e. the natural material physical science) where for Plato and the (rational) mystics, what we see might be only the shadow or the border of something else, which might be non physical (mathematical, arithmetical, theological, …). Since Gödel, we know that Truth, even just the Arithmetical Truth, is vastly bigger than what the machine can rationally justify. Yet, with Church's thesis, and the mechanizability of the diagonalizations involved, machines can apprehend this and can justify their limitations, and get some sense of what might be true beyond what they can prove or justify rationally. Indeed, the incompleteness phenomenon introduces a gap between what is provable by some machine and what is true about that machine, and, as Gödel saw already in 1931, the existence of that gap is accessible to the machine itself, once it is has enough provability abilities. Incompleteness separates truth and provable, and machines can

  4. Computational Methods in Plasma Physics

    CERN Document Server

    Jardin, Stephen

    2010-01-01

    Assuming no prior knowledge of plasma physics or numerical methods, Computational Methods in Plasma Physics covers the computational mathematics and techniques needed to simulate magnetically confined plasmas in modern magnetic fusion experiments and future magnetic fusion reactors. Largely self-contained, the text presents the basic concepts necessary for the numerical solution of partial differential equations. Along with discussing numerical stability and accuracy, the author explores many of the algorithms used today in enough depth so that readers can analyze their stability, efficiency,

  5. Radiation physics, biophysics, and radiation biology

    International Nuclear Information System (INIS)

    An important event of the year was the designation of our Laboratory as a Center for Radiological Research by the Dean of the Faculty of Medicine and Vice-President for Health Sciences. Center status acknowledges the size and importance of the research efforts in this area, and allows a greater measure of independence in administrative matters. While the name has changed from a Laboratory to a Center within the Medical School, the mission and charge remain the same. The efforts of the Center are a multidisciplinary mix of physics, chemistry, and biology, mostly at a basic level, with the admixture of a small proportion of pragmatic or applied research in support of radiation protection or radiation therapy. About a quarter of our funding, mostly individual research awards, could be regarded as in direct support of radiotherapy, with the remainder (an NCI program project grant and DOE grants) being in support of research addressing more basic issues. An important effort currently underway concerns ab-initio calculations of the dielectric response function of condensed water. This investigation has received the coveted designation, ''Grand Challenge Project,'' awarded by DOE to research work which represents ''distinct advance on a major scientific or engineering problem that is broadly recognized as important within the mission of the Department.''

  6. Comparison in the determination of absorbed dose by biological and physical methods to patients in treatment of cardiac intervention; Comparacion en la determinacion de dosis absorbida por metodos biologicos y fisicos a pacientes en tratamiento de intervencionismo cardiaco

    Energy Technology Data Exchange (ETDEWEB)

    Guerrero C, C.; Arceo M, C., E-mail: citlali.guerrero@inin.gob.mx [ININ, Departamento de Biologia, Carretera Mexico-Toluca s/n, 52750 Ocoyoacac, Estado de Mexico (Mexico)

    2014-10-15

    The use of less invasive procedures, lower risk and quick recovery as cardiac intervention have proven to be an efficient alternative to reestablish the correct bloodstream of the patient. In this case the patient is subjected to values of absorbed dose above to which is subjected in a study with X-rays for medical diagnosis, and this can cause radiation injuries to the skin. The target organ, in this case can be exposed to doses of 2 Gy above. Different methods to estimate the dose were use, physical by Radiochromic film, as biological by dicentric analysis. Both methods provided additional information demonstrating thus the risk in the target organ and the patient. The most reliable biological indicator of exposure to ionizing radiation is the study of chromosomal aberrations, specifically dicentric in human lymphocytes. This test allowed establishing the exposure dose depending of the damage. (Author)

  7. Statistical methods for physical science

    CERN Document Server

    Stanford, John L

    1994-01-01

    This volume of Methods of Experimental Physics provides an extensive introduction to probability and statistics in many areas of the physical sciences, with an emphasis on the emerging area of spatial statistics. The scope of topics covered is wide-ranging-the text discusses a variety of the most commonly used classical methods and addresses newer methods that are applicable or potentially important. The chapter authors motivate readers with their insightful discussions, augmenting their material withKey Features* Examines basic probability, including coverage of standard distributions, time s

  8. Qualitative methods in theoretical physics

    CERN Document Server

    Maslov, Dmitrii

    2016-01-01

    This book comprises a set of tools which allow researchers and students to arrive at a qualitatively correct answer without undertaking lengthy calculations. In general, Qualitative Methods in Theoretical Physics is about combining approximate mathematical methods with fundamental principles of physics: conservation laws and symmetries. Readers will learn how to simplify problems, how to estimate results, and how to apply symmetry arguments and conduct dimensional analysis. A comprehensive problem set is included. The book will appeal to a wide range of students and researchers.

  9. The Physics of Proteins An Introduction to Biological Physics and Molecular Biophysics

    CERN Document Server

    Frauenfelder, Hans; Chan, Winnie S

    2010-01-01

    Physics and the life sciences have established new connections within the past few decades, resulting in biological physics as an established subfield with strong groups working in many physics departments. These interactions between physics and biology form a two-way street with physics providing new tools and concepts for understanding life, while biological systems can yield new insights into the physics of complex systems. To address the challenges of this interdisciplinary area, The Physics of Proteins: An Introduction to Biological Physics and Molecular Biophysics is divided into three interconnected sections. In Parts I and II, early chapters introduce the terminology and describe the main biological systems that physicists will encounter. Similarities between biomolecules, glasses, and solids are stressed with an emphasis on the fundamental concepts of living systems. The central section (Parts III and IV) delves into the dynamics of complex systems. A main theme is the realization that biological sys...

  10. Complex network problems in physics, computer science and biology

    Science.gov (United States)

    Cojocaru, Radu Ionut

    There is a close relation between physics and mathematics and the exchange of ideas between these two sciences are well established. However until few years ago there was no such a close relation between physics and computer science. Even more, only recently biologists started to use methods and tools from statistical physics in order to study the behavior of complex system. In this thesis we concentrate on applying and analyzing several methods borrowed from computer science to biology and also we use methods from statistical physics in solving hard problems from computer science. In recent years physicists have been interested in studying the behavior of complex networks. Physics is an experimental science in which theoretical predictions are compared to experiments. In this definition, the term prediction plays a very important role: although the system is complex, it is still possible to get predictions for its behavior, but these predictions are of a probabilistic nature. Spin glasses, lattice gases or the Potts model are a few examples of complex systems in physics. Spin glasses and many frustrated antiferromagnets map exactly to computer science problems in the NP-hard class defined in Chapter 1. In Chapter 1 we discuss a common result from artificial intelligence (AI) which shows that there are some problems which are NP-complete, with the implication that these problems are difficult to solve. We introduce a few well known hard problems from computer science (Satisfiability, Coloring, Vertex Cover together with Maximum Independent Set and Number Partitioning) and then discuss their mapping to problems from physics. In Chapter 2 we provide a short review of combinatorial optimization algorithms and their applications to ground state problems in disordered systems. We discuss the cavity method initially developed for studying the Sherrington-Kirkpatrick model of spin glasses. We extend this model to the study of a specific case of spin glass on the Bethe

  11. Physical factors influence for biologic systems

    Science.gov (United States)

    Piruzyan, L. A.

    2005-08-01

    Physical methods are widely spread in diagnostics and therapy of different pathologies, especially in oncology. The application of lasers occurred to be the perspective approach for combined methods application in medicine. Our work is devoted to investigation of thermal effect of focused laser beam in the model of Garding-Passi melanoma and also to the study of free radicals activity after the radiation with non-focused laser beam. The histologic alterations correlated with theoretical calculations of temperature distribution in irradiated tissue for energies 30-60 J attracted our interest. The values of maximal temperatures in depths of tissue for energies 30-60 J were carried out. In the model of permanent magnetic field (PMF) effect for mice ascites sarcoma 37 we have showed the linear dependence of tumor growth inhibition from the period of PMF treatment. Simultaneously we investigated PMF influence for free radical"s (FR) concentrations in mice organs and tissues and potentially appearing questions of PMF effect for biopotential in connection with FR formation. We have also studied the alterations of K, Na and Ca ions concentrations in ascetic fluids after animal"s PMF treatment. We revealed some reasons of biopotential generation and concluded that biopotential is not the result of specific ions gradient only but its generation can be followed by free radicals states appearance and occurrence of semi-conductivity in biostructures.

  12. From Gene to Protein: A 3-Week Intensive Course in Molecular Biology for Physical Scientists

    Science.gov (United States)

    Nadeau, Jay L.

    2009-01-01

    This article describes a 3-week intensive molecular biology methods course based upon fluorescent proteins, which is successfully taught at the McGill University to advanced undergraduates and graduates in physics, chemical engineering, biomedical engineering, and medicine. No previous knowledge of biological terminology or methods is expected, so…

  13. Normal mode analysis and applications in biological physics

    Energy Technology Data Exchange (ETDEWEB)

    Dykeman, Eric C; Sankey, Otto F [Department of Physics, Center for Biological Physics, Arizona State University, Tempe, AZ 85287-1504 (United States)

    2010-10-27

    Normal mode analysis has become a popular and often used theoretical tool in the study of functional motions in enzymes, viruses, and large protein assemblies. The use of normal modes in the study of these motions is often extremely fruitful since many of the functional motions of large proteins can be described using just a few normal modes which are intimately related to the overall structure of the protein. In this review, we present a broad overview of several popular methods used in the study of normal modes in biological physics including continuum elastic theory, the elastic network model, and a new all-atom method, recently developed, which is capable of computing a subset of the low frequency vibrational modes exactly. After a review of the various methods, we present several examples of applications of normal modes in the study of functional motions, with an emphasis on viral capsids. (topical review)

  14. Coupled model of physical and biological processes affecting maize pollination

    Science.gov (United States)

    Arritt, R.; Westgate, M.; Riese, J.; Falk, M.; Takle, E.

    2003-04-01

    Controversy over the use of genetically modified (GM) crops has led to increased interest in evaluating and controlling the potential for inadvertent outcrossing in open-pollinated crops such as maize. In response to this problem we have developed a Lagrangian model of pollen dispersion as a component of a coupled end-to-end (anther to ear) physical-biological model of maize pollination. The Lagrangian method is adopted because of its generality and flexibility: first, the method readily accommodates flow fields of arbitrary complexity; second, each element of the material being transported can be identified by its source, time of release, or other properties of interest. The latter allows pollen viability to be estimated as a function of such factors as travel time, temperature, and relative humidity, so that the physical effects of airflow and turbulence on pollen dispersion can be considered together with the biological aspects of pollen release and viability. Predicted dispersion of pollen compares well both to observations and to results from a simpler Gaussian plume model. Ability of the Lagrangian model to handle complex air flows is demonstrated by application to pollen dispersion in the vicinity of an agricultural shelter belt. We also show results indicating that pollen viability can be quantified by an "aging function" that accounts for temperature, humidity, and time of exposure.

  15. 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...

  16. Physical and biological factors determining the effective proton range

    Energy Technology Data Exchange (ETDEWEB)

    Grün, Rebecca [Department of Biophysics, GSI Helmholtzzentrum für Schwerionenforschung, Darmstadt 64291 (Germany); Institute of Medical Physics and Radiation Protection, University of Applied Sciences Gießen, Gießen 35390 (Germany); Medical Faculty of Philipps-University Marburg, Marburg 35032 (Germany); Friedrich, Thomas; Krämer, Michael; Scholz, Michael [Department of Biophysics, GSI Helmholtzzentrum für Schwerionenforschung, Darmstadt 64291 (Germany); Zink, Klemens [Institute of Medical Physics and Radiation Protection, University of Applied Sciences Gießen, Gießen 35390, Germany and Department of Radiotherapy and Radiation Oncology, University Medical Center Giessen and Marburg, Marburg 35043 (Germany); Durante, Marco [Department of Biophysics, GSI Helmholtzzentrum für Schwerionenforschung, Darmstadt 64291, Germany and Department of Condensed Matter Physics, Darmstadt University of Technology, Darmstadt 64289 (Germany); Engenhart-Cabillic, Rita [Medical Faculty of Philipps-University Marburg, Marburg 35032, Germany and Department of Radiotherapy and Radiation Oncology, University Medical Center Giessen and Marburg, Marburg 35043 (Germany)

    2013-11-15

    Purpose: Proton radiotherapy is rapidly becoming a standard treatment option for cancer. However, even though experimental data show an increase of the relative biological effectiveness (RBE) with depth, particularly at the distal end of the treatment field, a generic RBE of 1.1 is currently used in proton radiotherapy. This discrepancy might affect the effective penetration depth of the proton beam and thus the dose to the surrounding tissue and organs at risk. The purpose of this study was thus to analyze the impact of a tissue and dose dependent RBE of protons on the effective range of the proton beam in comparison to the range based on a generic RBE of 1.1.Methods: Factors influencing the biologically effective proton range were systematically analyzed by means of treatment planning studies using the Local Effect Model (LEM IV) and the treatment planning software TRiP98. Special emphasis was put on the comparison of passive and active range modulation techniques.Results: Beam energy, tissue type, and dose level significantly affected the biological extension of the treatment field at the distal edge. Up to 4 mm increased penetration depth as compared to the depth based on a constant RBE of 1.1. The extension of the biologically effective range strongly depends on the initial proton energy used for the most distal layer of the field and correlates with the width of the distal penumbra. Thus, the range extension, in general, was more pronounced for passive as compared to active range modulation systems, whereas the maximum RBE was higher for active systems.Conclusions: The analysis showed that the physical characteristics of the proton beam in terms of the width of the distal penumbra have a great impact on the RBE gradient and thus also the biologically effective penetration depth of the beam.

  17. Radiation physics, biophysics, and radiation biology

    International Nuclear Information System (INIS)

    The following research programs from the Center for Radiological Research of Columbia University are described: Design and development of a new wall-less ultra miniature proportional counter for nanodosimetry; some recent measurements of ionization distributions for heavy ions at nanometer site sizes with a wall-less proportional counter; a calculation of exciton energies in periodic systems with helical symmetry: application to a hydrogen fluoride chain; electron energy-loss function in polynucleotide and the question of plasmon excitation; a non-parametric, microdosimetric-based approach to the evaluation of the biological effects of low doses of ionizing radiation; high-LET radiation risk assessment at medium doses; high-LET radiobiological effects: increased lesion severity or increased lesion proximity; photoneutrons generated by high energy medical linacs; the biological effectiveness of neutrons; implications for radiation protection; molecular characterization of oncogenes induced by neutrons; and the inverse dose-rate effect for oncogenic transformation by charged particles is LET dependent

  18. Stochastic Physics, Complex Systems and Biology

    CERN Document Server

    Qian, Hong

    2012-01-01

    In complex systems, the interplay between nonlinear and stochastic dynamics gives rise to an evolution process in Darwinian sense with punctuated equilibrium, random "mutations" and "adaptations". The emergent discrete states in such a system, i.e., attractors, have natural robustness against both internal and external perturbations. Epigenetic states of a biological cell, a mesoscopic nonlinear stochastic open biochemical system, could be understood through such a framework.

  19. ``Physical Concepts in Cell Biology,'' an upper level interdisciplinary course in cell biophysics/mathematical biology

    Science.gov (United States)

    Vavylonis, Dimitrios

    2009-03-01

    I will describe my experience in developing an interdisciplinary biophysics course addressed to students at the upper undergraduate and graduate level, in collaboration with colleagues in physics and biology. The students had a background in physics, biology and engineering, and for many the course was their first exposure to interdisciplinary topics. The course did not depend on a formal knowledge of equilibrium statistical mechanics. Instead, the approach was based on dynamics. I used diffusion as a universal ``long time'' law to illustrate scaling concepts. The importance of statistics and proper counting of states/paths was introduced by calculating the maximum accuracy with which bacteria can measure the concentration of diffuse chemicals. The use of quantitative concepts and methods was introduced through specific biological examples, focusing on model organisms and extremes at the cell level. Examples included microtubule dynamic instability, the search and capture model, molecular motor cooperativity in muscle cells, mitotic spindle oscillations in C. elegans, polymerization forces and propulsion of pathogenic bacteria, Brownian ratchets, bacterial cell division and MinD oscillations.

  20. Physical aspects of biological activity and cancer

    Science.gov (United States)

    Pokorný, Jiří

    2012-03-01

    Mitochondria are organelles at the boundary between chemical-genetic and physical processes in living cells. Mitochondria supply energy and provide conditions for physical mechanisms. Protons transferred across the inner mitochondrial membrane diffuse into cytosol and form a zone of a strong static electric field changing water into quasi-elastic medium that loses viscosity damping properties. Mitochondria and microtubules form a unique cooperating system in the cell. Microtubules are electrical polar structures that make possible non-linear transformation of random excitations into coherent oscillations and generation of coherent electrodynamic field. Mitochondria supply energy, may condition non-linear properties and low damping of oscillations. Electrodynamic activity might have essential significance for material transport, organization, intra- and inter-cellular interactions, and information transfer. Physical processes in cancer cell are disturbed due to suppression of oxidative metabolism in mitochodria (Warburg effect). Water ordering level in the cell is decreased, excitation of microtubule electric polar oscilations diminished, damping increased, and non-linear energy transformation shifted towards the linear region. Power and coherence of the generated electrodynamic field are reduced. Electromagnetic activity of healthy and cancer cells may display essential differences. Local invasion and metastastatic growth may strongly depend on disturbed electrodynamic activity. Nanotechnological measurements may disclose yet unknown properties and parameters of electrodynamic oscillations and other physical processes in healthy and cancer cells.

  1. Physical and biological characterization of a seawater ultraviolet radiation sterilizer

    Science.gov (United States)

    Torrentera, Laura; Uribe, Roberto M.; Rodríguez, Romana R.; Carrillo, Ricardo E.

    1994-03-01

    The physical and biological characterization of a seawater ultraviolet (UV) sterilizer is described. The physical characterization was performed using radiochromic dye films by evaluating the uniformity of the radiant exposure along each lamp, the effect of the radiation from one lamp on the array of adjacent lamps, and by measuring the UV radiation absorption of seawater with respect to distilled water. The biological characterization was performed by measuring the amount of reduction of bacteria in stored seawater after different filtration and UV treatments. Among the filtration methods tested, differential filtration (5, 3 and 0.45 μm filters connected in series) caused the highest bacterial reduction factor of 60%. UV radiant exposures of 212, 424, 636 and 848 J m -2 yielded bacteria reduction factors of 99.86, 99.969, 99.997 and 100%, respectively, for populations of Vibrio and Pseudomonas bacteria present in stored seawater. It is concluded that the system is useful for water disinfection when 1, 2 or 3 lamps are on; when 4 lamps are used the treated water becomes sterile.

  2. Physical and biological characterization of a seawater ultraviolet radiation sterilizer

    Energy Technology Data Exchange (ETDEWEB)

    Torrentera, L.; Rodriguez, R.R. (Unidad Merida (Mexico). Centro de Investigacion y Estudios Avanzados del IPN (CINVESTAV)); Uribe, R.M. (Kent State Univ., OH (United States)); Carrillo, R.E. (Wisconsin Univ., Madison, WI (United States). Dept. of Medical Physics)

    1994-03-01

    The physical and biological characterization of a seawater ultraviolet (UV) sterilizer is described. The physical characterization was performed using radiochromic dye films by evaluating the uniformity of the radiant exposure along each lamp, the effect of the radiation from one lamp on the array of adjacent lamps, and by measuring the UV radiation absorption of seawater with respect to distilled water. The biological characterization was performed by measuring the amount of reduction of bacteria in stored seawater after different filtration and UV treatments. Among the filtration methods tested, differential filtration (5, 3 and 0.45 [mu]m filters connected in series) caused the highest bacterial reduction factor of 60%. UV radiant exposures of 212, 424, 636 and 848 J m[sup -2] yielded bacteria reduction factors of 99.86, 99.969, 99.997 and 100%, respectively, for populations of Vibrio and Pseudomonas bacteria present in stored seawater. It is concluded that the system is useful for water disinfection when 1, 2 or 3 lamps are on; when 4 lamps are used the treated water becomes sterile. (author).

  3. Physical acoustics principles and methods

    CERN Document Server

    Mason, Warren P

    1964-01-01

    Physical Acoustics: Principles and Methods, Volume l-Part A focuses on high frequency sound waves in gases, liquids, and solids that have been proven as powerful tools in analyzing the molecular, defect, domain wall, and other types of motions. The selection first tackles wave propagation in fluids and normal solids and guided wave propagation in elongated cylinders and plates. Discussions focus on fundamentals of continuum mechanics; small-amplitude waves in a linear viscoelastic medium; representation of oscillations and waves; and special effects associated with guided elastic waves in plat

  4. Bridging Physics and Biology Using Resistance and Axons

    Science.gov (United States)

    Dyer, Joshua M.

    2014-11-01

    When teaching physics, it is often difficult to get biology-oriented students to see the relevance of physics.1 A complaint often heard is that biology students are required to take physics for the Medical College Admission Test (MCAT) as part of a "weeding out" process, but that they don't feel like they need physics for biology. Despite this impression held by students, there have been calls for better physics education for future physicians and life scientists.2,3 Research is being performed to improve physics classes and labs by linking topics in biology and physics.4,5 Described here is a laboratory experiment covering the topics of resistance of materials and circuits/Kirchhoff's laws in a biology context with their direct application to neurons, axons, and electrical impulse transmission within animals. This experiment will also demonstrate the mechanism believed to cause multiple sclerosis. The apparatus was designed with low-cost and readily available materials in mind.

  5. Free Will, Physics, Biology, and the Brain

    Science.gov (United States)

    Koch, Christof

    This introduction reviews the traditionally conceived question of free will from the point of view of a physicist turned neurobiologist. I discuss the quantum mechanic evidence that has brought us to the view that the world, including our brains, is not completely determined by physics and that even very simple nervous systems are subject to deterministic chaos. However, it is unclear how consciousness or any other extra-physical agent could take advantage of this situation to effect a change in the world, except possibly by realizing one quantum possibility over another. While the brain is a highly nonlinear and stochastic system, it remains unclear to what extent individual quantum effects can affect its output behavior. Finally, I discuss several cognitive neuroscience experiments suggesting that in many instances, our brain decides prior to our conscious mind, and that we often ignorant of our brain's decisions.

  6. Robotics and Biology: Lets get Physical

    Science.gov (United States)

    Choset, Howie

    Our research group investigates the core fundamentals of locomotion as it exists in biology and as it applies to locomoting robotic systems. Initially, our work advanced techniques found in geometric mechanics to design cyclic controllers, often called gaits, for snake robots, highly articulated mechanisms that can thread through tightly packed spaces to access locations people cannot. We had considerable success in designing snake robot gaits, but found our systems stymied in terrains characterized by sandy substrates. Sandy terrains and other granular media pose a challenge to snake robots because it is unclear how the mechanism interacts with environment: we cannot simply assume the robot is on hard-ground nor in a fluid. Simulating granular interactions can prove to be computationally intractable for real-time use on the robots. Therefore, we developed experimental tools that allowed us to sieve out models of the locomoting systems operating on granular media. We were then able to bring these models into harmony with the elegant formulation of our geometric mechanics approach. This allowed us to derive adaptive controllers for our snake robots in sandy terrains, and enabled us to gain deeper insight into of how biological systems move over similar terrains as well.

  7. Nuclear Physics in a biological context

    Science.gov (United States)

    Discher, Dennis

    2012-02-01

    A solid tissue can be soft like fat or brain, stiff like striated muscle and heart, or rigid like bone -- and of course every cell has a nucleus that contributes in some way small or large to tissue mechanics. Indeed, nuclei generally exhibit rheology and plasticity that reflects both the chromatin and the nuclear envelope proteins called lamins, all of which change in differentiation. Profiling of tissue nuclei shows that the nuclear intermediate filament protein Lamin-A/C varies over 30-fold between adult tissues and scales strongly with micro-elasticity of tissue, while other nuclear envelope components such as Lamin-B exhibit small variations. Lamin-A/C has been implicated in aging syndromes that affect muscle and fat but not brain, and we find nuclei in brain-derived cells are indeed dominated by Lamin-B and are much softer than nuclei derived from muscle cells with predominantly Lamin-A/C. In vitro, matrix elasticity can affect expression of nuclear envelope components in adult stem cells, and major changes in Lamin-A/C are indeed shown to direct lineage with lower levels favoring soft tissue and higher levels promoting rigid tissue lineage. Further molecular studies provide evidence that the nucleus transduces physical stress. References: (1) J.D. Pajerowski, K.N. Dahl, F.L. Zhong, P.J. Sammak, and D.E. Discher. Physical plasticity of the nucleus in stem cell differentiation. PNAS 104: 15619-15624 (2007). (2) A. Buxboim, I. Ivanova, and D.E. Discher. Matrix Elasticity, Cytoskeletal Forces, and Physics of the Nucleus: how deeply do cells `feel' outside and in? Journal of Cell Science 123: 297-308 (2010).

  8. Group theoretical methods in Physics

    Energy Technology Data Exchange (ETDEWEB)

    Olmo, M.A. del; Santander, M.; Mateos Guilarte, J.M. (eds.) (Universidad de Valladolid. Facultad de Ciencias. Valladolid (Spain))

    1993-01-01

    The meeting had 102 papers. These was distributed in following areas: -Quantum groups,-Integrable systems,-Physical Applications of Group Theory,-Mathematical Results,-Geometry, Topology and Quantum Field Theory,-Super physics,-Super mathematics,-Atomic, Molecular and Condensed Matter Physics. Nuclear and Particle Physics,-Symmetry and Foundations of classical and Quantum mechanics.

  9. Physical activity and biological maturation: a systematic review

    Directory of Open Access Journals (Sweden)

    Eliane Denise Araújo Bacil

    2015-03-01

    Full Text Available OBJECTIVE: To analyze the association between physical activity (PA and biological maturation in children and adolescents. DATA SOURCE: We performed a systematic review in April 2013 in the electronic databases of PubMed/MEDLINE, SportDiscus, Web of Science and LILACS without time restrictions. A total of 628 potentially relevant articles were identified and 10 met the inclusion criteria for this review: cross-sectional or longitudinal studies, published in Portuguese, English or Spanish, with schoolchildren aged 9-15 years old of both genders. DATA SYNTHESIS: Despite the heterogeneity of the studies, there was an inverse association between PA and biological maturation. PA decreases with increased biological and chronological age in both genders. Boys tend to be more physically active than girls; however, when controlling for biological age, the gender differences disappear. The association between PA and timing of maturation varies between the genders. Variation in the timing of biological maturation affects the tracking of PA in early adolescent girls. This review suggests that mediators (BMI, depression, low self-esteem, and concerns about body weight can explain the association between PA and biological maturation. CONCLUSIONS: There is an association between PA and biological maturation. PA decreases with increasing biological age with no differences between genders. As for the timing of biological maturation, this association varies between genders.

  10. The 'atom-splitting' moment of synthetic biology: Nuclear physics and synthetic biology share common features

    OpenAIRE

    Valentine, Alex J; Kleinert, Aleysia; Verdier, Jerome

    2012-01-01

    Synthetic biology and nuclear physics share many commonalities in terms of public perception and funding. Synthetic biologists could learn valuable lessons from the history of the atomic bomb and nuclear power.

  11. Toward university modeling instruction--biology: adapting curricular frameworks from physics to biology.

    Science.gov (United States)

    Manthey, Seth; Brewe, Eric

    2013-06-01

    University Modeling Instruction (UMI) is an approach to curriculum and pedagogy that focuses instruction on engaging students in building, validating, and deploying scientific models. Modeling Instruction has been successfully implemented in both high school and university physics courses. Studies within the physics education research (PER) community have identified UMI's positive impacts on learning gains, equity, attitudinal shifts, and self-efficacy. While the success of this pedagogical approach has been recognized within the physics community, the use of models and modeling practices is still being developed for biology. Drawing from the existing research on UMI in physics, we describe the theoretical foundations of UMI and how UMI can be adapted to include an emphasis on models and modeling for undergraduate introductory biology courses. In particular, we discuss our ongoing work to develop a framework for the first semester of a two-semester introductory biology course sequence by identifying the essential basic models for an introductory biology course sequence.

  12. Introductory physics in biological context: An approach to improve introductory physics for life science students

    Science.gov (United States)

    Crouch, Catherine H.; Heller, Kenneth

    2014-05-01

    We describe restructuring the introductory physics for life science students (IPLS) course to better support these students in using physics to understand their chosen fields. Our courses teach physics using biologically rich contexts. Specifically, we use examples in which fundamental physics contributes significantly to understanding a biological system to make explicit the value of physics to the life sciences. This requires selecting the course content to reflect the topics most relevant to biology while maintaining the fundamental disciplinary structure of physics. In addition to stressing the importance of the fundamental principles of physics, an important goal is developing students' quantitative and problem solving skills. Our guiding pedagogical framework is the cognitive apprenticeship model, in which learning occurs most effectively when students can articulate why what they are learning matters to them. In this article, we describe our courses, summarize initial assessment data, and identify needs for future research.

  13. Fractal landscapes in physics and biology

    Science.gov (United States)

    Eugene Stanley, H.

    1992-07-01

    This article is based upon the Thirtieth Saha Memorial Lecture (delivered on 4 January 1992) and the Fourth Bose Memorial Lecture (delivered on 5 January 1992). I felt deeply touched to have been so honored by invitations to deliver these lectures, especially in view of the list of illustrious predecessors who have held this honor. At the outset I wish to acknowledge that almost all of my work is connected in one way or another to random walks, a topic about which I learned most from the classic 1943 review of the great Indian physicist S. Chandrasekar. I also wish to acknowledge my personal debt to the great culture and music of India, and to the many Indian scholars who have taught me their unique insights into the mysteries of physics. In particular, I wish to dedicate this work to the late Bengali genius Satyajit Ray, whose recent passing has left the world immeasurably poorer. It was my dream while in Calcutta to have the opportunity of meeting this hero of mine, but his ill health at that time prevented our meeting.

  14. Course 8: Biological Physics in Silico

    Science.gov (United States)

    Austin, R. H.

    1 Why micro/nanofabrication? Lecture 1a: Hydrodynamic Transport 1 Introduction: The need to control flows in 2 1/2 D 2 Somewhat simple hydrodynamics in 2 1/2 D 3 The N-port injector idea 4 Conclusion Lecture 1b: Dielectrophoresis and Microfabrication 1 Introduction 2 Methods 3 Results 4 Data and analysis 5 Origin of the low frequency dielectrophoretic force in DNA 6 Conclusion Lecture 2a: Hex Arrays 1 Introduction 2 Experimental approach 3 Conclusions Lecture 2b: The DNA Prism 1 Introduction 2 Design 3 Results 4 Conclusions Lecture 2c: Bigger is Better in Rachets 1 The problems with insulators in rachets 2 An experimental test 3 Conclusions Lecture 3: Going After Epigenetics 1 Introduction 2 The nearfield scanner 3 The chip 4 Experiments with molecules 5 Conclusions Lecture 4: Fractionating Cells 1 Introduction 2 Blood specifics 3 Magnetic separation 4 Microfabrication 5 Magnetic field gradients 6 Device interface 7 A preliminary blood cell run 8 Conclusions Lecture 5: Protein Folding on a Chip 1 Introduction 2 Technology 3 Experiments 4 Conclusions

  15. PREFACE: Physics and biology of neurodegenerative diseases Physics and biology of neurodegenerative diseases

    Science.gov (United States)

    Pastore, Annalisa

    2012-06-01

    , about 15 years after the original reports, it is clear that amyloids are special structures that occur in nature under several different guises, some good, some evil [3]. The number of diseases associated with misfolding and fibrillogenesis has steadily increased. Examples of fairly common pathologies associated with fibre formation include Alzheimer's disease (currently one of the major threats for human health in our increasingly aging world), Parkinson's disease and several rare, but not less severe, pathologies. On the other hand, it is also clear that amyloid formation is a convenient mechanism for storing peptides and/or proteins in a compact and resistant way. The number of organisms/tissues in which amyloid deposits are found is thus increasing. It is also not too far-fetched to expect that the mechanical properties of amyloids could be used in biotechnology to design new materials. Because of the importance of this topic in so many scientific fields, we have dedicated this special issue of Journal of Physics: Condensed Matter to the topic of protein aggregation and disease. In the following pages we have collected two reviews and five articles that explore new and interesting developments in the field. References [1] Olby R 1994 The Path of the Double Helix: The Discovery of DNA (New York: Dover) [2] Dobson C M 2004 Principles of protein folding, misfolding and aggregation Semin. Cell Dev. Biol. 15 3-16 [3] Hammer N D, Wang X, McGuffie B A, Chapman M R 2008 Amyloids: friend or foe? J. Alzheimers Dis. 13 407-19 Physics and biology of neurodegenerative diseases contents Protein aggregation and misfolding: good or evil?Annalisa Pastore and Pierandrea Temussi Alzheimer's disease: biological aspects, therapeutic perspectives and diagnostic toolsM Di Carlo, D Giacomazza and P L San Biagio Entrapment of Aβ1-40 peptide in unstructured aggregatesC Corsale, R Carrotta, M R Mangione, S Vilasi, A Provenzano, G Cavallaro, D Bulone and P L San Biagio Elemental micro

  16. Working together at the interface of physics and biology

    Science.gov (United States)

    Bassler, Bonnie L.; Wingreen, Ned S.

    2014-10-01

    Good communication, whether it is between quorum-sensing bacteria or the different scientists studying those critters, is the key to a successful interdisciplinary collaboration, Bonnie Bassler and Ned Wingreen provide a personal perspective on working at the interface between the physical and biological sciences.

  17. Methods for solving mathematical physics problems

    CERN Document Server

    Agoshkov, VI; Shutyaev, VP

    2006-01-01

    The book examines the classic and generally accepted methods for solving mathematical physics problems (method of the potential theory, the eigenfunction method, integral transformation methods, discretisation characterisation methods, splitting methods). A separate chapter is devoted to methods for solving nonlinear equations. The book offers a large number of examples of how these methods are applied to the solution of specific mathematical physics problems, applied in the areas of science and social activities, such as energy, environmental protection, hydrodynamics, theory of elasticity, etc.

  18. Perspectives on theory at the interface of physics and biology

    CERN Document Server

    Bialek, William

    2015-01-01

    Theoretical physics is the search for simple and universal mathematical descriptions of the natural world. In contrast, much of modern biology is an exploration of the complexity and diversity of life. For many, this contrast is prima facie evidence that theory, in the sense that physicists use the word, is impossible in a biological context. For others, this contrast serves to highlight a grand challenge. I'm an optimist, and believe (along with many colleagues) that the time is ripe for the emergence of a more unified theoretical physics of biological systems, building on successes in thinking about particular phenomena. In this essay I try to explain the reasons for my optimism, through a combination of historical and modern examples.

  19. Breaking Frontiers: Submicron Structures in Physics and Biology - 52 Zakopane School of Physics

    International Nuclear Information System (INIS)

    The 52 Zakopane School of Physics held in Zakopane from 19 to 24 May 2008. The main task of the symposium was to present the newest results of research in field of submicron structures in physics, biology and medicine. Some new technologies as well as their applications are also presented

  20. Statistical methods in radiation physics

    CERN Document Server

    Turner, James E; Bogard, James S

    2012-01-01

    This statistics textbook, with particular emphasis on radiation protection and dosimetry, deals with statistical solutions to problems inherent in health physics measurements and decision making. The authors begin with a description of our current understanding of the statistical nature of physical processes at the atomic level, including radioactive decay and interactions of radiation with matter. Examples are taken from problems encountered in health physics, and the material is presented such that health physicists and most other nuclear professionals will more readily understand the application of statistical principles in the familiar context of the examples. Problems are presented at the end of each chapter, with solutions to selected problems provided online. In addition, numerous worked examples are included throughout the text.

  1. Statistical methods in physical mapping

    International Nuclear Information System (INIS)

    One of the great success stories of modern molecular genetics has been the ability of biologists to isolate and characterize the genes responsible for serious inherited diseases like fragile X syndrome, cystic fibrosis and myotonic muscular dystrophy. This dissertation concentrates on constructing high-resolution physical maps. It demonstrates how probabilistic modeling and statistical analysis can aid molecular geneticists in the tasks of planning, execution, and evaluation of physical maps of chromosomes and large chromosomal regions. The dissertation is divided into six chapters. Chapter 1 provides an introduction to the field of physical mapping, describing the role of physical mapping in gene isolation and ill past efforts at mapping chromosomal regions. The next two chapters review and extend known results on predicting progress in large mapping projects. Such predictions help project planners decide between various approaches and tactics for mapping large regions of the human genome. Chapter 2 shows how probability models have been used in the past to predict progress in mapping projects. Chapter 3 presents new results, based on stationary point process theory, for progress measures for mapping projects based on directed mapping strategies. Chapter 4 describes in detail the construction of all initial high-resolution physical map for human chromosome 19. This chapter introduces the probability and statistical models involved in map construction in the context of a large, ongoing physical mapping project. Chapter 5 concentrates on one such model, the trinomial model. This chapter contains new results on the large-sample behavior of this model, including distributional results, asymptotic moments, and detection error rates. In addition, it contains an optimality result concerning experimental procedures based on the trinomial model. The last chapter explores unsolved problems and describes future work

  2. Statistical methods in physical mapping

    Energy Technology Data Exchange (ETDEWEB)

    Nelson, D.O. [Univ. of California, Berkeley, CA (United States)

    1995-05-01

    One of the great success stories of modern molecular genetics has been the ability of biologists to isolate and characterize the genes responsible for serious inherited diseases like fragile X syndrome, cystic fibrosis and myotonic muscular dystrophy. This dissertation concentrates on constructing high-resolution physical maps. It demonstrates how probabilistic modeling and statistical analysis can aid molecular geneticists in the tasks of planning, execution, and evaluation of physical maps of chromosomes and large chromosomal regions. The dissertation is divided into six chapters. Chapter 1 provides an introduction to the field of physical mapping, describing the role of physical mapping in gene isolation and ill past efforts at mapping chromosomal regions. The next two chapters review and extend known results on predicting progress in large mapping projects. Such predictions help project planners decide between various approaches and tactics for mapping large regions of the human genome. Chapter 2 shows how probability models have been used in the past to predict progress in mapping projects. Chapter 3 presents new results, based on stationary point process theory, for progress measures for mapping projects based on directed mapping strategies. Chapter 4 describes in detail the construction of all initial high-resolution physical map for human chromosome 19. This chapter introduces the probability and statistical models involved in map construction in the context of a large, ongoing physical mapping project. Chapter 5 concentrates on one such model, the trinomial model. This chapter contains new results on the large-sample behavior of this model, including distributional results, asymptotic moments, and detection error rates. In addition, it contains an optimality result concerning experimental procedures based on the trinomial model. The last chapter explores unsolved problems and describes future work.

  3. Physics in cell biology: on the physics of biopolymers and molecular motors.

    Science.gov (United States)

    Frey, Erwin

    2002-03-12

    "What is Life?" is the title of a book by Erwin Schrödinger, first published in 1944. This book is a bold attempt to try to understand some of the wonders of life in terms of physics, in particular statistical mechanics. Since the publication of this visionary book, we have seen a revolution in molecular biology complemented by the development of new physical tools like single-molecule spectroscopy. The goal of this article is to highlight some examples where physics can contribute to questions in cell biology. One might hope that through interdisciplinary research one can get closer to answering Schrödinger's fundamental question.

  4. Some mathematical methods of physics

    CERN Document Server

    Goertzel, Gerald

    2014-01-01

    This well-rounded, thorough treatment for advanced undergraduates and graduate students introduces basic concepts of mathematical physics involved in the study of linear systems. The text emphasizes eigenvalues, eigenfunctions, and Green's functions. Prerequisites include differential equations and a first course in theoretical physics.The three-part presentation begins with an exploration of systems with a finite number of degrees of freedom (described by matrices). In part two, the concepts developed for discrete systems in previous chapters are extended to continuous systems. New concepts u

  5. 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.

  6. Nuclear physics detector technology applied to plant biology research

    Energy Technology Data Exchange (ETDEWEB)

    Weisenberger, A.G., E-mail: drew@jlab.org [Thomas Jefferson National Accelerator Facility, Newport News, VA (United States); Kross, B.; Lee, S.J.; McKisson, J.; McKisson, J.E.; Xi, W.; Zorn, C. [Thomas Jefferson National Accelerator Facility, Newport News, VA (United States); Howell, C.R.; Crowell, A.S. [Duke University, Durham, NC (United States); Triangle Universities Nuclear Laboratory, Durham, NC (United States); Reid, C.D. [Duke University, Durham, NC (United States); Smith, M. [University of Maryland, Baltimore, MD (United States)

    2013-08-01

    The ability to detect the emissions of radioactive isotopes through radioactive decay (e.g. beta particles, x-rays and gamma-rays) has been used for over 80 years as a tracer method for studying natural phenomena. More recently a positron emitting radioisotope of carbon: {sup 11}C has been utilized as a {sup 11}CO{sub 2} tracer for plant ecophysiology research. Because of its ease of incorporation into the plant via photosynthesis, the {sup 11}CO{sub 2} radiotracer is a powerful tool for use in plant biology research. Positron emission tomography (PET) imaging has been used to study carbon transport in live plants using {sup 11}CO{sub 2}. Presently there are several groups developing and using new PET instrumentation for plant based studies. Thomas Jefferson National Accelerator Facility (Jefferson Lab) in collaboration with the Duke University Phytotron and the Triangle Universities Nuclear Laboratory (TUNL) is involved in PET detector development for plant imaging utilizing technologies developed for nuclear physics research. The latest developments of the use of a LYSO scintillator based PET detector system for {sup 11}CO{sub 2} tracer studies in plants will be briefly outlined.

  7. Charge Migration in DNA Perspectives from Physics, Chemistry, and Biology

    CERN Document Server

    Chakraborty, Tapash

    2007-01-01

    Charge migration through DNA has been the focus of considerable interest in recent years. A deeper understanding of the nature of charge transfer and transport along the double helix is important in fields as diverse as physics, chemistry and nanotechnology. It has also important implications in biology, in particular in DNA damage and repair. This book presents contributions from an international team of researchers active in this field. It contains a wide range of topics that includes the mathematical background of the quantum processes involved, the role of charge transfer in DNA radiation damage, a new approach to DNA sequencing, DNA photonics, and many others. This book should be of value to researchers in condensed matter physics, chemical physics, physical chemistry, and nanoscale sciences.

  8. Algorithmic and analytical methods in network biology.

    Science.gov (United States)

    Koyutürk, Mehmet

    2010-01-01

    During the genomic revolution, algorithmic and analytical methods for organizing, integrating, analyzing, and querying biological sequence data proved invaluable. Today, increasing availability of high-throughput data pertaining to functional states of biomolecules, as well as their interactions, enables genome-scale studies of the cell from a systems perspective. The past decade witnessed significant efforts on the development of computational infrastructure for large-scale modeling and analysis of biological systems, commonly using network models. Such efforts lead to novel insights into the complexity of living systems, through development of sophisticated abstractions, algorithms, and analytical techniques that address a broad range of problems, including the following: (1) inference and reconstruction of complex cellular networks; (2) identification of common and coherent patterns in cellular networks, with a view to understanding the organizing principles and building blocks of cellular signaling, regulation, and metabolism; and (3) characterization of cellular mechanisms that underlie the differences between living systems, in terms of evolutionary diversity, development and differentiation, and complex phenotypes, including human disease. These problems pose significant algorithmic and analytical challenges because of the inherent complexity of the systems being studied; limitations of data in terms of availability, scope, and scale; intractability of resulting computational problems; and limitations of reference models for reliable statistical inference. This article provides a broad overview of existing algorithmic and analytical approaches to these problems, highlights key biological insights provided by these approaches, and outlines emerging opportunities and challenges in computational systems biology.

  9. DNA confinement in nanochannels: physics and biological applications

    DEFF Research Database (Denmark)

    Reisner, Walter; Pedersen, Jonas Nyvold; Austin, Robert H

    2012-01-01

    biological interest in extracting linear sequence information from elongated DNA molecules, from a physics view these systems are fascinating as they enable probing of single-molecule conformation in environments with dimensions that intersect key physical length-scales in the 1 nm to 100μm range. (Some......DNA is the central storage molecule of genetic information in the cell, and reading that information is a central problem in biology. While sequencing technology has made enormous advances over the past decade, there is growing interest in platforms that can readout genetic information directly...... from long single DNA molecules, with the ultimate goal of single-cell, single-genome analysis. Such a capability would obviate the need for ensemble averaging over heterogeneous cellular populations and eliminate uncertainties introduced by cloning and molecular amplification steps (thus enabling...

  10. Optimizing Introductory Physics for the Life Sciences: Placing Physics in Biological Context

    Science.gov (United States)

    Crouch, Catherine

    2014-03-01

    Physics is a critical foundation for today's life sciences and medicine. However, the physics content and ways of thinking identified by life scientists as most important for their fields are often not taught, or underemphasized, in traditional introductory physics courses. Furthermore, such courses rarely give students practice using physics to understand living systems in a substantial way. Consequently, students are unlikely to recognize the value of physics to their chosen fields, or to develop facility in applying physics to biological systems. At Swarthmore, as at several other institutions engaged in reforming this course, we have reorganized the introductory course for life science students around touchstone biological examples, in which fundamental physics contributes significantly to understanding biological phenomena or research techniques, in order to make explicit the value of physics to the life sciences. We have also focused on the physics topics and approaches most relevant to biology while seeking to develop rigorous qualitative reasoning and quantitative problem solving skills, using established pedagogical best practices. Each unit is motivated by and culminates with students analyzing one or more touchstone examples. For example, in the second semester we emphasize electric potential and potential difference more than electric field, and start from students' typically superficial understanding of the cell membrane potential and of electrical interactions in biochemistry to help them develop a more sophisticated understanding of electric forces, field, and potential, including in the salt water environment of life. Other second semester touchstones include optics of vision and microscopes, circuit models for neural signaling, and magnetotactic bacteria. When possible, we have adapted existing research-based curricular materials to support these examples. This talk will describe the design and development process for this course, give examples of

  11. Integrated Graduate Program in Physical and Engineering Biology at Yale University

    Science.gov (United States)

    Caballero, Diego; Noble, Dorottya; Pollard, Thomas; Mochrie, Simon; O'Hern, Corey; Regan, Lynne

    2014-03-01

    Quantitative, integrated approaches are necessary to solve biology's grand challenges. Yale's Integrated Graduate Program in Physical and Engineering Biology (IGPPEB) prepares students to excel at applying physics and engineering approaches, whilst also ensuring that they are sufficiently biologically sophisticated that they can readily identify and tackle cutting-edge problems. Students enter the program through a ``home'' department but also take a set of IGPPEB core courses with students from other departments. The IGPPEB curriculum is co-taught by faculty from a wide array of departments and motivates students to work together and learn from each other. The curriculum complements those of the home departments and includes primer courses to rapidly bring all students to a level where they ``speak each others language.'' The program is a member of the NSF's Physics of Living Systems: Student Research Network, which connects graduate students from different institutions that are engaged in research at the interface of physics and biology. Convergent research thrusts at Yale include Cellular Shape and Motion; Mechanical Force Generation and Sensing; Biomaterials and Bioinspired Design; Systems and Synthetic Biology; Modeling Biological Processes and Methods Development.

  12. 2010 Diffraction Methods in Structural Biology

    Energy Technology Data Exchange (ETDEWEB)

    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.

  13. Molecular Biological Methods in Environmental Engineering.

    Science.gov (United States)

    Zhang, Guocai; Wei, Li; Chang, Chein-Chi; Zhang, Yuhua; Wei, Dong

    2016-10-01

    Bacteria, acting as catalysts, perform the function of degrading pollutants. Molecular biological techniques play an important role in research on the community analysis, the composition and the functions of complex microbial communities. The development of secondary high-throughput pyrosequencing techiniques enhances the understanding of the composition of the microbial community. The literatures of 2015 indicated that 16S rDNA gene as genetic tag is still the important method for bacteria identification and classification. 454 high throughput sequencing and Illumina MiSeq sequencing have been the primary and widely recognized methods to analyze the microbial. This review will provide environmental engineers and microbiologists an overview of important advancements in molecular techniques and highlight the application of these methods in diverse environments. PMID:27620079

  14. Preservice Teachers' Epistemological Beliefs in Physics, Chemistry, and Biology: A Mixed Study

    Science.gov (United States)

    Topcu, Mustafa Sami

    2013-01-01

    The purposes of the study were to assess preservice teachers' domain-specific epistemological beliefs and to investigate whether preservice teachers distinguish disciplinary differences (physics, chemistry, and biology) in domain-specific epistemological beliefs. Mixed-method research design guided the present research. The researcher explored…

  15. Competency-based reforms of the undergraduate biology curriculum: integrating the physical and biological sciences.

    Science.gov (United States)

    Thompson, Katerina V; Chmielewski, Jean; Gaines, Michael S; Hrycyna, Christine A; LaCourse, William R

    2013-06-01

    The National Experiment in Undergraduate Science Education project funded by the Howard Hughes Medical Institute is a direct response to the Scientific Foundations for Future Physicians report, which urged a shift in premedical student preparation from a narrow list of specific course work to a more flexible curriculum that helps students develop broad scientific competencies. A consortium of four universities is working to create, pilot, and assess modular, competency-based curricular units that require students to use higher-order cognitive skills and reason across traditional disciplinary boundaries. Purdue University; the University of Maryland, Baltimore County; and the University of Miami are each developing modules and case studies that integrate the biological, chemical, physical, and mathematical sciences. The University of Maryland, College Park, is leading the effort to create an introductory physics for life sciences course that is reformed in both content and pedagogy. This course has prerequisites of biology, chemistry, and calculus, allowing students to apply strategies from the physical sciences to solving authentic biological problems. A comprehensive assessment plan is examining students' conceptual knowledge of physics, their attitudes toward interdisciplinary approaches, and the development of specific scientific competencies. Teaching modules developed during this initial phase will be tested on multiple partner campuses in preparation for eventual broad dissemination. PMID:23737624

  16. Competency-based reforms of the undergraduate biology curriculum: integrating the physical and biological sciences.

    Science.gov (United States)

    Thompson, Katerina V; Chmielewski, Jean; Gaines, Michael S; Hrycyna, Christine A; LaCourse, William R

    2013-06-01

    The National Experiment in Undergraduate Science Education project funded by the Howard Hughes Medical Institute is a direct response to the Scientific Foundations for Future Physicians report, which urged a shift in premedical student preparation from a narrow list of specific course work to a more flexible curriculum that helps students develop broad scientific competencies. A consortium of four universities is working to create, pilot, and assess modular, competency-based curricular units that require students to use higher-order cognitive skills and reason across traditional disciplinary boundaries. Purdue University; the University of Maryland, Baltimore County; and the University of Miami are each developing modules and case studies that integrate the biological, chemical, physical, and mathematical sciences. The University of Maryland, College Park, is leading the effort to create an introductory physics for life sciences course that is reformed in both content and pedagogy. This course has prerequisites of biology, chemistry, and calculus, allowing students to apply strategies from the physical sciences to solving authentic biological problems. A comprehensive assessment plan is examining students' conceptual knowledge of physics, their attitudes toward interdisciplinary approaches, and the development of specific scientific competencies. Teaching modules developed during this initial phase will be tested on multiple partner campuses in preparation for eventual broad dissemination.

  17. The Gravity of Regenerative Medicine; Physics, Chemistry & Biology behind it

    Directory of Open Access Journals (Sweden)

    Dedeepiya V

    2008-01-01

    Full Text Available The in-vitro expansion of cells of the organs/tissues and their re-implantation into the affected region/ tissue for treating cell/organ failure have been in practice for long, but in limited specialties. The in-vitro cell culture protocols use variety of biological reagents derived from animal sources and recombinant technologies. However, the optimal quantity of such biological components such as growth factors, cytokines etc.,needed for such cells to be grown in a non-physiological environment is still unknown. The use of such biological components have started to stir a controversy of late, due to the recognition of its potential hazards such as spread of prion diseases and contamination with non-human sialic acid proteins. Therefore synthetic reproducible biomaterials are gaining popularity in cell culture and tissue engineering. The biomaterials made of several chemical components based on physical parameters are starting to change certain concepts about the niche of cell culture and that of stem cell expansion and differentiation to specific lineages. Engler et al have already proven that a simple change in the matrix elasticity alone could change the lineage of the cells. Spencer et al have reported that a change in bioelectricity could change the morphogenesis during development. NCRM has been involved in cell culture and tissue engineering using approximately 240 different materials ranging from polymer hydrogel, gel with adherent inserts, nano composite materials, nano-coating technologies, nano-sheets and nano-films. These materials are used in cell culture in different hybrid combinations such as Floating 3D cell culture without adherent components in a homogenous hydrogel. Floating 3D cell culture with anchorage inserts. Flat surface- 2D adherent cell culture. Combined flat surface 2D cell culture (for differentiating cells and floating 3D culture (for undifferentiated cells. These combinations have started yielding several

  18. Suitability of Gray Water for Hydroponic Crop Production Following Biological and Physical Chemical and Biological Subsystems

    Science.gov (United States)

    Bubenheim, David L.; Harper, Lynn D.; Wignarajah, Kanapathipillai; Greene, Catherine

    1994-01-01

    The water present in waste streams from a human habitat must be recycled in Controlled Ecological Life Support Systems (CELSS) to limit resupply needs and attain self-sufficiency. Plants play an important role in providing food, regenerating air, and producing purified water via transpiration. However, we have shown that the surfactants present in hygiene waste water have acute toxic effects on plant growth (Bubenheim et al. 1994; Greene et al., 1994). These phytotoxic affects can be mitigated by allowing the microbial population on the root surface to degrade the surfactant, however, a significant suppression (several days) in crop performance is experienced prior to reaching sub-toxic surfactant levels and plant recovery. An effective alternative is to stabilize the microbial population responsible for degradation of the surfactant on an aerobic bioreactor and process the waste water prior to utilization in the hydroponic solution (Wisniewski and Bubenheim, 1993). A sensitive bioassay indicates that the surfactant phytotoxicity is suppressed by more than 90% within 5 hours of introduction of the gray water to the bioreactor; processing for more than 12 hours degrades more than 99% of the phytotoxin. Vapor Compression Distillation (VCD) is a physical / chemical method for water purification which employees sequential distillation steps to separate water from solids and to volatilize contaminants. The solids from the waste water are concentrated in a brine and the pure product water (70 - 90% of the total waste water volume depending on operating conditions) retains non of the phytotoxic effects. Results of the bioassay were used to guide evaluations of the suitability of recovered gray water following biological and VCD processing for hydroponic lettuce production in controlled environments. Lettuce crops were grown for 28 days with 100% of the input water supplied with recovered water from the biological processor or VCD. When compared with the growth of plants

  19. Biological and Physical Space Research Laboratory 2002 Science Review

    Science.gov (United States)

    Curreri, P. A. (Editor); Robinson, M. B. (Editor); Murphy, K. L. (Editor)

    2003-01-01

    With the International Space Station Program approaching core complete, our NASA Headquarters sponsor, the new Code U Enterprise, Biological and Physical Research, is shifting its research emphasis from purely fundamental microgravity and biological sciences to strategic research aimed at enabling human missions beyond Earth orbit. Although we anticipate supporting microgravity research on the ISS for some time to come, our laboratory has been vigorously engaged in developing these new strategic research areas.This Technical Memorandum documents the internal science research at our laboratory as presented in a review to Dr. Ann Whitaker, MSFC Science Director, in July 2002. These presentations have been revised and updated as appropriate for this report. It provides a snapshot of the internal science capability of our laboratory as an aid to other NASA organizations and the external scientific community.

  20. Influence of different natural physical fields on biological processes

    Science.gov (United States)

    Mashinsky, A. L.

    2001-01-01

    In space flight conditions gravity, magnetic, and electrical fields as well as ionizing radiation change both in size, and in direction. This causes disruptions in the conduct of some physical processes, chemical reactions, and metabolism in living organisms. In these conditions organisms of different phylogenetic level change their metabolic reactions undergo changes such as disturbances in ionic exchange both in lower and in higher plants, changes in cell morphology for example, gyrosity in Proteus ( Proteus vulgaris), spatial disorientation in coleoptiles of Wheat ( Triticum aestivum) and Pea ( Pisum sativum) seedlings, mutational changes in Crepis ( Crepis capillaris) and Arabidopsis ( Arabidopsis thaliana) seedling. It has been found that even in the absence of gravity, gravireceptors determining spatial orientation in higher plants under terrestrial conditions are formed in the course of ontogenesis. Under weightlessness this system does not function and spatial orientation is determined by the light flux gradient or by the action of some other factors. Peculiarities of the formation of the gravireceptor apparatus in higher plants, amphibians, fish, and birds under space flight conditions have been observed. It has been found that the system in which responses were accompanied by phase transition have proven to be gravity-sensitive under microgravity conditions. Such reactions include also the process of photosynthesis which is the main energy production process in plants. In view of the established effects of microgravity and different natural physical fields on biological processes, it has been shown that these processes change due to the absence of initially rigid determination. The established biological effect of physical fields influence on biological processes in organisms is the starting point for elucidating the role of gravity and evolutionary development of various organisms on Earth.

  1. Dynamic light scattering with applications to chemistry, biology, and physics

    CERN Document Server

    Berne, Bruce J

    2000-01-01

    Lasers play an increasingly important role in a variety of detection techniques, making inelastic light scattering a tool of growing value in the investigation of dynamic and structural problems in chemistry, biology, and physics. Until the initial publication of this work, however, no monograph treated the principles behind current developments in the field.This volume presents a comprehensive introduction to the principles underlying laser light scattering, focusing on the time dependence of fluctuations in fluid systems; it also serves as an introduction to the theory of time correlation f

  2. Health: The No-Man's-Land Between Physics and Biology.

    Science.gov (United States)

    Mansfield, Peter J

    2015-10-01

    Health as a positive attribute is poorly understood because understanding requires concepts from physics, of which physicians and other life scientists have a very poor grasp. This paper reviews the physics that bears on biology, in particular complex quaternions and scalar fields, relates these to the morphogenetic fields proposed by biologists, and defines health as an attribute of living action within these fields. The distinction of quality, as juxtaposed with quantity, proves essential. Its basic properties are set out, but a science and mathematics of quality are awaited. The implications of this model are discussed, particularly as proper health enhancement could set a natural limit to demand for, and therefore the cost of, medical services. PMID:26447724

  3. 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.

  4. Improving Performance through Motivation: Teaching Biology Pre-Med Students Physics

    Science.gov (United States)

    Gregg, Elena

    2013-03-01

    Several major factors which affect students' learning are assessed (curricula, different teaching approaches, assessment methods, engagement, and motivation). Direct connection between motivation, attitudes, self-confidence and achievement was established. It was demonstrated that improvement of motivation and self-confidence among students (particularly females, minorities and low achievers) is essential. Effectiveness of different instructional methods and motivational approaches was analyzed and evaluated in algebra-based Physics course for Biology pre-med undergraduate students.

  5. Network biology methods integrating biological data for translational science

    OpenAIRE

    Bebek, Gurkan; Koyutürk, Mehmet; Nathan D Price; Mark R Chance

    2012-01-01

    The explosion of biomedical data, both on the genomic and proteomic side as well as clinical data, will require complex integration and analysis to provide new molecular variables to better understand the molecular basis of phenotype. Currently, much data exist in silos and is not analyzed in frameworks where all data are brought to bear in the development of biomarkers and novel functional targets. This is beginning to change. Network biology approaches, which emphasize the interactions betw...

  6. Ultrasonic methods in solid state physics

    CERN Document Server

    Truell, John; Elbaum, Charles

    1969-01-01

    Ultrasonic Methods in Solid State Physics is devoted to studies of energy loss and velocity of ultrasonic waves which have a bearing on present-day problems in solid-state physics. The discussion is particularly concerned with the type of investigation that can be carried out in the megacycle range of frequencies from a few megacycles to kilomegacycles; it deals almost entirely with short-duration pulse methods rather than with standing-wave methods. The book opens with a chapter on a classical treatment of wave propagation in solids. This is followed by separate chapters on methods and techni

  7. How biological vision succeeds in the physical world.

    Science.gov (United States)

    Purves, Dale; Monson, Brian B; Sundararajan, Janani; Wojtach, William T

    2014-04-01

    Biological visual systems cannot measure the properties that define the physical world. Nonetheless, visually guided behaviors of humans and other animals are routinely successful. The purpose of this article is to consider how this feat is accomplished. Most concepts of vision propose, explicitly or implicitly, that visual behavior depends on recovering the sources of stimulus features either directly or by a process of statistical inference. Here we argue that, given the inability of the visual system to access the properties of the world, these conceptual frameworks cannot account for the behavioral success of biological vision. The alternative we present is that the visual system links the frequency of occurrence of biologically determined stimuli to useful perceptual and behavioral responses without recovering real-world properties. The evidence for this interpretation of vision is that the frequency of occurrence of stimulus patterns predicts many basic aspects of what we actually see. This strategy provides a different way of conceiving the relationship between objective reality and subjective experience, and offers a way to understand the operating principles of visual circuitry without invoking feature detection, representation, or probabilistic inference.

  8. Biological vs. physical mixing effects on benthic food web dynamics.

    Directory of Open Access Journals (Sweden)

    Ulrike Braeckman

    Full Text Available Biological particle mixing (bioturbation and solute transfer (bio-irrigation contribute extensively to ecosystem functioning in sediments where physical mixing is low. Macrobenthos transports oxygen and organic matter deeper into the sediment, thereby likely providing favourable niches to lower trophic levels (i.e., smaller benthic animals such as meiofauna and bacteria and thus stimulating mineralisation. Whether this biological transport facilitates fresh organic matter assimilation by the metazoan lower part of the food web through niche establishment (i.e., ecosystem engineering or rather deprives them from food sources, is so far unclear. We investigated the effects of the ecosystem engineers Lanice conchilega (bio-irrigator and Abra alba (bioturbator compared to abiotic physical mixing events on survival and food uptake of nematodes after a simulated phytoplankton bloom. The (13C labelled diatom Skeletonema costatum was added to 4 treatments: (1 microcosms containing the bioturbator, (2 microcosms containing the bio-irrigator, (3 control microcosms and (4 microcosms with abiotic manual surface mixing. Nematode survival and subsurface peaks in nematode density profiles were most pronounced in the bio-irrigator treatment. However, nematode specific uptake (Δδ(13C of the added diatoms was highest in the physical mixing treatment, where macrobenthos was absent and the diatom (13C was homogenised. Overall, nematodes fed preferentially on bulk sedimentary organic material rather than the added diatoms. The total C budget (µg C m(-2, which included TO(13C remaining in the sediment, respiration, nematode and macrobenthic uptake, highlighted the limited assimilation by the metazoan benthos and the major role of bacterial respiration. In summary, bioturbation and especially bio-irrigation facilitated the lower trophic levels mainly over the long-term through niche establishment. Since the freshly added diatoms represented only a limited food

  9. Biological vs. physical mixing effects on benthic food web dynamics.

    Science.gov (United States)

    Braeckman, Ulrike; Provoost, Pieter; Moens, Tom; Soetaert, Karline; Middelburg, Jack J; Vincx, Magda; Vanaverbeke, Jan

    2011-01-01

    Biological particle mixing (bioturbation) and solute transfer (bio-irrigation) contribute extensively to ecosystem functioning in sediments where physical mixing is low. Macrobenthos transports oxygen and organic matter deeper into the sediment, thereby likely providing favourable niches to lower trophic levels (i.e., smaller benthic animals such as meiofauna and bacteria) and thus stimulating mineralisation. Whether this biological transport facilitates fresh organic matter assimilation by the metazoan lower part of the food web through niche establishment (i.e., ecosystem engineering) or rather deprives them from food sources, is so far unclear. We investigated the effects of the ecosystem engineers Lanice conchilega (bio-irrigator) and Abra alba (bioturbator) compared to abiotic physical mixing events on survival and food uptake of nematodes after a simulated phytoplankton bloom. The (13)C labelled diatom Skeletonema costatum was added to 4 treatments: (1) microcosms containing the bioturbator, (2) microcosms containing the bio-irrigator, (3) control microcosms and (4) microcosms with abiotic manual surface mixing. Nematode survival and subsurface peaks in nematode density profiles were most pronounced in the bio-irrigator treatment. However, nematode specific uptake (Δδ(13)C) of the added diatoms was highest in the physical mixing treatment, where macrobenthos was absent and the diatom (13)C was homogenised. Overall, nematodes fed preferentially on bulk sedimentary organic material rather than the added diatoms. The total C budget (µg C m(-2)), which included TO(13)C remaining in the sediment, respiration, nematode and macrobenthic uptake, highlighted the limited assimilation by the metazoan benthos and the major role of bacterial respiration. In summary, bioturbation and especially bio-irrigation facilitated the lower trophic levels mainly over the long-term through niche establishment. Since the freshly added diatoms represented only a limited food source

  10. Mathematical methods for physical and analytical chemistry

    CERN Document Server

    Goodson, David Z

    2011-01-01

    Mathematical Methods for Physical and Analytical Chemistry presents mathematical and statistical methods to students of chemistry at the intermediate, post-calculus level. The content includes a review of general calculus; a review of numerical techniques often omitted from calculus courses, such as cubic splines and Newton's method; a detailed treatment of statistical methods for experimental data analysis; complex numbers; extrapolation; linear algebra; and differential equations. With numerous example problems and helpful anecdotes, this text gives chemistry students the mathematical

  11. Physics, biology and the origin of life: the physicians' view.

    Science.gov (United States)

    Goodman, Geoffrey; Gershwin, M Eric

    2011-12-01

    Physicians have a great interest in discussions of life and its origin, including life's persistence through successive cycles of self-replication under extreme climatic and man-made trials and tribulations. We review here the fundamental processes that, contrary to human intuition, life may be seen heuristically as an ab initio, fundamental process at the interface between the complementary forces of gravitation and quantum mechanics. Analogies can predict applications of quantum mechanics to human physiology in addition to that already being applied, in particular to aspects of brain activity and pathology. This potential will also extend eventually to, for example, autoimmunity, genetic selection and aging. We present these thoughts in perspective against a background of changes in some physical fundamentals of science, from the earlier times of the natural philosophers of medicine to the technological medical gurus of today. Despite the enormous advances in medical science, including integration of technological changes that have led to the newer clinical applications of magnetic resonance imaging and PET scans and of computerized drug design, there is an intellectual vacuum as to how the physics of matter became translated to the biology of life. The essence and future of medicine continue to lie in cautious, systematic and ethically bound practice and scientific research based on fundamental physical laws accepted as true until proven false.

  12. Advances in Physical and Biological Radiation Detectors. Proceedings of a Symposium on New Developments in Physical and Biological Radiation Detectors

    International Nuclear Information System (INIS)

    Radiation dosimetry is a fundamental part of all radiation protection work. The measurements are made with a variety of instruments, and health physicists, after professional interpretation of the data, can assess the levels of exposure which might be encountered in a given area or the individual doses received by workers, visitors and others at places where the possibility of radiation exposure exists. The types of radiation concerned here are photon radiations, ranging from soft X-rays to gamma rays, and particulate radiations such as β-rays, α-particles, protons, neutrons and fission fragments. The type of technique used depends not only on the type of radiation but also on such factors as whether the radiation is from a source internal or external to the body. Radiation dosimetry is not only used at nuclear facilities; it has diverse applications, for example in determining doses when radiation sources are employed for medical diagnostics and therapy, in safeguarding workers in any industry where isotopes are used, and in assessing the effect of both naturally occurring and man-made radiations on the general public and the environment. The advances of modern technology have increased the variety of sources; an example can be given from colour television, where the high potential necessary in certain colour cathode-ray tubes generates a non-negligible amount of X-rays. The Symposium on New Developments in Physical and Biological Radiation Detectors was one of a continuing series of meetings in which the International Atomic Energy Agency furthers the exchange of information on all aspects of personnel and area dosimetry. The Symposium was devoted in particular to a study of the dose meters themselves - their radiation-sensitive elements (both physical and biological),their instrumentation, and calibration and standardization. Several speakers suggested that the situation in the standardization and calibration of measuring equipment and sources was

  13. Advanced analysis methods in particle physics

    Energy Technology Data Exchange (ETDEWEB)

    Bhat, Pushpalatha C.; /Fermilab

    2010-10-01

    Each generation of high energy physics experiments is grander in scale than the previous - more powerful, more complex and more demanding in terms of data handling and analysis. The spectacular performance of the Tevatron and the beginning of operations of the Large Hadron Collider, have placed us at the threshold of a new era in particle physics. The discovery of the Higgs boson or another agent of electroweak symmetry breaking and evidence of new physics may be just around the corner. The greatest challenge in these pursuits is to extract the extremely rare signals, if any, from huge backgrounds arising from known physics processes. The use of advanced analysis techniques is crucial in achieving this goal. In this review, I discuss the concepts of optimal analysis, some important advanced analysis methods and a few examples. The judicious use of these advanced methods should enable new discoveries and produce results with better precision, robustness and clarity.

  14. Biological and physical conditions of macroinvertebrates in reference lowland streams

    Science.gov (United States)

    de Brouwer, Jan; Eekhout, Joris; Verdonschot, Piet

    2016-04-01

    Channelisation measures taken halfway the 20th century have had destructive consequences for the diversity of the ecology in the majority of the lowland streams in countries such as the Netherlands. Currently, stream restoration measures are being implemented in these degraded lowland streams, where design principles are often based on outdated relationships between biological and physical conditions. Little is known about the reference conditions in these streams. Therefore, the aim of this research is to quantify the relationships between biological and physical conditions of macroinvertebrates in reference lowland streams. The research was conducted in four near-natural lowland streams in Central Poland. Field data were obtained during a field campaign in 2011. The following data were obtained in a 50-m reach in each of the four streams: macroinvertebrate sampling, spatial habitat patterns, bathymetry, and flow-velocity. Furthermore, water level, light sensitivity and temperature sensors were installed to obtain the temporal dynamic of these streams. Macroinvertebrates were sampled in 9 different habitat types, i.e. sand, gravel, fine organic matter, stones, branches, leaves, silt, vegetation, and wood. Macroinvertebrates were determined to the highest taxonomic level possible. Data from the bathymetrical surveys were interpolated on a grid and bathymetrical metrics were determined. Flow velocity measurements were related to habitats and flow velocity metrics were determined. Analysis of the data shows that flow conditions vary among the different habitat, with a gradient from hard substrates towards soft substrates. Furthermore, the data show that stream as a unit best explains species composition, but also specific habitat conditions, such as substrate type and flow velocity, correlate with species composition. More specific, the data shows a strong effect of wood on species composition. These findings may have implications for stream restoration design, which

  15. Physical acoustics v.8 principles and methods

    CERN Document Server

    Mason, Warren P

    1971-01-01

    Physical Acoustics: Principles and Methods, Volume VIII discusses a number of themes on physical acoustics that are divided into seven chapters. Chapter 1 describes the principles and applications of a tool for investigating phonons in dielectric crystals, the spin phonon spectrometer. The next chapter discusses the use of ultrasound in investigating Landau quantum oscillations in the presence of a magnetic field and their relation to the strain dependence of the Fermi surface of metals. The third chapter focuses on the ultrasonic measurements that are made by pulsing methods with velo

  16. Geometric Methods in Physics : XXXIII Workshop

    CERN Document Server

    Bieliavsky, Pierre; Odzijewicz, Anatol; Schlichenmaier, Martin; Voronov, Theodore

    2015-01-01

    This book presents a selection of papers based on the XXXIII Białowieża Workshop on Geometric Methods in Physics, 2014. The Białowieża Workshops are among the most important meetings in the field and attract researchers from both mathematics and physics. The articles gathered here are mathematically rigorous and have important physical implications, addressing the application of geometry in classical and quantum physics. Despite their long tradition, the workshops remain at the cutting edge of ongoing research. For the last several years, each Białowieża Workshop has been followed by a School on Geometry and Physics, where advanced lectures for graduate students and young researchers are presented; some of the lectures are reproduced here. The unique atmosphere of the workshop and school is enhanced by its venue, framed by the natural beauty of the Białowieża forest in eastern Poland. The volume will be of interest to researchers and graduate students in mathematical physics, theoretical physics and m...

  17. Experimental Method to Determine Some Physical Properties in Physics Classes

    Directory of Open Access Journals (Sweden)

    Luiz Fernando Pires

    2015-10-01

    Full Text Available ABSTRACT Particle density, gravimetric and volumetric water contents and porosity are important basic concepts to characterize porous systems such as soils. This paper presents a proposal of an experimental method to measure these physical properties, applicable in experimental physics classes, in porous media samples consisting of spheres with the same diameter (monodisperse medium and with different diameters (polydisperse medium. Soil samples are not used given the difficulty of working with this porous medium in laboratories dedicated to teaching basic experimental physics. The paper describes the method to be followed and results of two case studies, one in monodisperse medium and the other in polydisperse medium. The particle density results were very close to theoretical values for lead spheres, whose relative deviation (RD was -2.9 % and +0.1 % RD for the iron spheres. The RD of porosity was also low: -3.6 % for lead spheres and -1.2 % for iron spheres, in the comparison of procedures – using particle and porous medium densities and saturated volumetric water content – and monodisperse and polydisperse media.

  18. Evaluation of conformal radiotherapy techniques through physics and biologic criteria

    International Nuclear Information System (INIS)

    In the fight against cancer, different irradiation techniques have been developed based on technological advances and aiming to optimize the elimination of tumor cells with the lowest damage to healthy tissues. The radiotherapy planning goal is to establish irradiation technical parameters in order to achieve the prescribed dose distribution over the treatment volumes. While dose prescription is based on radiosensitivity of the irradiated tissues, the physical calculations on treatment planning take into account dosimetric parameters related to the radiation beam and the physical characteristics of the irradiated tissues. To incorporate tissue's radiosensitivity into radiotherapy planning calculations can help particularize treatments and establish criteria to compare and elect radiation techniques, contributing to the tumor control and the success of the treatment. Accordingly, biological models of cellular response to radiation have to be well established. This work aimed to study the applicability of using biological models in radiotherapy planning calculations to aid evaluating radiotherapy techniques. Tumor control probability (TCP) was studied for two formulations of the linear-quadratic model, with and without repopulation, as a function of planning parameters, as dose per fraction, and of radiobiological parameters, as the α/β ratio. Besides, the usage of biological criteria to compare radiotherapy techniques was tested using a prostate planning simulated with Monte Carlo code PENELOPE. Afterwards, prostate planning for five patients from the Hospital das Clinicas da Faculdade de Medicina de Ribeirao Preto, USP, using three different techniques were compared using the tumor control probability. In that order, dose matrices from the XiO treatment planning system were converted to TCP distributions and TCP-volume histograms. The studies performed allow the conclusions that radiobiological parameters can significantly influence tumor control

  19. Circulatory bubble dynamics: from physical to biological aspects.

    Science.gov (United States)

    Papadopoulou, Virginie; Tang, Meng-Xing; Balestra, Costantino; Eckersley, Robert J; Karapantsios, Thodoris D

    2014-04-01

    Bubbles can form in the body during or after decompression from pressure exposures such as those undergone by scuba divers, astronauts, caisson and tunnel workers. Bubble growth and detachment physics then becomes significant in predicting and controlling the probability of these bubbles causing mechanical problems by blocking vessels, displacing tissues, or inducing an inflammatory cascade if they persist for too long in the body before being dissolved. By contrast to decompression induced bubbles whose site of initial formation and exact composition are debated, there are other instances of bubbles in the bloodstream which are well-defined. Gas emboli unwillingly introduced during surgical procedures and ultrasound microbubbles injected for use as contrast or drug delivery agents are therefore also discussed. After presenting the different ways that bubbles can end up in the human bloodstream, the general mathematical formalism related to the physics of bubble growth and detachment from decompression is reviewed. Bubble behavior in the bloodstream is then discussed, including bubble dissolution in blood, bubble rheology and biological interactions for the different cases of bubble and blood composition considered.

  20. Biological methods of dye removal from textile effluents - A review

    Directory of Open Access Journals (Sweden)

    Archna *

    2012-08-01

    Full Text Available Textile dyes are molecules designed to impart permanent colours to textile fabrics. They pose an environmental problem due to their toxicity and decrease the aesthetic value of water bodies into which they are discharged. Current physico-chemical technologies for dye removal cannot remove all classes of dyes, and two or more technologies are usually combined to achieve satisfactory decolourisation efficiencies. Direct biological treatment using fungi or bacteria can also be employed, but nutritional and physiological requirements of microorganisms put constraints on the applicability of such bioremediation processes. The search for efficient and green oxidation technologies has increased the interest in the use of enzymes to replace the conventional non-biological methods. Among the different existing oxidant enzymes, laccase (benzenediol:oxygen oxidoreductases; EC 1.10.3.2 has been the subject of intensive research in the past few decades due to its low substrate specificity. Enzymatic treatment using laccase can be simpler and much more efficient than the traditional physical or chemical treatments. This paper reviews conventional biological processes as well as  laccase-based processes might replace the traditionally energy intensive and water-consuming chemical treatment operations in the textile industry. Keywords: Dyes, Decolourisation, Green Oxidation, Laccase, Textile industry  

  1. Physics and mathematical tools methods and examples

    CERN Document Server

    Alastuey, Angel; Magro, Marc; Pujol, Pierre

    2016-01-01

    This book presents mathematical methods and tools which are useful for physicists and engineers: response functions, Kramers-Kronig relations, Green's functions, saddle point approximation. The derivations emphasize the underlying physical arguments and interpretations without any loss of rigor. General introductions describe the main features of the methods, while connections and analogies between a priori different problems are discussed. They are completed by detailed applications in many topics including electromagnetism, hydrodynamics, statistical physics, quantum mechanics, etc. Exercises are also proposed, and their solutions are sketched. A self-contained reading of the book is favored by avoiding too technical derivations, and by providing a short presentation of important tools in the appendices. It is addressed to undergraduate and graduate students in physics, but it can also be used by teachers, researchers and engineers.

  2. Application of continuation methods in physical oceanography

    NARCIS (Netherlands)

    Katsman, C.A.; Dijkstra, H.A.; Schmeits, M.J.

    2001-01-01

    A specific example will be considered in which continuation methods are used to study fundamental problems in physical oceanography.The separation be- havior of the Gulf Stream in the North Atlantic is a long standing problem in dynamical oceanography,with state-of-the-art ocean models still having

  3. Applying appropriates methods for teaching cell biology

    OpenAIRE

    Stavreva Veselinovska, Snezana; Koleva Gudeva, Liljana; Djokic, Milena

    2011-01-01

    Cell biology is an important basic subject of modern life sciences, consisting of fundamental life activities of the cell at the microscopic, sub microscopic and molecular levels. The cell is the basic unit of living things, with all of the activities of life taking place in the cell and with is eases also due to abnormal changes of cells. With the current framework of teaching quality reform in higher education, this paper will review the current curriculum of a cell biology course and the w...

  4. Methods for analysis of fluoroquinolones in biological fluids

    Science.gov (United States)

    Methods for analysis of 10 selected fluoroquinolone antibiotics in biological fluids are reviewed. Approaches for sample preparation, detection methods, limits of detection and quantitation and recovery information are provided for both single analyte and multi-analyte fluoroquinolone methods....

  5. Evaluation of methods to assess physical activity

    Science.gov (United States)

    Leenders, Nicole Y. J. M.

    Epidemiological evidence has accumulated that demonstrates that the amount of physical activity-related energy expenditure during a week reduces the incidence of cardiovascular disease, diabetes, obesity, and all-cause mortality. To further understand the amount of daily physical activity and related energy expenditure that are necessary to maintain or improve the functional health status and quality of life, instruments that estimate total (TDEE) and physical activity-related energy expenditure (PAEE) under free-living conditions should be determined to be valid and reliable. Without evaluation of the various methods that estimate TDEE and PAEE with the doubly labeled water (DLW) method in females there will be eventual significant limitations on assessing the efficacy of physical activity interventions on health status in this population. A triaxial accelerometer (Tritrac-R3D, (TT)), an uniaxial (Computer Science and Applications Inc., (CSA)) activity monitor, a Yamax-Digiwalker-500sp°ler , (YX-stepcounter), by measuring heart rate responses (HR method) and a 7-d Physical Activity Recall questionnaire (7-d PAR) were compared with the "criterion method" of DLW during a 7-d period in female adults. The DLW-TDEE was underestimated on average 9, 11 and 15% using 7-d PAR, HR method and TT. The underestimation of DLW-PAEE by 7-d PAR was 21% compared to 47% and 67% for TT and YX-stepcounter. Approximately 56% of the variance in DLW-PAEE*kgsp{-1} is explained by the registration of body movement with accelerometry. A larger proportion of the variance in DLW-PAEE*kgsp{-1} was explained by jointly incorporating information from the vertical and horizontal movement measured with the CSA and Tritrac-R3D (rsp2 = 0.87). Although only a small amount of variance in DLW-PAEE*kgsp{-1} is explained by the number of steps taken per day, because of its low cost and ease of use, the Yamax-stepcounter is useful in studies promoting daily walking. Thus, studies involving the

  6. Methods in molecular biology: plant cytogenetics

    Science.gov (United States)

    Cytogenetic studies have contributed greatly to our understanding of genetics, biology, reproduction, and evolution. From early studies in basic chromosome behavior the field has expanded enabling whole genome analysis to the manipulation of chromosomes and their organization. This book covers a ran...

  7. When physics is not "just physics": complexity science invites new measurement frames for exploring the physics of cognitive and biological development.

    Science.gov (United States)

    Kelty-Stephen, Damian; Dixon, James A

    2012-01-01

    The neurobiological sciences have struggled to resolve the physical foundations for biological and cognitive phenomena with a suspicion that biological and cognitive systems, capable of exhibiting and contributing to structure within themselves and through their contexts, are fundamentally distinct or autonomous from purely physical systems. Complexity science offers new physics-based approaches to explaining biological and cognitive phenomena. In response to controversy over whether complexity science might seek to "explain away" biology and cognition as "just physics," we propose that complexity science serves as an application of recent advances in physics to phenomena in biology and cognition without reducing or undermining the integrity of the phenomena to be explained. We highlight that physics is, like the neurobiological sciences, an evolving field and that the threat of reduction is overstated. We propose that distinctions between biological and cognitive systems from physical systems are pretheoretical and thus optional. We review our own work applying insights from post-classical physics regarding turbulence and fractal fluctuations to the problems of developing cognitive structure. Far from hoping to reduce biology and cognition to "nothing but" physics, we present our view that complexity science offers new explanatory frameworks for considering physical foundations of biological and cognitive phenomena.

  8. Discrete mathematics, discrete physics and numerical methods

    Directory of Open Access Journals (Sweden)

    Felice Iavernaro

    2007-12-01

    Full Text Available Discrete mathematics has been neglected for a long time. It has been put in the shade by the striking success of continuous mathematics in the last two centuries, mainly because continuous models in physics proved very reliable, but also because of the greater difficulty in dealing with it. This perspective has been rapidly changing in the last years owing to the needs of the numerical analysis and, more recently, of the so called discrete physics. In this paper, starting from some sentences of Fichera about discrete and continuous world, we shall present some considerations about discrete phenomena which arise when designing numerical methods or discrete models for some classical physical problems.

  9. Mathematical methods in engineering and physics

    CERN Document Server

    Felder, Gary N

    2016-01-01

    This text is intended for the undergraduate course in math methods, with an audience of physics and engineering majors. As a required course in most departments, the text relies heavily on explained examples, real-world applications and student engagement. Supporting the use of active learning, a strong focus is placed upon physical motivation combined with a versatile coverage of topics that can be used as a reference after students complete the course. Each chapter begins with an overview that includes a list of prerequisite knowledge, a list of skills that will be covered in the chapter, and an outline of the sections. Next comes the motivating exercise, which steps the students through a real-world physical problem that requires the techniques taught in each chapter.

  10. A General Symbolic Method with Physical Applications

    CERN Document Server

    Smith, G M

    2000-01-01

    A solution to the problem of unifying the General Relativistic and Quantum Theoretical formalisms is given which introduces a new non-axiomatic symbolic method and an algebraic generalization of the Calculus to non-finite symbolisms without reference to the concept of a limit. An essential feature of the non-axiomatic method is the inadequacy of any (finite) statements: Identifying this aspect of the theory with the "existence of an external physical reality" both allows for the consistency of the method with the results of experiments and avoids the so-called "measurement problem" of quantum theory.

  11. PHYSICAL METHODS IN AGRO-FOOD CHAIN

    Directory of Open Access Journals (Sweden)

    ANNA ALADJADJIYAN

    2009-06-01

    Full Text Available Chemical additives (fertilizers and plant protection preparations are largely used for improving the production yield of food produce. Their application often causes the contamination of raw materials for food production, which can be dangerous for the health of consumers. Alternative methods are developed and implemented to improve and ensure the safety of on-farm production. The substitution of chemical fertilizers and soil additives with alternative treatment methods, such as irradiation, ultrasound and the use of electromagnetic energy are discussed. Successful application of physical methods in different stages of food-preparation is recommended.

  12. Biologic: Gene circuits and feedback in an introductory physics sequence for biology and premedical students

    CERN Document Server

    Cahn, S B

    2013-01-01

    Two synthetic gene circuits -- the genetic toggle switch and the repressilator -- are analyzed quantitatively and discussed in the context of an educational module on gene circuits and feedback that constitutes the final topic of a year-long introductory physics sequence, aimed at biology and premedical undergraduate students. The genetic toggle switch consists of two genes, each of whose protein product represses the other's expression, while the repressilator consists of three genes, each of whose protein product represses the next gene's expression. Analytic, numerical, and electronic treatments of the genetic toggle switch shows that this gene circuit realizes bistability. A simplified treatment of the repressilator reveals that this circuit can realize sustained oscillations. In both cases, a "phase diagram" is obtained, that specifies the region of parameter space in which bistability or oscillatory behavior, respectively, occurs.

  13. Mathematical Methods for Geophysics and Space Physics

    Science.gov (United States)

    Newman, William I.

    2016-05-01

    Graduate students in the natural sciences - including not only geophysics and space physics but also atmospheric and planetary physics, ocean sciences, and astronomy - need a broad-based mathematical toolbox to facilitate their research. In addition, they need to survey a wider array of mathematical methods that, while outside their particular areas of expertise, are important in related ones. While it is unrealistic to expect them to develop an encyclopedic knowledge of all the methods that are out there, they need to know how and where to obtain reliable and effective insights into these broader areas. Here at last is a graduate textbook that provides these students with the mathematical skills they need to succeed in today's highly interdisciplinary research environment. This authoritative and accessible book covers everything from the elements of vector and tensor analysis to ordinary differential equations, special functions, and chaos and fractals. Other topics include integral transforms, complex analysis, and inverse theory; partial differential equations of mathematical geophysics; probability, statistics, and computational methods; and much more. Proven in the classroom, Mathematical Methods for Geophysics and Space Physics features numerous exercises throughout as well as suggestions for further reading. * Provides an authoritative and accessible introduction to the subject * Covers vector and tensor analysis, ordinary differential equations, integrals and approximations, Fourier transforms, diffusion and dispersion, sound waves and perturbation theory, randomness in data, and a host of other topics * Features numerous exercises throughout * Ideal for students and researchers alike * An online illustration package is available to professors

  14. Including physical and biological soil crusts properties in gully prediction

    Science.gov (United States)

    Gay, A.; Cerdan, O.; Desprats, J. F.; Malam Issa, O.; Valentin, C.; Rajot, J. L.; Descroix, L.

    2012-04-01

    In Sahelian region, concentrated overland flow often leads to the formation of gullies. Although this phenomenon is widespread in those regions, research efforts are still needed to be able to model their spatial distribution and the role of the different parameters involved in this process. In this context, the objectives of this study are twofold. The first step is to investigate to what extent the role of Sahelian soil surface crusts (biological and/or physical) on soil surface infiltrability and detachment affect the formation and development of gullies. The second step is to integrate the results of these investigations in a simple geomorphological model to predict gully location at the watershed scale. The evaluation of the resulting model on two test catchments demonstrated that the integration of soil crusting is a key parameter to insure the quality and relevance of gully prediction. The model is able to distinguish between two types of gullies, those whose width range between 0.5m and 4m and those whose width exceeds 4m. The application of the model at the regional scale is however limited by the resolution of available regional digital elevation model (i.e. the 90m resolution SRTM DEM) which only permits the prediction of large gullies (width > 4m).

  15. Improved core physics test method at HZP

    International Nuclear Information System (INIS)

    In case of 3 loop nuclear plants in Korea, the error of control rod worth measurement which is one item of core physics test at HZP is increased considerably compared with previous cycle data since loading of V5H. The cause of error increase of control rod worth and the reactivity effect according to flux and background level are analyzed. The root cause of error increment is that the flux level which is detected by excore detector is decreased by applying low-low leakage or ultra low leakage loading pattern and the background level is increased due to reduction of planned outage and longer fuel cycle length. In current test method, it is limited to decrease or eliminate the effect of background. This is confirmed based on the data of physics test for Ulchin 1 cycle 9. In order to perform credible core physics test at HZP at this circumstance, the elimination of such background effect is reviewed and setup by adjusting electrometer used in reactivity computer by compensating the amount of background level. Therefore the improved core physics test method to perform the credible test at HZP is setup by this study regardless of any kind of loading pattern and cycle scheme

  16. Energy and Matter: Differences in Discourse in Physical and Biological Sciences Can Be Confusing for Introductory Biology Students

    Science.gov (United States)

    Hartley, Laurel M.; Momsen, Jennifer; Maskiewicz, April; D'Avanzo, Charlene

    2012-01-01

    Biology majors often take introductory biology, chemistry, and physics courses during their first two years of college. The various and sometimes conflicting discourse about and explanations of matter and energy in these courses may contribute to confusion and alternative conceptions (those that differ from scientific consensus) in biology…

  17. Physics Methods for the Simulation of Photoionisation

    CERN Document Server

    Basaglia, Tullio; Han, Min Cheol; Hoff, Gabriela; Kim, Chan Hyeong; Kim, Han Sung; Pia, Maria Grazia; Saracco, Paolo

    2013-01-01

    Several physics methods for the simulation of the photoelectric effect are quantitatively evaluated with respect to a large collection of experimental data retrieved from the literature. They include theoretical and empirical calculations of total and partial cross sections, and calculations of the photoelectron angular distribution. Some of these models are currently implemented in general purpose Monte Carlo systems; some have been implemented and evaluated for possible use in Monte Carlo particle transport for the first time in this study.

  18. Geometric Methods in Physics : XXXII Workshop

    CERN Document Server

    Bieliavsky, Pierre; Odesskii, Alexander; Odzijewicz, Anatol; Schlichenmaier, Martin; Voronov, Theodore; Geometric Methods in Physics

    2014-01-01

    The Białowieża Workshops on Geometric Methods in Physics, which are hosted in the unique setting of the Białowieża natural forest in Poland, are among the most important meetings in the field. Every year some 80 to 100 participants from both the mathematics and physics world join to discuss new developments and to exchange ideas. The current volume was produced on the occasion of the 32nd meeting in 2013. It is now becoming a tradition that the Workshop is followed by a School on Geometry and Physics, which consists of advanced lectures for graduate students and young researchers. Selected speakers at the 2013 Workshop were asked to contribute to this book, and their work was supplemented by additional review articles. The selection shows that, despite its now long tradition, the workshop remains at the cutting edge of research. The 2013 Workshop also celebrated the 75th birthday of Daniel Sternheimer, and on this occasion the discussion mainly focused on his contributions to mathematical physics such as ...

  19. Apparatus and Methods for Manipulation and Optimization of Biological Systems

    Science.gov (United States)

    Ho, Chih-Ming (Inventor); Wong, Pak Kin (Inventor); Sun, Ren (Inventor); Yu, Fuqu (Inventor)

    2014-01-01

    The invention provides systems and methods for manipulating biological systems, for example to elicit a more desired biological response from a biological sample, such as a tissue, organ, and/or a cell. In one aspect, the invention operates by efficiently searching through a large parametric space of stimuli and system parameters to manipulate, control, and optimize the response of biological samples sustained in the system. In one aspect, the systems and methods of the invention use at least one optimization algorithm to modify the actuator's control inputs for stimulation, responsive to the sensor's output of response signals. The invention can be used, e.g., to optimize any biological system, e.g., bioreactors for proteins, and the like, small molecules, polysaccharides, lipids, and the like. Another use of the apparatus and methods includes is for the discovery of key parameters in complex biological systems.

  20. PHYSICAL METHODS OF PRODUCTION AND MODIFICATION OF BIOPOLYMER MATRIXES

    Directory of Open Access Journals (Sweden)

    V. N. Vasilets

    2009-01-01

    Full Text Available The conditions which are necessary for successful functioning of implants based on polymer matrix having the structure of a chaotic three-dimensional grid are analyzed. The investigation is aimed on the development of techniques for manufacturing the volumetric structured matrixes from polymer biocompatible materials and techniques of implant creation by electro-physical surface treatment of the matrix structure with the purpose of management of their biochemical and biological activity. Morphological characteristics of the matrixes, produced by the method of freeze-drying of the polymeric gel are reported. The complex energy system created for volumetric discharges generation in the structured heterogeneous substances is described. 

  1. Quantum integrable systems. Quantitative methods in biology

    CERN Document Server

    Feverati, Giovanni

    2011-01-01

    Quantum integrable systems have very strong mathematical properties that allow an exact description of their energetic spectrum. From the Bethe equations, I formulate the Baxter "T-Q" relation, that is the starting point of two complementary approaches based on nonlinear integral equations. The first one is known as thermodynamic Bethe ansatz, the second one as Kl\\"umper-Batchelor-Pearce-Destri- de Vega. I show the steps toward the derivation of the equations for some of the models concerned. I study the infrared and ultraviolet limits and discuss the numerical approach. Higher rank integrals of motion can be obtained, so gaining some control on the eigenvectors. After, I discuss the Hubbard model in relation to the N = 4 supersymmetric gauge theory. The Hubbard model describes hopping electrons on a lattice. In the second part, I present an evolutionary model based on Turing machines. The goal is to describe aspects of the real biological evolution, or Darwinism, by letting evolve populations of algorithms. ...

  2. 8. International Conference on Pulse Investigations in Chemistry, Biology and Physics - PULS'2008. Abstracts

    International Nuclear Information System (INIS)

    The Report comprises abstracts of 68 communications (oral and posters) presented during the 8. International Conference on Pulse Investigations in Chemistry, Biology and Physics - PULS'2008, held on September 6 - 12, 2008 in Cracow. Presentations cover a variety of research fields representing different fields of pulse radiolysis in chemistry, biology and physics

  3. The banker plant method in biological control

    NARCIS (Netherlands)

    Huang, N.; Enkegaard, A.; Osborne, L.S.; Ramakers, P.M.J.; Messelink, G.J.; Pijnakker, J.; Murphy, G.

    2011-01-01

    In the banker plant method, long-lasting rearing units for beneficials are created in the crop by distributing plants infested with herbivores or carrying other food items, such as pollen. The method has been widely investigated over many years and used to aid establishment, development and dispersa

  4. Advanced Systems Biology Methods in Drug Discovery and Translational Biomedicine

    OpenAIRE

    Jun Zou; Ming-Wu Zheng; Gen Li; Zhi-Guang Su

    2013-01-01

    Systems biology is in an exponential development stage in recent years and has been widely utilized in biomedicine to better understand the molecular basis of human disease and the mechanism of drug action. Here, we discuss the fundamental concept of systems biology and its two computational methods that have been commonly used, that is, network analysis and dynamical modeling. The applications of systems biology in elucidating human disease are highlighted, consisting of human disease networ...

  5. Leveraging a relationship with biology to expand a relationship with physics

    Science.gov (United States)

    Sawtelle, Vashti; Turpen, Chandra

    2016-06-01

    This work examines how experiences in one disciplinary domain (biology) can impact the relationship a student builds with another domain (physics). We present a model for disciplinary relationships using the constructs of identity, affect, and epistemology. With these constructs we examine an ethnographic case study of a student who experienced a significant shift in her relationship with physics. We describe how this shift demonstrates (i) a stronger identification with physics, (ii) a more mixed affective stance towards physics, and (iii) more expertlike ways of knowing in physics. We argue that recruiting the student's relationship with biology into experiences of learning physics impacted her relationship with physics as well as her sense of how physics and biology are linked.

  6. [Period-tripling in Multiscale Physical and Biological Events].

    Science.gov (United States)

    Bondar, A T; Fedorov, M V; Kolombet, V A

    2015-01-01

    A recent paper by S.J. Puetz et al. (Chaos, Solitons -& Fractals, v. 62-63, p. 55, 2014) described a fundamental period-tripled model. It involves periods of different astronomical (quasars, Sun), geophysical (geomagnetic, climatic, volcanic) and some biological processes. This work contains statistics for sixteen pairs of a period-tripled sequence. These periods range from -50 years to 1.5 billion years and no signs of the timescale limitations are found. We believe that the universal scope of the fundamental period-tripled model can be used for the development of new methodology of research data analysis: the main idea is that the spectrum of the periods of the studied event should be tested for the similarity with the spectrum of fundamental period-tripling pattern (because of the fundamental nature of the period-tripled model). Using this method, in this study we complement an already described period-tripled model with periods of human memory performance ranging from one minute to one month also adding seven relevant periods/frequencies of the period-tripled model in the range of human hearing. We make a conclusion that these characteristic frequencies may form the basis for music and singing phenomena. The new methodology is particularly appropriate for being applied in medicine and engineering. PMID:26841519

  7. Comparison of Career Concerns among College Women and Men Enrolled in Biological and Physical Sciences

    Science.gov (United States)

    Dodson, Maria

    The underrepresentation of women enrolled in the physical sciences continues to challenge academic leaders despite over 40 years of programming to promote gender equity within these curricula. This study employed a quantitative, causal comparative method to explore if and to what extent career concerns differed among female and male undergraduate physical and biological science students. The theory of planned behavior and life-span, life-space theory served as the theoretical framework for the study. Quantitative survey data were collected from 43 students at four institutions across the United States. The findings indicated that undergraduate women in physical science programs of study had a significantly different level of concern about the Innovating sub-category of the third stage of career development, Maintenance, as compared to undergraduate women in biological science curricula [F(1,33) = 6.244, p = 0.018]. Additionally, there was a statistically significant difference between female undergraduate physical science students and undergraduate male science students in the sub-categories of Implementation [F(1,19) = 7.228, p = 0.015], Advancing [F(1,19) = 11.877, p = 0.003], and Innovating [F(1,19) = 11.782, p = 0.003] within the first three stages of career development (Exploration, Establishment, and Maintenance). The comparative differences among the study groups offers new information about undergraduate career concerns that may contribute to the underrepresentation of women enrolled in the physical sciences. Suggestions for future research and programs within higher education targeted at reducing the career concerns of current and prospective female students in physical science curricula are discussed.

  8. Characterization of Nanomaterials by Physical Methods

    Science.gov (United States)

    Rao, C. N. R.; Biswas, Kanishka

    2009-07-01

    Much progress in nanoscience and nanotechnology has been made in the past few years thanks to the increased availability of sophisticated physical methods to characterize nanomaterials. These techniques include electron microscopy and scanning probe microscopies, in addition to standard techniques such as X-ray and neutron diffraction, X-ray scattering, and various spectroscopies. Characterization of nanomaterials includes the determination not only of size and shape, but also of the atomic and electronic structures and other important properties. In this article we describe some of the important methods employed for characterization of nanostructures, describing a few case studies for illustrative purposes. These case studies include characterizations of Au, ReO3, and GaN nanocrystals; ZnO, Ni, and Co nanowires; inorganic and carbon nanotubes; and two-dimensional graphene.

  9. Breakthrough Propulsion Physics Project: Project Management Methods

    Science.gov (United States)

    Millis, Marc G.

    2004-01-01

    To leap past the limitations of existing propulsion, the NASA Breakthrough Propulsion Physics (BPP) Project seeks further advancements in physics from which new propulsion methods can eventually be derived. Three visionary breakthroughs are sought: (1) propulsion that requires no propellant, (2) propulsion that circumvents existing speed limits, and (3) breakthrough methods of energy production to power such devices. Because these propulsion goals are presumably far from fruition, a special emphasis is to identify credible research that will make measurable progress toward these goals in the near-term. The management techniques to address this challenge are presented, with a special emphasis on the process used to review, prioritize, and select research tasks. This selection process includes these key features: (a) research tasks are constrained to only address the immediate unknowns, curious effects or critical issues, (b) reliability of assertions is more important than the implications of the assertions, which includes the practice where the reviewers judge credibility rather than feasibility, and (c) total scores are obtained by multiplying the criteria scores rather than by adding. Lessons learned and revisions planned are discussed.

  10. Biologically Inspired Optimization Methods An Introduction

    CERN Document Server

    Wahde, M

    2008-01-01

    The advent of rapid, reliable and cheap computing power over the last decades has transformed many, if not most, fields of science and engineering. The multidisciplinary field of optimization is no exception. First of all, with fast computers, researchers and engineers can apply classical optimization methods to problems of larger and larger size. In addition, however, researchers have developed a host of new optimization algorithms that operate in a rather different way than the classical ones, and that allow practitioners to attack optimization problems where the classical methods are either

  11. Nitric oxide methods in seed biology

    Science.gov (United States)

    Nitric oxide (NO) is a gaseous, free radical that is involved in many aspects of plant growth, development, and responses to the environment. Compelling evidence points to a central role for NO in the loss of seed dormancy. NO is highly reactive, toxic at high concentrations, and unstable. Methods f...

  12. Bringing the physical sciences into your cell biology research

    OpenAIRE

    Robinson, Douglas N; Iglesias, Pablo A.

    2012-01-01

    Historically, much of biology was studied by physicists and mathematicians. With the advent of modern molecular biology, a wave of researchers became trained in a new scientific discipline filled with the language of genes, mutants, and the central dogma. These new molecular approaches have provided volumes of information on biomolecules and molecular pathways from the cellular to the organismal level. The challenge now is to determine how this seemingly endless list of components works toget...

  13. Simulations in statistical physics and biology: some applications

    CERN Document Server

    Monsivais-Alonso, M P

    2006-01-01

    One of the most active areas of physics in the last decades has been that of critical phenomena, and Monte Carlo simulations have played an important role as a guide for the validation and prediction of system properties close to the critical points. The kind of phase transitions occurring for the Betts lattice (lattice constructed removing 1/7 of the sites from the triangular lattice) have been studied before with the Potts model for the values q=3, ferromagnetic and antiferromagnetic regime. Here, we add up to this research line the ferromagnetic case for q=4 and 5. In the first case, the critical exponents are estimated for the second order transition, whereas for the latter case the histogram method is applied for the occurring first order transition. Additionally, Domany's Monte Carlo based clustering technique mainly used to group genes similar in their expression levels is reviewed. Finally, a control theory tool --an adaptive observer-- is applied to estimate the exponent parameter involved in the wel...

  14. Register indicators of physical endurance of biological objects when running a treadmill and swimming with weights using computer video markerless tracking

    OpenAIRE

    Datsenko A.V.

    2014-01-01

    Purpose: to study the use of video tracking to assess physical endurance and indicators of biological objects fatigue when running on a treadmill and swimming with the load. Material and methods. Physical endurance evaluated by test facilities for running on a treadmill and swimming with the load. As the object of the studies used laboratory rats. Results. For indicators of physical endurance biological objects isolated areas running track of treadmill and electrical stimulation site, when sw...

  15. Does Taking Physics Pay Off Later in Chemistry and Biology Courses?

    Science.gov (United States)

    Sadler, Philip M.; Tai, R. H.

    2006-12-01

    The relationship between performance of 8474 students enrolled in introductory college biology, chemistry, or physics courses and their prior high school course-taking in physics is investigated in 122 randomly-selected undergraduate classrooms. Employing multiple linear regression, models are constructed that control for variation in student background, socio-economic status, and students' prior achievement in mathematics and English. A small effect size (ES = 0.13 SD, p = 0.01) is found for each year of school coursework in the same subject as a college course in biology, chemistry, or physics. No statistically significant relationship is found (p = 0.05) for any cross-disciplinary preparation, including that of differing amounts of high school physics preparation on college chemistry or biology performance. Our findings do not provide support for the view that students will be better prepared for taking high school chemistry and biology by taking physics in ninth grade.

  16. Development of a General Modeling Framework for Investigating Complex Interactions among Biological and Physical Ecosystem Dynamics

    Science.gov (United States)

    Bennett, C.; Poole, G. C.; Kimball, J. S.; Stanford, J. A.; O'Daniel, S. J.; Mertes, L. A.

    2005-05-01

    Historically, physical scientists have developed models with highly accurate governing equations, while biologists have excelled at abstraction (the strategic simplification of system complexity). These different modeling paradigms yield biological (e.g. food web) and physical (e.g. hydrologic) models that can be difficult to integrate. Complex biological dynamics may be impossible to represent with governing equations. Conversely, physical processes may be oversimplified in biological models. Using agent-based modeling, a technique applied widely in social sciences and economics, we are developing a general modeling system to integrate accurate representations of physical dynamics such as water and heat flux with abstracted biological processes such as nutrient transformations. The modeling system represents an ecosystem as a complex integrated network of intelligent physical and biological "agents" that store, transform, and trade ecosystem resources (e.g., water, heat, nutrients, carbon) using equations that describe either abstracted concepts and/or physical laws. The modular design of the system allows resource submodels to be developed independently and installed into the simulation architecture. The modeling system provides a useful heuristic tool to support integrated physical and biological research topics, such as the influence of hydrologic dynamics and spatio-temporal physical heterogeneity on trophic (food web) dynamics and/or nutrient cycling.

  17. Novel computational biology methods and their applications to drug discovery

    Institute of Scientific and Technical Information of China (English)

    Sharangdhar S. PHATAK; Hoang T. TRAN; Shuxing ZHANG

    2011-01-01

    Computational biology methods are now firmly entrenched in the drug discovery process.These methods focus on modeling and simulations of biological systems to complement and direct conventional experimental approaches.Two important branches of computational biology include protein homology modeling and the computational biophysics method of molecular dynamics.Protein modeling methods attempt to accurately predict three-dimensional (3D) structures of uncrystallized proteins for subsequent structure-based drug design applications.Molecular dynamics methods aim to elucidate the molecular motions of the static representations of crystallized protein structures.In this review we highlight recent novel methodologies in the field of homology modeling and molecular dynamics.Selected drug discovery applications using these methods conclude the review.

  18. 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

  19. Innovative quantum technologies for microgravity fundamental physics and biological research

    Science.gov (United States)

    Kierk, I. K.

    2002-01-01

    This paper presents a new technology program, within the fundamental physics, focusing on four quantum technology areas: quantum atomics, quantum optics, space superconductivity and quantum sensor technology, and quantum field based sensor and modeling technology.

  20. Single Molecule Spectroscopy in Chemistry, Physics and Biology Nobel Symposium

    CERN Document Server

    Gräslund, Astrid; Widengren, Jerker

    2010-01-01

    Written by the leading experts in the field, this book describes the development and current state-of-the-art in single molecule spectroscopy. The application of this technique, which started 1989, in physics, chemistry and biosciences is displayed.

  1. Student views of macroscopic and microscopic energy in physics and biology

    Science.gov (United States)

    Dreyfus, Benjamin W.; Redish, Edward F.; Watkins, Jessica

    2012-02-01

    Energy concepts are fundamental across the sciences, yet these concepts can be fragmented along disciplinary boundaries, rather than integrated into a coherent whole. To teach physics effectively to biology students, we need to understand students' disciplinary perspectives. We present interview data from an undergraduate student who displays multiple stances towards the concept of energy. At times he views energy in macroscopic contexts as a separate entity from energy in microscopic (particularly biological) contexts, while at other times he uses macroscopic physics phenomena as productive analogies for understanding energy in the microscopic biological context, and he reasons about energy transformations between the microscopic and macroscopic scales. This case study displays preliminary evidence for the context dependence of students' ability to translate energy concepts across scientific disciplines. This points to challenges that must be taken into account in developing curricula for biology students that integrate physics and biology concepts.

  2. Progress report, Biology and Health Physics Division, July 1 to September 30, 1975

    International Nuclear Information System (INIS)

    Interim results are reported for research in health physics, i.e. dosimetry, detectors, and monitoring; environmental research (limnology, radionuclide migration and kinetics; population research (radiation carcinogenesis, radiation effects in human populations); and biology (radiobiology). (E.C.B.)

  3. Progress report, Biology and Health Physics Division, October 1 to December 31, 1975

    International Nuclear Information System (INIS)

    Interim research results are reported in health physics (dosimetry, monitoring), environmental research, population research (tumor induction in mammals, human health record linkage), and biology (radiobiology of rodents, bacteria, bacteriophage T4, and insects). (E.C.B.)

  4. Radiation physics, biophysics and radiation biology. Progress report, October 1, 1980-September 30, 1981

    International Nuclear Information System (INIS)

    Separate abstracts were prepared for the 29 papers in this progress report which deal with radiobiological physics, the biological effects of ionizing radiations, and the modification of these effects by chemical and pharmacological agents

  5. Gamification in citizen science: Projects in particle physics and synthetic biology

    OpenAIRE

    Jennett, C.; Iacovides, I.; Skands, P.; Shomar, H.; Cox, A. L.

    2013-01-01

    We present two new citizen cyberscience projects that are being developed in the research fields of Particle Physics and Synthetic Biology, and discuss several issues to be considered in relation to the gamification of these projects.

  6. Current laboratory methods for biological threat agent identification.

    Science.gov (United States)

    Henchal, E A; Teska, J D; Ludwig, G V; Shoemaker, D R; Ezzell, J W

    2001-09-01

    The authors present an integrated approach for the identification of biological threat agents. The methods used have been used extensively in field exercises and during response to incidents of biological terrorism. A diagnostic system, which integrates the clinical diagnosis or medical intelligence with immunodiagnostic tests, rapid gene amplification assays, and standard culture, provides results of the highest quality and confidence. In the future, selected reagents and technologies will be distributed through a network of civilian and military laboratories. PMID:11572145

  7. Mathematical methods in physics distributions, Hilbert space operators, variational methods, and applications in quantum physics

    CERN Document Server

    Blanchard, Philippe

    2015-01-01

    The second edition of this textbook presents the basic mathematical knowledge and skills that are needed for courses on modern theoretical physics, such as those on quantum mechanics, classical and quantum field theory, and related areas.  The authors stress that learning mathematical physics is not a passive process and include numerous detailed proofs, examples, and over 200 exercises, as well as hints linking mathematical concepts and results to the relevant physical concepts and theories.  All of the material from the first edition has been updated, and five new chapters have been added on such topics as distributions, Hilbert space operators, and variational methods.   The text is divided into three main parts. Part I is a brief introduction to distribution theory, in which elements from the theories of ultradistributions and hyperfunctions are considered in addition to some deeper results for Schwartz distributions, thus providing a comprehensive introduction to the theory of generalized functions. P...

  8. Estimating Escherichia coli loads in streams based on various physical, chemical, and biological factors

    OpenAIRE

    Dwivedi, Dipankar; Mohanty, Binayak P.; Lesikar, Bruce J.

    2013-01-01

    Microbes have been identified as a major contaminant of water resources. Escherichia coli (E. coli) is a commonly used indicator organism. It is well recognized that the fate of E. coli in surface water systems is governed by multiple physical, chemical, and biological factors. The aim of this work is to provide insight into the physical, chemical, and biological factors along with their interactions that are critical in the estimation of E. coli loads in surface streams. There are various mo...

  9. Kernel methods for high-dimensional biological data

    OpenAIRE

    Mahammad Beigi, Majid

    2008-01-01

    This thesis addresses the problem of finding robust, fast and precise learning methods for noisy, incomplete high-dimensional biological data by means of so-called kernel methods. Kernel methods are at the heart of many modern machine learning techniques. The intuitive idea behind kernel methods is that the data are nonlinearly mapped into a higher dimensional feature space, related to a nonlinear kernel function. In general, such a procedure has the advantage that inseparable data becomes li...

  10. Methodical Instructions For Solutions of Problems in Nuclear Physics

    OpenAIRE

    Troitskaya, Natalia I.

    2005-01-01

    This is a set of methodical instructions for solutions of problems in Nuclear Physics. It is written on the basis of seminars to the course of lectures on``Nuclear Physics'' delivered at the Physical and Mechanical Faculty of the St. Petersburg State Polytechnic University for the students of the 4th Course in ``Technical Physics'' and ``Medical Physics''. The main aim of these methodical instructions is to develop the experience of students in scientific approaches to solutions of practical ...

  11. Texture analysis methods for the characterisation of biological and medical images

    Directory of Open Access Journals (Sweden)

    Ştefan Ţălu

    2012-06-01

    Full Text Available Adaptations can be extreme in many cases and they help organisms survive in their habitat or ecological niche. These adaptations can affect their anatomy, ethology or physiology. Anatomical adaptations are physical features such as animal's shape, particularities at the skeleton level, texture of exoskeleton, surface of the skin in animals or cuticula in plants etc. The purpose of this paper is to present a synthesis concerning the texture analysis methods used for the characterisation of biological and medical images. Texture analysis methods of biological and medical images provide noninvasive tools that allow biologists, physicians and researchers the early detection and diagnosis of diseases.

  12. Radiation physics, biophysics, and radiation biology. Progress report, December 1, 1993--November 30, 1994

    International Nuclear Information System (INIS)

    Research at the Center for Radiological Research is a blend of physics, chemistry and biology and epitomizes the multidisciplinary approach towards understanding the mechanisms involved in the health problems resulting from human exposure to ionizing radiations. To an increasing extent, the focus of attention is on biochemistry and the application of the techniques of molecular biology to the problems of radiation biology. Research highlights from the past year are briefly described

  13. Radiation physics, biophysics, and radiation biology. Progress report, December 1, 1993--November 30, 1994

    Energy Technology Data Exchange (ETDEWEB)

    Hall, E.J.; Zaider, M.

    1994-05-01

    Research at the Center for Radiological Research is a blend of physics, chemistry and biology and epitomizes the multidisciplinary approach towards understanding the mechanisms involved in the health problems resulting from human exposure to ionizing radiations. To an increasing extent, the focus of attention is on biochemistry and the application of the techniques of molecular biology to the problems of radiation biology. Research highlights from the past year are briefly described.

  14. Alternative statistical methods for cytogenetic radiation biological dosimetry

    CERN Document Server

    Fornalski, Krzysztof Wojciech

    2014-01-01

    The paper presents alternative statistical methods for biological dosimetry, such as the Bayesian and Monte Carlo method. The classical Gaussian and robust Bayesian fit algorithms for the linear, linear-quadratic as well as saturated and critical calibration curves are described. The Bayesian model selection algorithm for those curves is also presented. In addition, five methods of dose estimation for a mixed neutron and gamma irradiation field were described: two classical methods, two Bayesian methods and one Monte Carlo method. Bayesian methods were also enhanced and generalized for situations with many types of mixed radiation. All algorithms were presented in easy-to-use form, which can be applied to any computational programming language. The presented algorithm is universal, although it was originally dedicated to cytogenetic biological dosimetry of victims of a nuclear reactor accident.

  15. The application of statistical physics to evolutionary biology

    OpenAIRE

    Sella, Guy; Hirsh, Aaron E

    2005-01-01

    A number of fundamental mathematical models of the evolutionary process exhibit dynamics that can be difficult to understand analytically. Here we show that a precise mathematical analogy can be drawn between certain evolutionary and thermodynamic systems, allowing application of the powerful machinery of statistical physics to analysis of a family of evolutionary models. Analytical results that follow directly from this approach include the steady-state distribution of fixed genotypes and th...

  16. Higher order chromatin structure: bridging physics and biology

    OpenAIRE

    Fudenberg, Geoffrey; Mirny, Leonid A.

    2012-01-01

    Recent advances in microscopy and genomic techniques have provided new insight into spatial chromatin organization inside of the nucleus. In particular, chromosome conformation capture data has highlighted the relevance of polymer physics for high-order chromatin organization. In this context, we review basic polymer states, discuss how an appropriate polymer model can be determined from experimental data, and examine the success and limitations of various polymer models of high-order interph...

  17. Underwater linear polarization: physical limitations to biological functions

    OpenAIRE

    Shashar, Nadav; Johnsen, Sönke; Lerner, Amit; Sabbah, Shai; Chiao, Chuan-Chin; Mäthger, Lydia M; Hanlon, Roger T

    2011-01-01

    Polarization sensitivity is documented in a range of marine animals. The variety of tasks for which animals can use this sensitivity, and the range over which they do so, are confined by the visual systems of these animals and by the propagation of the polarization information in the aquatic environment. We examine the environmental physical constraints in an attempt to reveal the depth, range and other limitations to the use of polarization sensitivity by marine animals. In clear oceanic wat...

  18. Group behaviour in physical, chemical and biological systems

    Indian Academy of Sciences (India)

    Cihan Saçlioğlu; Önder Pekcan; Vidyanand Nanjundiah

    2014-04-01

    Groups exhibit properties that either are not perceived to exist, or perhaps cannot exist, at the individual level. Such `emergent’ properties depend on how individuals interact, both among themselves and with their surroundings. The world of everyday objects consists of material entities. These are, ultimately, groups of elementary particles that organize themselves into atoms and molecules, occupy space, and so on. It turns out that an explanation of even the most commonplace features of this world requires relativistic quantum field theory and the fact that Planck’s constant is discrete, not zero. Groups of molecules in solution, in particular polymers (`sols’), can form viscous clusters that behave like elastic solids (`gels’). Sol-gel transitions are examples of cooperative phenomena. Their occurrence is explained by modelling the statistics of inter-unit interactions: the likelihood of either state varies sharply as a critical parameter crosses a threshold value. Group behaviour among cells or organisms is often heritable and therefore can evolve. This permits an additional, typically biological, explanation for it in terms of reproductive advantage, whether of the individual or of the group. There is no general agreement on the appropriate explanatory framework for understanding group-level phenomena in biology.

  19. Group behaviour in physical, chemical and biological systems.

    Science.gov (United States)

    Saçlioğlu, Cihan; Pekcan, Önder; Nanjundiah, Vidyanand

    2014-04-01

    Groups exhibit properties that either are not perceived to exist, or perhaps cannot exist, at the individual level. Such 'emergent' properties depend on how individuals interact, both among themselves and with their surroundings. The world of everyday objects consists of material entities. These are, ultimately, groups of elementary particles that organize themselves into atoms and molecules, occupy space, and so on. It turns out that an explanation of even the most commonplace features of this world requires relativistic quantum field theory and the fact that Planck's constant is discrete, not zero. Groups of molecules in solution, in particular polymers ('sols'), can form viscous clusters that behave like elastic solids ('gels'). Sol-gel transitions are examples of cooperative phenomena. Their occurrence is explained by modelling the statistics of inter-unit interactions: the likelihood of either state varies sharply as a critical parameter crosses a threshold value. Group behaviour among cells or organisms is often heritable and therefore can evolve. This permits an additional, typically biological, explanation for it in terms of reproductive advantage, whether of the individual or of the group. There is no general agreement on the appropriate explanatory framework for understanding group-level phenomena in biology. PMID:24736152

  20. Methods of increasing secretion of polypeptides having biological activity

    Energy Technology Data Exchange (ETDEWEB)

    Merino, Sandra

    2015-04-14

    The present invention relates to methods for producing a secreted polypeptide having biological activity, comprising: (a) transforming a fungal host cell with a fusion protein construct encoding a fusion protein, which comprises: (i) a first polynucleotide encoding a signal peptide; (ii) a second polynucleotide encoding at least a catalytic domain of an endoglucanase or a portion thereof; and (iii) a third polynucleotide encoding at least a catalytic domain of a polypeptide having biological activity; wherein the signal peptide and at least the catalytic domain of the endoglucanase increases secretion of the polypeptide having biological activity compared to the absence of at least the catalytic domain of the endoglucanase; (b) cultivating the transformed fungal host cell under conditions suitable for production of the fusion protein; and (c) recovering the fusion protein, a component thereof, or a combination thereof, having biological activity, from the cultivation medium.

  1. Methods of increasing secretion of polypeptides having biological activity

    Energy Technology Data Exchange (ETDEWEB)

    Merino, Sandra

    2014-10-28

    The present invention relates to methods for producing a secreted polypeptide having biological activity, comprising: (a) transforming a fungal host cell with a fusion protein construct encoding a fusion protein, which comprises: (i) a first polynucleotide encoding a signal peptide; (ii) a second polynucleotide encoding at least a catalytic domain of an endoglucanase or a portion thereof; and (iii) a third polynucleotide encoding at least a catalytic domain of a polypeptide having biological activity; wherein the signal peptide and at least the catalytic domain of the endoglucanase increases secretion of the polypeptide having biological activity compared to the absence of at least the catalytic domain of the endoglucanase; (b) cultivating the transformed fungal host cell under conditions suitable for production of the fusion protein; and (c) recovering the fusion protein, a component thereof, or a combination thereof, having biological activity, from the cultivation medium.

  2. Methods of increasing secretion of polypeptides having biological activity

    Energy Technology Data Exchange (ETDEWEB)

    Merino, Sandra

    2014-05-27

    The present invention relates to methods for producing a secreted polypeptide having biological activity, comprising: (a) transforming a fungal host cell with a fusion protein construct encoding a fusion protein, which comprises: (i) a first polynucleotide encoding a signal peptide; (ii) a second polynucleotide encoding at least a catalytic domain of an endoglucanase or a portion thereof; and (iii) a third polynucleotide encoding at least a catalytic domain of a polypeptide having biological activity; wherein the signal peptide and at least the catalytic domain of the endoglucanase increases secretion of the polypeptide having biological activity compared to the absence of at least the catalytic domain of the endoglucanase; (b) cultivating the transformed fungal host cell under conditions suitable for production of the fusion protein; and (c) recovering the fusion protein, a component thereof, or a combination thereof, having biological activity, from the cultivation medium.

  3. Uncovering the underlying physical mechanisms of biological systems via quantification of landscape and flux

    Science.gov (United States)

    Li, Xu; Xiakun, Chu; Zhiqiang, Yan; Xiliang, Zheng; Kun, Zhang; Feng, Zhang; Han, Yan; Wei, Wu; Jin, Wang

    2016-01-01

    In this review, we explore the physical mechanisms of biological processes such as protein folding and recognition, ligand binding, and systems biology, including cell cycle, stem cell, cancer, evolution, ecology, and neural networks. Our approach is based on the landscape and flux theory for nonequilibrium dynamical systems. This theory provides a unifying principle and foundation for investigating the underlying mechanisms and physical quantification of biological systems. Project supported by the Natural Science Foundation of China (Grant Nos. 21190040, 11174105, 91225114, 91430217, and 11305176) and Jilin Province Youth Foundation, China (Grant No. 20150520082JH).

  4. Structure of physics and the chemical or biological action of ionizing radiations - rarely employed ideas

    International Nuclear Information System (INIS)

    The fact is pointed out that phenomena in radiochemistry and micro-scale radiobiology are non-linear similarly to phenomena in modern theoretical physics. A comparison is made of the conceptual development of theoretical physics and of theoretical radiation biology. The use of Bose-Einstein's exciton condensation is suggested for expressing the non-linearity of radiochemical and radiobiological processes. (Ha)

  5. Physical Activity: A Tool for Improving Health (Part 1--Biological Health Benefits)

    Science.gov (United States)

    Gallaway, Patrick J.; Hongu, Nobuko

    2015-01-01

    Extension educators have been promoting and incorporating physical activities into their community-based programs and improving the health of individuals, particularly those with limited resources. This article is the first of a three-part series describing the benefits of physical activity for human health: 1) biological health benefits of…

  6. A Novel Biological Dosimetry Method for Monitoring Occupational Radiation Exposure in Diagnostic and Therapeutic Wards: From Radiation Dosimetry to Biological Effects

    OpenAIRE

    Heydarheydari, S.; Haghparast, A.; Eivazi, M.T.

    2016-01-01

    Background and Objective Professional radiation workers are occupationally exposed to long-term low levels of ionizing radiation. Occupational health hazards from radiation exposure, in a large occupational segment of the population, are of special concern. Biological dosimetry can be performed in addition to physical dosimetry with the aim of individual dose assessment and biological effects. Methods In this biodosimetry study, some hematological parameters have been examined in 40 exposed a...

  7. Predicting economic growth with classical physics and human biology

    OpenAIRE

    Hans G. Danielmeyer; Thomas Martinetz

    2012-01-01

    We collect and analyze the data for working time, life expectancy, and the pair output and infrastructure of industrializing nations. During S-functional recovery from disaster the pair's time shifts yield 25 years for the infrastructure's physical lifetime. At G7 level the per capita outputs converge and the time shifts identify a heritable quantity with a reaction time of 62 years. It seems to control demand and the spare time required for enjoying G7 affluence. The sum of spare and working...

  8. Physical and biological basis of hadron radiotherapy. Book of abstracts

    International Nuclear Information System (INIS)

    The Workshop was a satellite event of the 14th International Congress of Radiation Research (ICRR-2011). It was held in Cracow, Poland, on the 2 and 3 September 2011, at the Collegium Novum of the Jagiellonian University. The Workshop organized, jointly by the Institute of Nuclear Physics of the Polish Academy of Sciences and the Polish Radiation Research Society, would provide its participants with an opportunity to discuss current topics in proton and carbon radiotherapy, clinical aspects of ion radiotherapy, ion beam dosimetry, unwanted patient exposure, radiobiology for ion radiotherapy and other relevant subjects. Book of Abstracts contains abstracts of 33 oral presentations and 12 posters.

  9. Experimental methods of ultracold atomic physics

    OpenAIRE

    Stamper-Kurn, D.M.; Thywissen, J. H.

    2011-01-01

    Experiments on solid-state materials and atomic quantum gases are increasingly investigating similar concepts in many-body quantum physics. Yet, the flavor of experiments on the gaseous atomic materials is different from that of conventional materials research. Here, we summarize some aspects of atomic physics and some of the common technical elements of cold-atom experiments which underlie the investigations described in the remaining chapters of this volume.

  10. Calibration of a coupled biological-physical model for prediction in a coastal inlet

    Science.gov (United States)

    Guarracino, M.; Dowd, M.; Sheng, J.; Cullen, J. J.

    2011-10-01

    We describe a numerical forecast system designed for prediction of physical and biological dynamics of a coastal inlet. It is based on a coastal ocean observatory that was located at Lunenburg Bay, Nova Scotia, Canada. Biological, chemical, optical, and physical measurements were collected from instrumented moorings, weekly sampling and detailed surveys from 2002 through 2007. Here we present a framework for calibration and evaluation of an ecosystem model using data from the summer of 2007. A three-dimensional hydrodynamic model was coupled to a simple biological (Nutrients-Phytoplankton-Detritus) model; a simple model was used so results could be compared directly to observed biological and chemical variables using skill scores as a first step toward data-assimilation modeling. As a complement to this analysis, variability of model output, e.g., the nutrient limitation term, was examined to understand the modeled biological response to the simulated physical environment. Skill scores based on variances in observed and simulated time-series of biological components were also investigated. Coastal upwelling/downwelling simulated through this model has been found to increase modeled biological activity in the bay. Also model skill in reproducing the observed patterns in nutrients and phytoplankton has been increased due to the restoring conditions for biology set up at the open ocean boundaries of the bay.

  11. Toward University Modeling Instruction—Biology: Adapting Curricular Frameworks from Physics to Biology

    OpenAIRE

    Manthey, Seth; Brewe, Eric

    2013-01-01

    University Modeling Instruction (UMI) is an approach to curriculum and pedagogy that focuses instruction on engaging students in building, validating, and deploying scientific models. Modeling Instruction has been successfully implemented in both high school and university physics courses. Studies within the physics education research (PER) community have identified UMI's positive impacts on learning gains, equity, attitudinal shifts, and self-efficacy. While the success of this pedagogical a...

  12. What are the Effects of Implementing Learning-Focused Strategies in Biology and Physical Science Classrooms?

    Science.gov (United States)

    Simmons, Robin

    The objective of this study was to determine if Learning-Focused Strategies (LFS) implemented in high school science courses would affect student achievement and the pass rate of biology and physical science Common District Assessments (CDAs). The LFS, specific teaching strategies contained in the Learning-Focused Strategies Model (LFSM) Program were researched in this study. The LFSM Program provided a framework for comprehensive school improvement to those schools that implemented the program. The LFSM Program provided schools with consistent training in the utilization of exemplary practices and instruction. A high school located in the suburbs of Atlanta, Georgia was the focus of this investigation. Twelve high school science classrooms participated in the study: six biology and six physical science classes. Up-to-date research discovered that the strategies contained in the LFSM Program were research-based and highly effective for elementary and middle school instruction. Research on its effectiveness in high school instruction was the main focus of this study. This investigation utilized a mixed methods approach, in which data were examined qualitatively and quantitatively. Common District Assessment (CDA) quantitative data were collected and compared between those science classrooms that utilized LFS and those using traditional instructional strategies. Qualitative data were generated through classroom observations, student surveys, and teacher interviews. Individual data points were triangulated to determine trends of information reflecting the effects of implementing LFS. Based on the data collected in the research study, classrooms utilizing LFS were more successful academically than the classrooms using traditional instructional methods. Derived from the quantitative data, students in LFS classrooms were more proficient on both the biology and physical science Unit 1 CDAs, illustrating the effectiveness of LFS in the science classroom. Key terms

  13. Evaluation of physical-chemical and biological treatment of shale oil retort water

    Energy Technology Data Exchange (ETDEWEB)

    Mercer, B.W.; Mason, M.J.; Spencer, R.R.; Wong, A.L.; Wakamiya, W.

    1982-09-01

    Bench scale studies were conducted to evaluate conventional physical-chemical and biological treatment processes for removal of pollutants from retort water produced by in situ shale oil recovery methods. Prior to undertaking these studies, very little information had been reported on treatment of retort water. A treatment process train patterned after that generally used throughout the petroleum refining industry was envisioned for application to retort water. The treatment train would consist of processes for removing suspended matter, ammonia, biodegradable organics, and nonbiodegradable or refractory organics. The treatment processes evaluated include anaerobic digestion and activated sludge for removal of biodegradable organics and other oxidizable substances; activated carbon adsorption for removal of nonbiodegradable organics; steam stripping for ammonia removal; and chemical coagulation, sedimentation and filtration for removal of suspended matter. Preliminary cost estimates are provided.

  14. Physics of Transport and Traffic Phenomena in Biology: from molecular motors and cells to organisms

    CERN Document Server

    Chowdhury, D; Nishinari, K; Chowdhury, Debashish; Schadschneider, Andreas; Nishinari, Katsuhiro

    2005-01-01

    Traffic-like collective movements are observed at almost all levels of biological systems. Molecular motor proteins like, for example, kinesin and dynein, which are the vehicles of almost all intra-cellular transport in eukayotic cells, sometimes encounter traffic jam that manifests as a disease of the organism. Similarly, traffic jam of collagenase MMP-1, which moves on the collagen fibrils of the extracellular matrix of vertebrates, has also been observed in recent experiments. Traffic-like movements of social insects like ants and termites on trails are, perhaps, more familiar in our everyday life. Experimental, theoretical and computational investigations in the last few years have led to a deeper understanding of the generic or common physical principles involved in these phenomena. In particular, some of the methods of non-equilibrium statistical mechanics, pioneered almost a hundred years ago by Einstein, Langevin and others, turned out to be powerful theoretical tools for quantitaive analysis of model...

  15. Biochemical physics modeling of biological nano-motors

    Energy Technology Data Exchange (ETDEWEB)

    Santamaría-Holek, I.; López-Alamilla, N. J. [UMDI-Facultad de Ciencias, Universidad Nacional Autónoma de México, Campus Juriquilla, Boulevard Juriquilla 3001, 76230 Querétaro (Mexico)

    2014-01-14

    We present a biochemical physics model accounting for the dynamics and energetics of both translational and rotational protein motors. A modified version of the hand-over-hand mechanism considering competitive inhibition by ADP is presented. Transition state-like theory is used to reconstruct the time dependent free-energy landscape of the cycle catalyst process that allows to predicting the number of steps or rotations that a single motor can perform. In addition, following the usual approach of chemical kinetics, we calculate the average translational velocity and also the stopping time of processes involving a collectivity of motors, such as exocytosis and endocytosis processes. Finally, we formulate a stochastic model reproducing very well single realizations of kinesin and rotary ATPases.

  16. Methodical Instructions For Solutions of Problems in Nuclear Physics

    CERN Document Server

    Troitskaya, N I

    2005-01-01

    This is a set of methodical instructions for solutions of problems in Nuclear Physics. It is written on the basis of seminars to the course of lectures on``Nuclear Physics'' delivered at the Physical and Mechanical Faculty of the St. Petersburg State Polytechnic University for the students of the 4th Course in ``Technical Physics'' and ``Medical Physics''. The main aim of these methodical instructions is to develop the experience of students in scientific approaches to solutions of practical problems in Nuclear Physics.

  17. River Pollution: Part II. Biological Methods for Assessing Water Quality.

    Science.gov (United States)

    Openshaw, Peter

    1984-01-01

    Discusses methods used in the biological assessment of river quality and such indicators of clean and polluted waters as the Trent Biotic Index, Chandler Score System, and species diversity indexes. Includes a summary of a river classification scheme based on quality criteria related to water use. (JN)

  18. Project as an education method in teaching of physics

    OpenAIRE

    VEVERKOVÁ, Klára

    2011-01-01

    The diploma thesis ?Project as an educational method for teaching physics ?deals with the possibilities of using project-based method for teaching physics at primary schools. Not only does it contain the theoretical background of project-based teaching, but also deals with practical issues in the form of an implementation of a chosen project ?Physics and physical education?. The aim of said project was to evaluate the efficiency of project-based teaching as far as the knowledge of pupils and ...

  19. Using the case-study method in teaching college physics

    OpenAIRE

    Burko, Lior M.

    2016-01-01

    The case-study teaching method has a long history (starting at least with Socrates), and wide current use in business schools, medical schools, law schools, and a variety of other disciplines. However, relatively little use is made of it in the physical sciences, specifically in physics or astronomy. The case-study method should be considered by physics faculty as part of the effort to transition the teaching of college physics from the traditional frontal-lecture format to other formats that...

  20. Natively unfolded proteins: a point where biology waits for physics.

    Science.gov (United States)

    Uversky, Vladimir N

    2002-04-01

    The experimental material accumulated in the literature on the conformational behavior of intrinsically unstructured (natively unfolded) proteins was analyzed. Results of this analysis showed that these proteins do not possess uniform structural properties, as expected for members of a single thermodynamic entity. Rather, these proteins may be divided into two structurally different groups: intrinsic coils, and premolten globules. Proteins from the first group have hydrodynamic dimensions typical of random coils in poor solvent and do not possess any (or almost any) ordered secondary structure. Proteins from the second group are essentially more compact, exhibiting some amount of residual secondary structure, although they are still less dense than native or molten globule proteins. An important feature of the intrinsically unstructured proteins is that they undergo disorder-order transition during or prior to their biological function. In this respect, the Protein Quartet model, with function arising from four specific conformations (ordered forms, molten globules, premolten globules, and random coils) and transitions between any two of the states, is discussed.

  1. Discrete mathematics, discrete physics and numerical methods

    OpenAIRE

    Felice Iavernaro; Donato Trigiante

    2007-01-01

    Discrete mathematics has been neglected for a long time. It has been put in the shade by the striking success of continuous mathematics in the last two centuries, mainly because continuous models in physics proved very reliable, but also because of the greater difficulty in dealing with it. This perspective has been rapidly changing in the last years owing to the needs of the numerical analysis and, more recently, of the so called discrete physics. In this paper, starting from some sentences o...

  2. Atmospheric Physics Background – Methods – Trends

    CERN Document Server

    2012-01-01

    On the occasion of the 50th anniversary of the Institute of Atmospheric Physics of the German Aerospace Center (DLR), this book presents more than 50 chapters highlighting results of the institute’s research. The book provides an up-to-date, in-depth survey across the entire field of atmospheric science, including atmospheric dynamics, radiation, cloud physics, chemistry, climate, numerical simulation, remote sensing, instruments and measurements, as well as atmospheric acoustics. The authors have provided a readily comprehensible and self-contained presentation of the complex field of atmospheric science. The topics are of direct relevance for aerospace science and technology. Future research challenges are identified.

  3. Student Active Learning Methods in Physical Chemistry

    Science.gov (United States)

    Hinde, Robert J.; Kovac, Jeffrey

    2001-01-01

    We describe two strategies for implementing active learning in physical chemistry. One involves supplementing a traditional lecture course with heavily computer-based active-learning exercises carried out by cooperative groups in a department computer lab. The other uses cooperative learning almost exclusively, supplemented by occasional mini-lectures. Both approaches seemed to result in better student learning and a more positive attitude toward the subject. On the basis of our respective experiences using active learning techniques, we discuss some of the strengths of these techniques and some of the challenges we encountered using the active-learning approach in teaching physical chemistry.

  4. Homotopy Analysis Method for Solving Biological Population Model

    Institute of Scientific and Technical Information of China (English)

    A.M. Arafa; S,Z. Rida; H. Mohamed

    2011-01-01

    In this paper, the homotopy analysis method (HAM) is applied to solve generalized biological population models. The fractional derivatives are described by Caputo's sense. The method introduces a significant improvement in this field over existing techniques. Results obtained using the scheme presented here agree well with the analytical solutions and the numerical results presented in Ref [6]. However, the fundamental solutions of these equations still exhibit useful scaling properties that make them attractive for applications.

  5. Development of methods for determining aflatoxins in biological material

    OpenAIRE

    Kussak, Anders

    1995-01-01

    In this thesis, it is shown how aflatoxins can be determined in biological material. The thesis is a summary of five papers. Aflatoxins are carcinogenic mycotoxins produced by Aspergillus moulds. Methods were developed for the determination of aflatoxins in samples of airborne dust and human urine collected at feed factories. For the dust samples from such agricultural products as copra, cotton seed and maize, methods were developed for the determination of aflatoxins B1, B2, G1 and G2. For u...

  6. Diagnosis of Physical and Biological Controls on Phytoplankton Distribution in the Sargasso Sea

    Institute of Scientific and Technical Information of China (English)

    WANG Caixia; Paola Malanotte-Rizzoli

    2014-01-01

    The linkage between physical and biological processes is studied by applying a one-dimensional physical-biological coupled model to the Sargasso Sea. The physical model is the Princeton Ocean Model and the biological model is a five-component system including phytoplankton, zooplankton, nitrate, ammonium, and detritus. The coupling between the physical and biological model is accomplished through vertical mixing which is parameterized by the level 2.5 Mellor and Yamada turbulence closure scheme. The coupled model investigates the annual cycle of ecosystem production and the response to external forcing, such as heat flux, wind stress, and surface salinity, and the relative importance of physical processes in affecting the ecosystem. Sensitivity ex-periments are also carried out, which provide information on how the model bio-chemical parameters affect the biological system. The computed seasonal cycles compare reasonably well with the observations of the Bermuda Atlantic Time-series Study (BATS). The spring bloom of phytoplankton occurs in March and April, right after the weakening of the winter mixing and before the estab-lishment of the summer stratification. The bloom of zooplankton occurs about two weeks after the bloom of phytoplankton. The sen-sitivity experiments show that zooplankton is more sensitive to the variations of biochemical parameters than phytoplankton.

  7. Underwater linear polarization: physical limitations to biological functions.

    Science.gov (United States)

    Shashar, Nadav; Johnsen, Sönke; Lerner, Amit; Sabbah, Shai; Chiao, Chuan-Chin; Mäthger, Lydia M; Hanlon, Roger T

    2011-03-12

    Polarization sensitivity is documented in a range of marine animals. The variety of tasks for which animals can use this sensitivity, and the range over which they do so, are confined by the visual systems of these animals and by the propagation of the polarization information in the aquatic environment. We examine the environmental physical constraints in an attempt to reveal the depth, range and other limitations to the use of polarization sensitivity by marine animals. In clear oceanic waters, navigation that is based on the polarization pattern of the sky appears to be limited to shallow waters, while solar-based navigation is possible down to 200-400 m. When combined with intensity difference, polarization sensitivity allows an increase in target detection range by 70-80% with an upper limit of 15 m for large-eyed animals. This distance will be significantly smaller for small animals, such as plankton, and in turbid waters. Polarization-contrast detection, which is relevant to object detection and communication, is strongly affected by water conditions and in clear waters its range limit may reach 15 m as well. We show that polarization sensitivity may also serve for target distance estimation, when examining point source bioluminescent objects in the photic mesopelagic depth range.

  8. Degradation of Some Textile Dyes using Biological and Physical Treatments

    International Nuclear Information System (INIS)

    A total of twenty samples composed of ten samples of decaying eucalyptus leaves and ten soil samples were collected from El-Kanater El-Khairia district. All isolates were purified and identified to the species level. They found to be belonging to two main genera: Aspergillus sp. and Penicillium sp. The obtained fungal isolates were screened for testing their ability to decolorize Isolan dyes. The strain Aspergillus niger ES-5 was chosen for its highest ability to decolorize the four Isolan dyes. The biological decolorization of the textile metal azo dye was investigated under co-metabolic conditions. The decolorization capacity of the strain was influenced by the presence and/or absence of media components. The majority of decolorization was growth related, where resulted in 90.4%, 99.6%, 95.0% and 94.6% for I.Y, I.R, I.N and I.G, respectively after 72 h, only 2.5, 1.3, 1.4 and 3.0% for I.Y, I.R, I.N and I.G, respectively were desorbed, while negligible decolorization was detected using extracellular fluid (ECF) as well as using dead pellets. The addition of the dye to fungal cultures didn’t affect the extracellular GOD production while intracellular GOD production exhibited a different profile. Pictures of the mycelia represent dye uptake over the 72 h period of decolorization. The metal detection using Energy Dispersive X-ray Spectroscopy (EDS) of the outer fungal mycelium wall and ECF were both below detection level after the decolorization process took place. Thus, decolorization process and the removal of the elements by A. niger ES-5 involve initial adsorption followed by entrapment of the adsorbed dye inside the fungal biomass. Gamma rays increase color intensity in I.Y, while the other three Isolan dyes showed negative decolorization efficiency till 2.5 kGy after which, slow increase in the decolorization was observed.

  9. Teaching physics to life science students - Examining the role of biological context

    Science.gov (United States)

    Crouch, Catherine H.; Heller, Kenneth

    2012-02-01

    We describe a research agenda to inform renovating the introductory physics course commonly taught to life science majors. The theoretical framework of the renovation is the cognitive apprenticeship model, in which learning occurs most effectively in an environment of expert practices so that students can articulate why their learning matters. This model is supported by studies of transfer that suggest for students to successfully apply physics to another field, they need practice making such applications. Guided by this theoretical framework, we have begun to restructure our introductory physics courses for these students around biologically rich contexts - examples in which fundamental physics plays a significant role in understanding a biological system - to make explicit the value of physics to the life sciences. This requires restructuring the course content to reflect the topics most relevant to biology. In this paper we describe our approach to this course, identify research directions addressing (1) the role of biological context in learning for these students and (2) issues in implementing such a course for physics faculty, and summarize preliminary results.

  10. Nuclear physics methods in materials research

    International Nuclear Information System (INIS)

    The brochure contains the abstracts of the papers presented at the 7th EPS meeting 1980 in Darmstadt. The main subjects were: a) Neutron scattering and Moessbauer effect in materials research, b) ion implantation in micrometallurgy, c) applications of nuclear reactions and radioisotopes in research on solids, d) recent developments in activation analysis and e) pions, positrons, and heavy ions applied in solid state physics. (RW)

  11. Students' Views of Macroscopic and Microscopic Energy in Physics and Biology

    CERN Document Server

    Dreyfus, Benjamin W; Watkins, Jessica

    2011-01-01

    Energy concepts are fundamental across the sciences, yet these concepts can be fragmented along disciplinary boundaries, rather than integrated into a coherent whole. To teach physics effectively to biology students, we need to understand students' disciplinary perspectives. We present interview data from an undergraduate student who displays multiple stances towards the concept of energy. At times he views energy in macroscopic contexts as a separate entity from energy in microscopic (particularly biological) contexts, while at other times he uses macroscopic physics phenomena as productive analogies for understanding energy in the microscopic biological context, and he reasons about energy transformations between the microscopic and macroscopic scales. This case study displays preliminary evidence for the context dependence of students' ability to translate energy concepts across scientific disciplines. This points to challenges that must be taken into account in developing curricula for biology students th...

  12. Carriers and sideband pairs and their analogues in physics and Biology

    Science.gov (United States)

    Goldman, Stanford

    1982-09-01

    This is a further development of the author's paper “A Unified Theory of Biology and Physics.” It is found that male and female in biology, as well as particle and antiparticle in physics, are analogues of symmetrical sideband pairs in communication theory. This gives a new point of view from which to investigate the significance and characteristics of these different paired entities. These findings are intimately related to the fact that there are two transform domains of representation of entities in all the cases involved. They are the somatic and the genetic domains in biology, the configuration domain and the domain of conserved observables in physics, and the time and frequency domains in communication.

  13. Biology and physics competencies for pre-health and other life sciences students.

    Science.gov (United States)

    Hilborn, Robert C; Friedlander, Michael J

    2013-06-01

    The recent report on the Scientific Foundations for Future Physicians (SFFP) and the revised Medical College Admissions Test (MCAT) reframe the preparation for medical school (and other health professional schools) in terms of competencies: what students should know and be able to do with that knowledge, with a strong emphasis on scientific inquiry and research skills. In this article, we will describe the thinking that went into the SFFP report and what it says about scientific and quantitative reasoning, focusing on biology and physics and the overlap between those fields. We then discuss how the SFFP report set the stage for the discussion of the recommendations for the revised MCAT, which will be implemented in 2015, again focusing the discussion on biology and physics. Based on that framework, we discuss the implications for undergraduate biology and physics education if students are to be prepared to demonstrate these competencies. PMID:23737625

  14. Biology and physics competencies for pre-health and other life sciences students.

    Science.gov (United States)

    Hilborn, Robert C; Friedlander, Michael J

    2013-06-01

    The recent report on the Scientific Foundations for Future Physicians (SFFP) and the revised Medical College Admissions Test (MCAT) reframe the preparation for medical school (and other health professional schools) in terms of competencies: what students should know and be able to do with that knowledge, with a strong emphasis on scientific inquiry and research skills. In this article, we will describe the thinking that went into the SFFP report and what it says about scientific and quantitative reasoning, focusing on biology and physics and the overlap between those fields. We then discuss how the SFFP report set the stage for the discussion of the recommendations for the revised MCAT, which will be implemented in 2015, again focusing the discussion on biology and physics. Based on that framework, we discuss the implications for undergraduate biology and physics education if students are to be prepared to demonstrate these competencies.

  15. Methods of the physics of porous media

    CERN Document Server

    Wong, Po-Zen; De Graef, Marc

    1999-01-01

    Over the past 25 years, the field of VUV physics has undergone significant developments as new powerful spectroscopic tools, VUV lasers, and optical components have become available. This volume is aimed at experimentalists who are in need of choosing the best type of modern instrumentation in this applied field. In particular, it contains a detailed chapter on laboratory sources. This volume provides an up-to-date description of state-of-the-art equipment and techniques, and a broad reference bibliography. It treats phenomena from the standpoint of an experimental physicist, whereby such topi

  16. Advanced Software Methods for Physics Analysis

    International Nuclear Information System (INIS)

    Unprecedented data analysis complexity is experienced in modern High Energy Physics experiments. The complexity arises from the growing size of recorded data samples, the large number of data analyses performed by different users in each single experiment, and the level of complexity of each single analysis. For this reason, the requirements on software for data analysis impose a very high level of reliability. We present two concrete examples: the former from BaBar experience with the migration to a new Analysis Model with the definition of a new model for the Event Data Store, the latter about a toolkit for multivariate statistical and parametric Monte Carlo analysis developed using generic programming

  17. Physical, chemical and biological characterization of the sanitary landfill leachate in Limeira-SP city.

    Directory of Open Access Journals (Sweden)

    Ronaldo Teixeira Pelegrini

    2007-07-01

    Full Text Available This work presents an evaluation of the physical, chemical and biological characteristics of the waste leachate originated from solids waste mass and after permanence in average of 24 hours in the captation pond, which is located on the sanitary landfill in Limeira-SP. The points were denominated Point 0: entrance of leachate in natura in the pond and Point 1: exit of leachate from the pond. The study was accomplished through of the monitoring of physical (pH, color, turbidity, conductivity and temperature, chemical (alkalinity, acidity, phosphorus, amoniacal nitrogen, nitrite, nitrate and TOC and biological (heterotrophic bacterial parameters during a period of 50 days.

  18. 4D-Var data assimilation system for a coupled physical biological model

    Indian Academy of Sciences (India)

    J M Lellouche; M Ouberdous; W Eifler

    2000-12-01

    A 3-compartment model of phytoplankton growth dynamics has been coupled with a primitive-equation circulation model to better understand and quantify physical and biological processes in the Adriatic Sea. This paper presents the development and application of a data assimilation procedure based on optimal control theory. The aim of the procedure is to identify a set of model coefficient values that ensures the best fit between data and model results by minimizing a function that measures model and data discrepancies. In this sense, twin experiments have been successfully implemented in order to have a better estimation of biological model parameters and biological initial conditions.

  19. After the Greeting: Realizing the Potential of Physical Models in Cell Biology.

    Science.gov (United States)

    Paluch, Ewa K

    2015-12-01

    Biophysics is increasingly taking center stage in cell biology as the tools for precise quantifications of cellular behaviors expand. Interdisciplinary approaches, combining quantitative physical modeling with cell biology, are of growing interest to journal editors, funding agencies, and hiring committees. However, despite an ever-increasing emphasis on the importance of interdisciplinary research, the student trained in biology may still be at a loss as to what it actually means. I discuss here some considerations on how to achieve meaningful and high-quality interdisciplinary work.

  20. From Molecules to Living Organisms : an Interplay between Biology and Physics : Lecture Notes of the Les Houches School of Physics

    CERN Document Server

    Nury, Hughes; Parcy, François; Ruigrok, Rob W H; Ziegler, Christine; Cugliandolo, Leticia F; Session CII

    2016-01-01

    The aim of this book is to provide new ideas for studying living matter by a simultaneous understanding of behavior from molecules to the cell, to the whole organism in the light of physical concepts. Indeed, forces guide most biological phenomena. In some cases these forces can be well-described and thus used to model a particular biological phenomenon. This is exemplified here by the study of membranes, where their shapes and curvatures can be modeled using a limited number of parameters that are measured experimentally. The growth of plants is another example where the combination of physics, biology and mathematics leads to a predictive model. The laws of thermodynamics are essential, as they dictate the behavior of proteins, or more generally biological molecules, in an aqueous environment. Integrated studies from the molecule to a larger scale need a combination of cutting-edge approaches, such as the use of new X-ray sources, in-cell NMR, cryo-electron microscopy or single-molecule microscopy. Some are...

  1. Biclustering Methods: Biological Relevance and Application in Gene Expression Analysis

    OpenAIRE

    Ali Oghabian; Sami Kilpinen; Sampsa Hautaniemi; Elena Czeizler

    2014-01-01

    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 expressi...

  2. Exergames: neuroplastic hypothesis about cognitive improvement and biological effects on physical function of institutionalized older persons

    OpenAIRE

    Renato Sobral Monteiro; César Augusto Otero Vaghetti; Osvaldo José M. Nascimento; Jerson Laks; Andrea Camaz Deslandes

    2016-01-01

    Exergames can be considered a dual task because the games are performed by a man-videogame interface, requiring cognitive and motor functions simultaneously. Although the literature has shown improvements of cognitive and physical functions due to exergames, the intrinsic mechanisms involved in these functional changes have still not been elucidated. The aims of the present study were (1) to demonstrate the known biological mechanisms of physical exercise regarding muscle adaptation and estab...

  3. How can we improve problem-solving in undergraduate biology? Applying lessons from 30 years of physics education research

    CERN Document Server

    Hoskinson, Anne-Marie; Knight, Jennifer K

    2012-01-01

    Modern biological problems are complex. If students are to successfully grapple with such problems as scientists and citizens, they need to have practiced solving authentic, complex problems during their undergraduate years. Physics education researchers have investigated student problem-solving for the last three decades. Although the surface features and content of biology problems differ from physics problems, teachers of both sciences want students to learn to explain patterns and processes in the natural world and to make predictions about system behaviors. After surveying literature on problem-solving in physics and biology, we propose how biology education researchers could apply research-supported pedagogical techniques from physics to enhance biology students' problem-solving. First, we characterize the problems that biology students are typically asked to solve. We then describe the development of research-validated physics problem-solving curricula. Finally, we propose how biology scholars can appl...

  4. ACTIVE AND PARTICIPATORY METHODS IN BIOLOGY: PROBLEM-SOLVING

    Directory of Open Access Journals (Sweden)

    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.

  5. National Aeronautics and Space Administration Biological and Physical Research Enterprise Strategy

    Science.gov (United States)

    2003-01-01

    As the 21st century begins, NASA's new Vision and Mission focuses the Agency's Enterprises toward exploration and discovery.The Biological and Physical Research Enterprise has a unique and enabling role in support of the Agency's Vision and Mission. Our strategic research seeks innovations and solutions to enable the extension of life into deep space safely and productively. Our fundamental research, as well as our research partnerships with industry and other agencies, allow new knowledge and tech- nologies to bring improvements to life on Earth. Our interdisciplinary research in the unique laboratory of microgravity addresses opportunities and challenges on our home planet as well as in space environments. The Enterprise maintains a key role in encouraging and engaging the next generation of explorers from primary school through the grad- uate level via our direct student participation in space research.The Biological and Physical Research Enterprise encompasses three themes. The biological sciences research theme investigates ways to support a safe human presence in space. This theme addresses the definition and control of physiological and psychological risks from the space environment, including radiation,reduced gravity, and isolation. The biological sciences research theme is also responsible for the develop- ment of human support systems technology as well as fundamental biological research spanning topics from genomics to ecologies. The physical sciences research theme supports research that takes advantage of the space environment to expand our understanding of the fundamental laws of nature. This theme also supports applied physical sciences research to improve safety and performance of humans in space. The research partnerships and flight support theme establishes policies and allocates space resources to encourage and develop entrepreneurial partners access to space research.Working together across research disciplines, the Biological and Physical

  6. Essential concepts and underlying theories from physics, chemistry, and mathematics for "biochemistry and molecular biology" majors.

    Science.gov (United States)

    Wright, Ann; Provost, Joseph; Roecklein-Canfield, Jennifer A; Bell, Ellis

    2013-01-01

    Over the past two years, through an NSF RCN UBE grant, the ASBMB has held regional workshops for faculty members from around the country. The workshops have focused on developing lists of Core Principles or Foundational Concepts in Biochemistry and Molecular Biology, a list of foundational skills, and foundational concepts from Physics, Chemistry, and Mathematics that all Biochemistry or Molecular Biology majors must understand to complete their major coursework. The allied fields working group created a survey to validate foundational concepts from Physics, Chemistry, and Mathematics identified from participant feedback at various workshops. One-hundred twenty participants responded to the survey and 68% of the respondents answered yes to the question: "We have identified the following as the core concepts and underlying theories from Physics, Chemistry, and Mathematics that Biochemistry majors or Molecular Biology majors need to understand after they complete their major courses: 1) mechanical concepts from Physics, 2) energy and thermodynamic concepts from Physics, 3) critical concepts of structure from chemistry, 4) critical concepts of reactions from Chemistry, and 5) essential Mathematics. In your opinion, is the above list complete?" Respondents also delineated subcategories they felt should be included in these broad categories. From the results of the survey and this analysis the allied fields working group constructed a consensus list of allied fields concepts, which will help inform Biochemistry and Molecular Biology educators when considering the ASBMB recommended curriculum for Biochemistry or Molecular Biology majors and in the development of appropriate assessment tools to gauge student understanding of how these concepts relate to biochemistry and molecular biology.

  7. Essential Mathematical Methods for the Physical Sciences

    Science.gov (United States)

    Riley, K. F.; Hobson, M. P.

    2011-02-01

    1. Matrices and vector spaces; 2. Vector calculus; 3. Line, surface and volume integrals; 4. Fourier series; 5. Integral transforms; 6. Higher-order ODEs; 7. Series solutions of ODEs; 8. Eigenfunction methods; 9. Special functions; 10. Partial differential equations; 11. Solution methods for PDEs; 12. Calculus of variations; 13. Integral equations; 14. Complex variables; 15. Applications of complex variables; 16. Probability; 17. Statistics; Appendices; Index.

  8. PHYSICAL METHODS IN AGRO-FOOD CHAIN

    OpenAIRE

    ANNA ALADJADJIYAN; KAKANAKOVA, Andriana

    2009-01-01

    Chemical additives (fertilizers and plant protection preparations) are largely used for improving the production yield of food produce. Their application often causes the contamination of raw materials for food production, which can be dangerous for the health of consumers. Alternative methods are developed and implemented to improve and ensure the safety of on-farm production. The substitution of chemical fertilizers and soil additives with alternative treatment methods, such as irradiation,...

  9. Using the Case Study Method in Teaching College Physics

    Science.gov (United States)

    Burko, Lior M.

    2016-01-01

    The case study teaching method has a long history (starting at least with Socrates) and wide current use in business schools, medical schools, law schools, and a variety of other disciplines. However, relatively little use is made of it in the physical sciences, specifically in physics or astronomy. The case study method should be considered by…

  10. A poroelastic immersed boundary method with applications to cell biology

    Science.gov (United States)

    Strychalski, Wanda; Copos, Calina A.; Lewis, Owen L.; Guy, Robert D.

    2015-02-01

    The immersed boundary method is a widely used mixed Eulerian/Lagrangian framework for simulating the motion of elastic structures immersed in viscous fluids. In the traditional immersed boundary method, the fluid and structure move with the same velocity field. In this work, a model based on the immersed boundary method is presented for simulating poroelastic media in which the fluid permeates a porous, elastic structure of small volume fraction that moves with its own velocity field. Two distinct methods for calculating elastic stresses are presented and compared. The methods are validated on a radially symmetric test problem by comparing with a finite difference solution of the classical equations of poroelasticity. Finally, two applications of the modeling framework to cell biology are provided: cellular blebbing and cell crawling. It is shown that in both examples, poroelastic effects are necessary to explain the relevant mechanics.

  11. Biological Effectiveness and Application of Heavy Ions in Radiation Therapy Described by a Physical and Biological Model

    DEFF Research Database (Denmark)

    Olsen, Kjeld J.; Hansen, Johnny W.

    A description is given of the physical basis for applying track structure theory in the determination of the effectiveness of heavy-ion irradiation of single- and multi-hit target systems. It will be shown that for applying the theory to biological systems the effectiveness of heavy-ion irradiation...... is inadequately described by an RBE-factor, whereas the complete formulation of the probability of survival must be used, as survival depends on both radiation quality and dose. The theoretical model of track structure can be used in dose-effect calculations for neutron-, high-LET, and low-LET radiation applied...

  12. Evolutionary game theory for physical and biological scientists. II. Population dynamics equations can be associated with interpretations.

    Science.gov (United States)

    Liao, David; Tlsty, Thea D

    2014-08-01

    The use of mathematical equations to analyse population dynamics measurements is being increasingly applied to elucidate complex dynamic processes in biological systems, including cancer. Purely 'empirical' equations may provide sufficient accuracy to support predictions and therapy design. Nevertheless, interpretation of fitting equations in terms of physical and biological propositions can provide additional insights that can be used both to refine models that prove inconsistent with data and to understand the scope of applicability of models that validate. The purpose of this tutorial is to assist readers in mathematically associating interpretations with equations and to provide guidance in choosing interpretations and experimental systems to investigate based on currently available biological knowledge, techniques in mathematical and computational analysis and methods for in vitro and in vivo experiments.

  13. 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.

  14. Methods of 15N tracer research in biological systems

    International Nuclear Information System (INIS)

    The application of the stable isotope 15N 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 15N tracer technique. On the basis of the latest results of 15N tracer research in life sciences and agriculture methods of 15N tracer research in biological systems are compiled. The 15N 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. 15N-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 15N analysis and aspects of 15N analysis on the level of natural abundance are considered. Furthermore some remarks on isotope effects in 15N tracer experiments are made. (author)

  15. Resource Letter TTSM-1: Teaching thermodynamics and statistical mechanics in introductory physics, chemistry, and biology

    OpenAIRE

    Dreyfus, Benjamin W.; Geller, Benjamin D.; Meltzer, David E.; Sawtelle, Vashti

    2014-01-01

    This Resource Letter draws on discipline-based education research from physics, chemistry, and biology to collect literature on the teaching of thermodynamics and statistical mechanics in the three disciplines. While the overlap among the disciplinary literatures is limited at present, we hope this Resource Letter will spark more interdisciplinary interaction.

  16. Using Metaphor Theory to Examine Conceptions of Energy in Biology, Chemistry, and Physics

    Science.gov (United States)

    Lancor, Rachael

    2014-01-01

    Energy is one of the most important unifying themes in science. Yet the way energy is conceptualized varies depending on context. In this paper, the discourse used to explain the role of energy in systems from biology, chemistry, and physics is examined from the perspective of metaphor theory. Six substance metaphors for energy are identified in…

  17. Physical and biological changes of suspended particles in a free surface flow constructed wetland

    NARCIS (Netherlands)

    B.T.M. Mulling; R.M. van den Boomen; T.H.L. Claassen; H.G. van der Geest; J.W.N.M. Kappelhof; W. Admiraal

    2013-01-01

    Suspended particles are considered as contaminants in treated wastewater and can have profound effects on the biological, physical and chemical properties of receiving aquatic ecosystems, depending on the concentration, type and nature of the suspended particles. Constructed wetlands are known to su

  18. Effect of Further Mathematics on Students' Achievement in Mathematics, Biology, Chemistry and Physics

    Science.gov (United States)

    Olatoye, R. Ademola

    2007-01-01

    This study investigated the effect of Further Mathematics on students' achievement in mathematics, biology, chemistry and physics in Ogun State, Nigeria. Two Local Government Areas (LGAs) were judgmentally selected from the state. Ten secondary schools were also purposively selected from the two LGAs (Five schools from each LGA). At least twenty…

  19. Leveraging a Relationship with Biology to Expand a Relationship with Physics

    Science.gov (United States)

    Sawtelle, Vashti; Turpen, Chandra

    2016-01-01

    This work examines how experiences in one disciplinary domain (biology) can impact the relationship a student builds with another domain (physics). We present a model for disciplinary relationships using the constructs of identity, affect, and epistemology. With these constructs we examine an ethnographic case study of a student who experienced a…

  20. Essential Concepts and Underlying Theories from Physics, Chemistry, and Mathematics for "Biochemistry and Molecular Biology" Majors

    Science.gov (United States)

    Wright, Ann; Provost, Joseph; Roecklein-Canfield, Jennifer A.; Bell, Ellis

    2013-01-01

    Over the past two years, through an NSF RCN UBE grant, the ASBMB has held regional workshops for faculty members from around the country. The workshops have focused on developing lists of Core Principles or Foundational Concepts in Biochemistry and Molecular Biology, a list of foundational skills, and foundational concepts from Physics, Chemistry,…

  1. Job Satisfaction Levels of Secondary School Physics, Chemistry and Biology Teachers

    Science.gov (United States)

    Maskan, A. Kadir

    2014-01-01

    The purpose of this study is to determine the job satisfaction levels of the teachers participating in the study and to investigate whether their job satisfaction levels differ with respect to certain variables. The participants of the study were 297 science teachers (physics: 104, chemistry: 105, biology: 87 and 1 N/A) from secondary schools in…

  2. The Reproduction of Biological "Race" through Physical Education Textbooks and Curriculum

    Science.gov (United States)

    McDonald, Brent

    2013-01-01

    This paper examines the usage of "race" in high school physical education textbooks in Australia. In particular, it examines the concept of biological "race" in connection with human performance in sport. DNA studies do not indicate that separate classifiable subspecies (races) exist within modern humans. A content analysis of…

  3. Linking Automated Data Analysis and Visualization with Applications in Developmental Biology and High-Energy Physics

    Energy Technology Data Exchange (ETDEWEB)

    Ruebel, Oliver [Technical Univ. of Darmstadt (Germany)

    2009-11-20

    Knowledge discovery from large and complex collections of today's scientific datasets is a challenging task. With the ability to measure and simulate more processes at increasingly finer spatial and temporal scales, the increasing number of data dimensions and data objects is presenting tremendous challenges for data analysis and effective data exploration methods and tools. Researchers are overwhelmed with data and standard tools are often insufficient to enable effective data analysis and knowledge discovery. The main objective of this thesis is to provide important new capabilities to accelerate scientific knowledge discovery form large, complex, and multivariate scientific data. The research covered in this thesis addresses these scientific challenges using a combination of scientific visualization, information visualization, automated data analysis, and other enabling technologies, such as efficient data management. The effectiveness of the proposed analysis methods is demonstrated via applications in two distinct scientific research fields, namely developmental biology and high-energy physics.Advances in microscopy, image analysis, and embryo registration enable for the first time measurement of gene expression at cellular resolution for entire organisms. Analysis of high-dimensional spatial gene expression datasets is a challenging task. By integrating data clustering and visualization, analysis of complex, time-varying, spatial gene expression patterns and their formation becomes possible. The analysis framework MATLAB and the visualization have been integrated, making advanced analysis tools accessible to biologist and enabling bioinformatic researchers to directly integrate their analysis with the visualization. Laser wakefield particle accelerators (LWFAs) promise to be a new compact source of high-energy particles and radiation, with wide applications ranging from medicine to physics. To gain insight into the complex physical processes of particle

  4. Linking Automated Data Analysis and Visualization with Applications in Developmental Biology and High-Energy Physics

    Energy Technology Data Exchange (ETDEWEB)

    Ruebel, Oliver

    2009-12-01

    Knowledge discovery from large and complex collections of today's scientific datasets is a challenging task. With the ability to measure and simulate more processes at increasingly finer spatial and temporal scales, the increasing number of data dimensions and data objects is presenting tremendous challenges for data analysis and effective data exploration methods and tools. Researchers are overwhelmed with data and standard tools are often insufficient to enable effective data analysis and knowledge discovery. The main objective of this thesis is to provide important new capabilities to accelerate scientific knowledge discovery form large, complex, and multivariate scientific data. The research covered in this thesis addresses these scientific challenges using a combination of scientific visualization, information visualization, automated data analysis, and other enabling technologies, such as efficient data management. The effectiveness of the proposed analysis methods is demonstrated via applications in two distinct scientific research fields, namely developmental biology and high-energy physics.Advances in microscopy, image analysis, and embryo registration enable for the first time measurement of gene expression at cellular resolution for entire organisms. Analysis of high-dimensional spatial gene expression datasets is a challenging task. By integrating data clustering and visualization, analysis of complex, time-varying, spatial gene expression patterns and their formation becomes possible. The analysis framework MATLAB and the visualization have been integrated, making advanced analysis tools accessible to biologist and enabling bioinformatic researchers to directly integrate their analysis with the visualization. Laser wakefield particle accelerators (LWFAs) promise to be a new compact source of high-energy particles and radiation, with wide applications ranging from medicine to physics. To gain insight into the complex physical processes of particle

  5. Linking Automated Data Analysis and Visualization with Applications in Developmental Biology and High-Energy Physics

    International Nuclear Information System (INIS)

    Knowledge discovery from large and complex collections of today's scientific datasets is a challenging task. With the ability to measure and simulate more processes at increasingly finer spatial and temporal scales, the increasing number of data dimensions and data objects is presenting tremendous challenges for data analysis and effective data exploration methods and tools. Researchers are overwhelmed with data and standard tools are often insufficient to enable effective data analysis and knowledge discovery. The main objective of this thesis is to provide important new capabilities to accelerate scientific knowledge discovery form large, complex, and multivariate scientific data. The research covered in this thesis addresses these scientific challenges using a combination of scientific visualization, information visualization, automated data analysis, and other enabling technologies, such as efficient data management. The effectiveness of the proposed analysis methods is demonstrated via applications in two distinct scientific research fields, namely developmental biology and high-energy physics.Advances in microscopy, image analysis, and embryo registration enable for the first time measurement of gene expression at cellular resolution for entire organisms. Analysis of high-dimensional spatial gene expression datasets is a challenging task. By integrating data clustering and visualization, analysis of complex, time-varying, spatial gene expression patterns and their formation becomes possible. The analysis framework MATLAB and the visualization have been integrated, making advanced analysis tools accessible to biologist and enabling bioinformatic researchers to directly integrate their analysis with the visualization. Laser wakefield particle accelerators (LWFAs) promise to be a new compact source of high-energy particles and radiation, with wide applications ranging from medicine to physics. To gain insight into the complex physical processes of particle

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

    Science.gov (United States)

    Oghabian, Ali; Kilpinen, Sami; Hautaniemi, Sampsa; Czeizler, Elena

    2014-01-01

    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 (bi)clustering methods differentiate various sample types; (2) we evaluate how well the groups of genes discovered by the (bi)clustering 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. PMID:24651574

  7. 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.

  8. BIO2010 and beyond: What undergraduate physics does the next generation of molecular biology researchers need?

    Science.gov (United States)

    Howard, Jonathon

    2004-03-01

    What fundamental skills in mathematics, chemistry, physics, computer science and engineering are required at the undergraduate level to prepare the next generation of biology majors who will become research scientists? To address this question, Bruce Alberts, President of the National Academy of Sciences, established BIO2010, a committee of the National Research Council (USA), chaired by Lubert Stryer. The report of the committee was published in 2003 as BIO2010: Transforming Undergraduate Education for Future Research Biologists (National Academies Press, Washington DC, www.national-academies.com). I will summarize the recommendations of the Physics and Engineering Panel that was chaired by John Hopfield and give my own views of what physics is essential for researchers in cell and molecular biology.

  9. Physical design method of MPSoC

    Institute of Scientific and Technical Information of China (English)

    LIU Peng; XIA Bing-jie; TENG Zhao-wei

    2007-01-01

    Floorplan, clock network and power plan are crucial steps in deep sub-micron system-on-chip design. A novel diagonal floorplan is integrated to enhance the data sharing between different cores in system-on-chip. Custom clock network containing hand-adjusted buffers and variable routing rules is constructed to realize balanced synchronization. Effective power plan considering both IR drop and electromigration achieves high utilization and maintains power integrity in our MediaSoC. Using such methods, deep sub-micron design challenges are managed under a fast prototyping methodology, which greatly shortens the design cycle.

  10. Mathematical and computational methods in nuclear physics

    International Nuclear Information System (INIS)

    The lectures, covering various aspects of the many-body problem in nuclei, review present knowledge and include some unpublished material as well. Bohigas and Giannoni discuss the fluctuation properties of spectra of many-body systems by means of random matrix theories, and the attempts to search for quantum mechanical manifestations of classical chaotic motion. The role of spectral distributions (expressed as explicit functions of the microscopic matrix elements of the Hamiltonian) in the statistical spectroscopy of nuclear systems is analyzed by French. Zucker, after a brief review of the theoretical basis of the shell model, discusses a reformulation of the theory of effective interactions and gives a survey of the linked cluster theory. Goeke's lectures center on the mean-field methods, particularly TDHF, used in the investigation of the large-amplitude nuclear collective motion, pointing out both the successes and failures of the theory

  11. Comparing results of cultured and uncultured biological methods used in biological phosphorus removal

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Increasing attention has been paid to phosphate-accumulating organisms (PAOs) for their important role in biological phosphorus removal. In this study, microbial communities of PAOs cultivated under different carbon sources (sewage, glucose, and sodium acetate) were investigated and compared through culture-dependent and culture-independent methods, respectively. The results obtained using denaturing gradient gel electrophoresis (DGGE) of polymerase chain reaction-amplified 16S rDNA fragments revealed that the diversity of bacteria in a sewage-fed reactor (1#) was much higher than in a glucose-fed one (2#) and a sodium acetate-fed one (3#); there were common PAOs in three reactors fed by different carbon sources. Five strains were separated from three systems by using a phosphate-rich medium; they were from common bacteria isolated and three isolates could not be found in DGGE profile at all. Two isolates had good phosphorus removal ability. When the microbial diversity was studied, the molecular biological method was better than the culture-dependent one. When phosphorus removal characteristics were investigated, culture-dependent approach was more effective. Thus a combination of two methods is necessary to have a comprehensive view of PAOs.

  12. 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.

  13. 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

  14. 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

  15. 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

  16. 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

  17. Biological effects of radiation in combination with other physical, chemical or biological agents. Annex L

    International Nuclear Information System (INIS)

    This Annex considers the combined action of radiation with potentially important environmental conditions. Since there is a scarcity of systematic data on which an analysis of combined effects can be based, this Annex will be more hypothetical and will attempt to suggest definitions, to identify suitable methods of analysis, to select from a large amount of diffuse information the conditions and the data of importance for further consideration and to provide suggestions for future research. For humans in environmental circumstances the UNSCEAR Committee has been unable to document any clear case of synergistic interaction between radiation and other agents, which could lead to substantial modifications of the risk estimates for significant sections of the population

  18. Physical Model Method for Seismic Study of Concrete Dams

    Directory of Open Access Journals (Sweden)

    Bogdan Roşca

    2008-01-01

    Full Text Available The study of the dynamic behaviour of concrete dams by means of the physical model method is very useful to understand the failure mechanism of these structures to action of the strong earthquakes. Physical model method consists in two main processes. Firstly, a study model must be designed by a physical modeling process using the dynamic modeling theory. The result is a equations system of dimensioning the physical model. After the construction and instrumentation of the scale physical model a structural analysis based on experimental means is performed. The experimental results are gathered and are available to be analysed. Depending on the aim of the research may be designed an elastic or a failure physical model. The requirements for the elastic model construction are easier to accomplish in contrast with those required for a failure model, but the obtained results provide narrow information. In order to study the behaviour of concrete dams to strong seismic action is required the employment of failure physical models able to simulate accurately the possible opening of joint, sliding between concrete blocks and the cracking of concrete. The design relations for both elastic and failure physical models are based on dimensional analysis and consist of similitude relations among the physical quantities involved in the phenomenon. The using of physical models of great or medium dimensions as well as its instrumentation creates great advantages, but this operation involves a large amount of financial, logistic and time resources.

  19. Using the Case Study Method in Teaching College Physics

    Science.gov (United States)

    Burko, Lior M.

    2016-10-01

    The case study teaching method has a long history (starting at least with Socrates) and wide current use in business schools, medical schools, law schools, and a variety of other disciplines. However, relatively little use is made of it in the physical sciences, specifically in physics or astronomy. The case study method should be considered by physics faculty as part of the effort to transition the teaching of college physics from the traditional frontal-lecture format to other formats that enhance active student participation. In this paper we endeavor to interest physics instructors in the case study method, and hope that it would also serve as a call for more instructors to produce cases that they use in their own classes and that can also be adopted by other instructors.

  20. Using the case-study method in teaching college physics

    CERN Document Server

    Burko, Lior M

    2016-01-01

    The case-study teaching method has a long history (starting at least with Socrates), and wide current use in business schools, medical schools, law schools, and a variety of other disciplines. However, relatively little use is made of it in the physical sciences, specifically in physics or astronomy. The case-study method should be considered by physics faculty as part of the effort to transition the teaching of college physics from the traditional frontal-lecture format to other formats that enhance active student participation. In this paper we endeavor to interest physics instructors in the case-study method, and hope that it would also serve as a call for more instructors to produce cases that they use in their own classes and that can also be adopted by other instructors.

  1. Physical methods for dose determinations in mammography

    International Nuclear Information System (INIS)

    There is small but significant risk of radiation induced carcinogenesis associated with mammography. High quality mammography is the best method of early breast cancer detection. Besides, image as a basic requirement for an effective diagnosis, radiation protection principles require the radiation dose to the imaged tissue to be as low as compatible with required image quality. Glandular tissues is the most radiosensitive, thus the evaluation of Mean Glandular Dose (MGD) is the most relevant factor for estimation of radiation risk as well as the comparison of performance at different mammographic machines. MGD was estimated using Entrance Surface Air KERMA at the breast surface Kf measured free in air and appropriate conversation factors. Under evaluation were eight mammographic machines at institute of radiology, Skopje and mammographic machines at the Health's centers in Vevchani, Bitola, Prilep, Negotino and Shtip. Estimated values of MGD do not exceed the European reference level (<2mGy), but it can not be generally concluded for all mammography units in Macedonia, until their examination. In the near future all mammography units will be subject of Q C tests and dose measurements. (Author)

  2. Tritium in the Physical and Biological Sciences. Vol. II. Proceedings of the Symposium on the Detection and Use of Tritium in the Physical and Biological Sciences

    International Nuclear Information System (INIS)

    The use of tritium for research in physics, chemistry, biology and hydrology has in recent years become increasingly important. It was for this reason that the first international conference to discuss the progress of new developments was organized by the IAEA in conjunction with the Joint Commission on Applied Radioactivity and held from 3 — 10 May 1961, in Vienna. The first five sessions of the Symposium were devoted to the use of tritium in hydrology, physics and chemistry. Special emphasis was laid on the role of tritium as a tracer in hydrology, especially in the study of water movement. The establishment and improvement of counting and detection techniques to facilitate the application of tritium as a tracer was another aspect discussed in this part of the proceedings. Papers were read on the preparation of tritiated compounds and it was generally agreed that further clarification of the mechanism of various techniques, and of the Wilzbach gas exposure technique in particular, would lead to further developments in the synthesis of a number of tritium compounds important in biology. Other papers were concerned with tritium applications to studies of the mechanism of some chemical reactions together with the effects of tritium isotopes. During the second part of the Symposium the biological applications of tritium and tritiated compounds were discussed. These included general problems connected with the biological uses of tritium and the radiation effects of tritium on living organisms such as viruses, bacteria and cancer cells. The value of tritium in biological studies became apparent because of the ease with which a large number of metabolically active compounds such as hormones, vitamins and other important constituents in the body can be labelled with tritium. Tritium is also a weak beta-emitter and autoradiographs of tissues and single cells containing tritium-labelled compounds allow an excellent localization of the tracer. The Symposium was attended

  3. Solar energy utilization by physical methods.

    Science.gov (United States)

    Wolf, M

    1974-04-19

    On the basis of the estimated contributions of these differing methods of the utilization of solar energy, their total energy delivery impact on the projected U.S. energy economy (9) can be evaluated (Fig. 5). Despite this late energy impact, the actual sales of solar energy utilization equipment will be significant at an early date. Potential sales in photovoltaic arrays alone could exceed $400 million by 1980, in order to meet the projected capacity buildup (10). Ultimately, the total energy utilization equipment industry should attain an annual sales volume of several tens of billion dollars in the United States, comparable to that of several other energy related industries. Varying amounts of technology development are required to assure the technical and economic feasibility of the different solar energy utilization methods. Several of these developments are far enough along that the paths can be analyzed from the present time to the time of demonstration of technical and economic feasibility, and from there to production and marketing readiness. After that point, a period of market introduction will follow, which will differ in duration according to the type of market addressed. It may be noted that the present rush to find relief from the current energy problem, or to be an early leader in entering a new market, can entail shortcuts in sound engineering practice, particularly in the areas of design for durability and easy maintenance, or of proper application engineering. The result can be loss of customer acceptance, as has been experienced in the past with various products, including solar water heaters. Since this could cause considerable delay in achieving the expected total energy impact, it will be important to spend adequate time at this stage for thorough development. Two other aspects are worth mentioning. The first is concerned with the economic impacts. Upon reflection on this point, one will observe that largescale solar energy utilization will

  4. Effective Teaching Methods--Project-based Learning in Physics

    Science.gov (United States)

    Holubova, Renata

    2008-01-01

    The paper presents results of the research of new effective teaching methods in physics and science. It is found out that it is necessary to educate pre-service teachers in approaches stressing the importance of the own activity of students, in competences how to create an interdisciplinary project. Project-based physics teaching and learning…

  5. Coordinating an IPLS class with a biology curriculum: NEXUS/Physics

    Science.gov (United States)

    Redish, Edward

    2014-03-01

    A multi-disciplinary team of scientists has been reinventing the Introductory Physics for Life Scientists (IPLS) course at the University of Maryland. We focus on physics that connects elements common to the curriculum for all life scientists - molecular and cellular biology - with building general scientific competencies, such as mathematical modeling, reasoning from core principles, and multi-representation translation. The prerequisites for the class include calculus, chemistry, and biology. In addition to building the basic ideas of the Newtonian framework, electric currents, and optics, our prerequisites allow us to include topics such as atomic interactions and chemical bonding, random motion and diffusion, thermodynamics (including entropy and free energy), and spectroscopy. Our chemical bonding unit helps students link the view of energy developed in traditional macroscopic physics with the idea of chemical bonding as a source of energy presented in their chemistry and biology classes. Education research has played a central role in our design, as has a strong collaboration between our Discipline-Based Education and the Biophysics Research groups. These elements permit us to combine modern pedagogy with cutting-edge insights into the physics of living systems. Supported in part by a grant from HHMI and the US NSF grant #1122818/.

  6. 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

  7. Microbeam radiation therapy. Physical and biological aspects of a new cancer therapy and development of a treatment planning system

    Energy Technology Data Exchange (ETDEWEB)

    Bartzsch, Stefan

    2014-11-05

    Microbeam Radiation Therapy (MRT) is a novel treatment strategy against cancer. Highly brilliant synchrotron radiation is collimated to parallel, a few micrometre wide, planar beams and used to irradiate malignant tissues with high doses. The applied peak doses are considerably higher than in conventional radiotherapy, but valley doses between the beams remain underneath the established tissue tolerance. Previous research has shown that these beam geometries spare normal tissue, while being effective in tumour ablation. In this work physical and biological aspects of the therapy were investigated. A therapy planning system was developed for the first clinical treatments at the European Synchrotron Radiation Facility in Grenoble (France) and a dosimetry method based on radiochromic films was created to validate planned doses with measurements on a micrometre scale. Finally, experiments were carried out on a cellular level in order to correlate the physically planned doses with the biological damage caused in the tissue. The differences between Monte Carlo dose and dosimetry are less than 10% in the valley and 5% in the peak regions. Developed alternative faster dose calculation methods deviate from the computational intensive MC simulations by less than 15% and are able to determine the dose within a few minutes. The experiments in cell biology revealed an significant influence of intercellular signalling on the survival of cells close to radiation boundaries. These observations may not only be important for MRT but also for conventional radiotherapy.

  8. A physical-biological coupled model for algal dynamics in lakes.

    Science.gov (United States)

    Franke, U; Hutter, K; Jöhnk, K

    1999-03-01

    A coupled model is presented for simulating physical and biological dynamics in fresh water lakes. The physical model rests upon the assumption that the turbulent kinetic energy in a water column of the lake is fully contained in a mixed layer of variable depth. Below this layer the mechanical energy content is assumed to vanish. Additionally, the horizontal currents are ignored. This one-dimensional two-layered model describes the internal conversion of the mechanical and thermal energy input from the atmosphere into an evolution of the mixed layer depth by entrainment and detrainment mechanisms. It is supposed to form the physical domain in which the simulation of the biological processes takes place. The biological model describes mathematically the typical properties of phyto- and zooplankton, their interactions and their response to the physical environment. This description then allows the study of the behaviour of Lagrangian clusters of virtual plankton that are subjected to such environments. The essence of the model is the dynamical simulation of an arbitrary number of nutrient limited phytoplankton species and one species of zooplankton. The members of the food web above and below affect the model only statically. The model is able to reproduce the typical progression of a predator-prey interaction between phyto- and zooplankton as well as the exploitative competition for nutrients between two phytoplankton species under grazing pressure of Daphnia. It suggests that the influence of the biological system on the physical system results in a weak increase of the surface temperature for coupled simulations, but a considerably higher seasonal thermocline in spring and a lower one in autumn.

  9. Salt marsh response to the effects of physical and biological processes

    Science.gov (United States)

    Roner, Marcella; D'Alpaos, Andrea; Ghinassi, Massimiliano; Franceschinis, Erica; Realdon, Nicola; Marani, Marco

    2014-05-01

    Salt marshes are widespread features of the tidal landscape governed by the interacting physical and biological processes. These crucially important ecosystems provide valuable services and are currently threatened by the effects of increasing rates of relative sea level rise (RSLR) and decreasing sediment supply. Although a few studies have analyzed the biomorphological evolution of salt marsh systems, a complete understanding of the two-way feedbacks between physical and biological processes is still lacking. The temporal evolution of marsh elevation is governed by the balance between inorganic and organic accretion rates, and the rate of RSLR. Studies based on field observations and modeling suggest that, in equilibrium conditions, marsh inorganic accretion rates, and the related platform elevations, decrease with distance from the main creek whereas the organic deposition gradually increases. In order to analyze salt marsh responses to the effect of physical and biological processes, about 100 sediment samples were collected on the San Felice salt marsh, Venice Lagoon. For each sample, local coordinates, surface elevations and vegetation cover were detected, whereas inorganic and organic sediment content, together with grain size distribution, were determined and analyzed. Loss On Ignition (LOI) and a double treatment with H2O2 and NaClO, were used to estimate the amount of organic matter in each sample. Particle size analysis was carried out on the inorganic fraction with a Mastersizer that uses laser diffraction techniques to measure the grain size. Our results show that the San Felice salt marsh is characterized by a concave-up profile, as commonly displayed by marshes worldwide. Marsh elevation is highest along the boundary and decreases toward the inner marsh. The inorganic deposition, which is maximum along the marsh edge, decreases with distance from the channel network, because as water moves across the marsh, the velocity is reduced and sediment

  10. Physical properties and biological activities of hesperetin and naringenin in complex with methylated β-cyclodextrin

    Directory of Open Access Journals (Sweden)

    Waratchada Sangpheak

    2015-12-01

    Full Text Available The aim of this work is to improve physical properties and biological activities of the two flavanones hesperetin and naringenin by complexation with β-cyclodextrin (β-CD and its methylated derivatives (2,6-di-O-methyl-β-cyclodextrin, DM-β-CD and randomly methylated-β-CD, RAMEB. The free energies of inclusion complexes between hesperetin with cyclodextrins (β-CD and DM-β-CD were theoretically investigated by molecular dynamics simulation. The free energy values obtained suggested a more stable inclusion complex with DM-β-CD. The vdW force is the main guest–host interaction when hesperetin binds with CDs. The phase solubility diagram showed the formation of a soluble complex of AL type, with higher increase in solubility and stability when hesperetin and naringenin were complexed with RAMEB. Solid complexes were prepared by freeze-drying, and the data from differential scanning calorimetry (DSC confirmed the formation of inclusion complexes. The data obtained by the dissolution method showed that complexation with RAMEB resulted in a better release of both flavanones to aqueous solution. The flavanones-β-CD/DM-β-CD complexes demonstrated a similar or a slight increase in anti-inflammatory activity and cytotoxicity towards three different cancer cell lines. The overall results suggested that solubilities and bioactivities of both flavanones were increased by complexation with methylated β-CDs.

  11. DNA as information: at the crossroads between biology, mathematics, physics and chemistry

    Science.gov (United States)

    2016-01-01

    On the one hand, biology, chemistry and also physics tell us how the process of translating the genetic information into life could possibly work, but we are still very far from a complete understanding of this process. On the other hand, mathematics and statistics give us methods to describe such natural systems—or parts of them—within a theoretical framework. Also, they provide us with hints and predictions that can be tested at the experimental level. Furthermore, there are peculiar aspects of the management of genetic information that are intimately related to information theory and communication theory. This theme issue is aimed at fostering the discussion on the problem of genetic coding and information through the presentation of different innovative points of view. The aim of the editors is to stimulate discussions and scientific exchange that will lead to new research on why and how life can exist from the point of view of the coding and decoding of genetic information. The present introduction represents the point of view of the editors on the main aspects that could be the subject of future scientific debate. PMID:26857674

  12. DNA as information: at the crossroads between biology, mathematics, physics and chemistry.

    Science.gov (United States)

    Cartwright, Julyan H E; Giannerini, Simone; González, Diego L

    2016-03-13

    On the one hand, biology, chemistry and also physics tell us how the process of translating the genetic information into life could possibly work, but we are still very far from a complete understanding of this process. On the other hand, mathematics and statistics give us methods to describe such natural systems-or parts of them-within a theoretical framework. Also, they provide us with hints and predictions that can be tested at the experimental level. Furthermore, there are peculiar aspects of the management of genetic information that are intimately related to information theory and communication theory. This theme issue is aimed at fostering the discussion on the problem of genetic coding and information through the presentation of different innovative points of view. The aim of the editors is to stimulate discussions and scientific exchange that will lead to new research on why and how life can exist from the point of view of the coding and decoding of genetic information. The present introduction represents the point of view of the editors on the main aspects that could be the subject of future scientific debate.

  13. Topological data analysis: A promising big data exploration tool in biology, analytical chemistry and physical chemistry.

    Science.gov (United States)

    Offroy, Marc; Duponchel, Ludovic

    2016-03-01

    An important feature of experimental science is that data of various kinds is being produced at an unprecedented rate. This is mainly due to the development of new instrumental concepts and experimental methodologies. It is also clear that the nature of acquired data is significantly different. Indeed in every areas of science, data take the form of always bigger tables, where all but a few of the columns (i.e. variables) turn out to be irrelevant to the questions of interest, and further that we do not necessary know which coordinates are the interesting ones. Big data in our lab of biology, analytical chemistry or physical chemistry is a future that might be closer than any of us suppose. It is in this sense that new tools have to be developed in order to explore and valorize such data sets. Topological data analysis (TDA) is one of these. It was developed recently by topologists who discovered that topological concept could be useful for data analysis. The main objective of this paper is to answer the question why topology is well suited for the analysis of big data set in many areas and even more efficient than conventional data analysis methods. Raman analysis of single bacteria should be providing a good opportunity to demonstrate the potential of TDA for the exploration of various spectroscopic data sets considering different experimental conditions (with high noise level, with/without spectral preprocessing, with wavelength shift, with different spectral resolution, with missing data).

  14. Statistical Inference Methods for Sparse Biological Time Series Data

    Directory of Open Access Journals (Sweden)

    Voit Eberhard O

    2011-04-01

    Full Text Available Abstract Background Comparing metabolic profiles under different biological perturbations has become a powerful approach to investigating the functioning of cells. The profiles can be taken as single snapshots of a system, but more information is gained if they are measured longitudinally over time. The results are short time series consisting of relatively sparse data that cannot be analyzed effectively with standard time series techniques, such as autocorrelation and frequency domain methods. In this work, we study longitudinal time series profiles of glucose consumption in the yeast Saccharomyces cerevisiae under different temperatures and preconditioning regimens, which we obtained with methods of in vivo nuclear magnetic resonance (NMR spectroscopy. For the statistical analysis we first fit several nonlinear mixed effect regression models to the longitudinal profiles and then used an ANOVA likelihood ratio method in order to test for significant differences between the profiles. Results The proposed methods are capable of distinguishing metabolic time trends resulting from different treatments and associate significance levels to these differences. Among several nonlinear mixed-effects regression models tested, a three-parameter logistic function represents the data with highest accuracy. ANOVA and likelihood ratio tests suggest that there are significant differences between the glucose consumption rate profiles for cells that had been--or had not been--preconditioned by heat during growth. Furthermore, pair-wise t-tests reveal significant differences in the longitudinal profiles for glucose consumption rates between optimal conditions and heat stress, optimal and recovery conditions, and heat stress and recovery conditions (p-values Conclusion We have developed a nonlinear mixed effects model that is appropriate for the analysis of sparse metabolic and physiological time profiles. The model permits sound statistical inference procedures

  15. Advantages and challenges of using physics curricula as a model for reforming an undergraduate biology course.

    Science.gov (United States)

    Donovan, D A; Atkins, L J; Salter, I Y; Gallagher, D J; Kratz, R F; Rousseau, J V; Nelson, G D

    2013-06-01

    We report on the development of a life sciences curriculum, targeted to undergraduate students, which was modeled after a commercially available physics curriculum and based on aspects of how people learn. Our paper describes the collaborative development process and necessary modifications required to apply a physics pedagogical model in a life sciences context. While some approaches were easily adapted, others provided significant challenges. Among these challenges were: representations of energy, introducing definitions, the placement of Scientists' Ideas, and the replicability of data. In modifying the curriculum to address these challenges, we have come to see them as speaking to deeper differences between the disciplines, namely that introductory physics--for example, Newton's laws, magnetism, light--is a science of pairwise interaction, while introductory biology--for example, photosynthesis, evolution, cycling of matter in ecosystems--is a science of linked processes, and we suggest that this is how the two disciplines are presented in introductory classes. We illustrate this tension through an analysis of our adaptations of the physics curriculum for instruction on the cycling of matter and energy; we show that modifications of the physics curriculum to address the biological framework promotes strong gains in student understanding of these topics, as evidenced by analysis of student work.

  16. Methods of biological dosimetry employing chromosome-specific staining

    Science.gov (United States)

    Gray, Joe W.; Pinkel, Daniel

    2000-01-01

    Methods and compositions for staining based upon nucleic acid sequence that employ nucleic acid probes are provided. Said methods produce staining patterns that can be tailored for specific cytogenetic analyses. Said probes are appropriate for in situ hybridization and stain both interphase and metaphase chromosomal material with reliable signals. The nucleic acid probes are typically of a complexity greater than 50 kb, the complexity depending upon the cytogenetic application. Methods are provided to disable the hybridization capacity of shared, high copy repetitive sequences and/or remove such sequences to provide for useful contrast. Still further methods are provided to produce chromosome-specific staining reagents which are made specific to the targeted chromosomal material, which can be one or more whole chromosomes, one or more regions on one or more chromosomes, subsets of chromosomes and/or the entire genome. Probes and test kits are provided for use in tumor cytogenetics, in the detection of disease related loci, in analysis of structural abnormalities, such as translocations, and for biological dosimetry. Further, methods and prenatal test kits are provided to stain targeted chromosomal material of fetal cells, including fetal cells obtained from maternal blood. Still further, the invention provides for automated means to detect and analyse chromosomal abnormalities.

  17. Exergames: neuroplastic hypothesis about cognitive improvement and biological effects on physical function of institutionalized older persons

    Science.gov (United States)

    Monteiro-Junior, Renato Sobral; Vaghetti, César Augusto Otero; Nascimento, Osvaldo José M.; Laks, Jerson; Deslandes, Andrea Camaz

    2016-01-01

    Exergames can be considered a dual task because the games are performed by a man-videogame interface, requiring cognitive and motor functions simultaneously. Although the literature has shown improvements of cognitive and physical functions due to exergames, the intrinsic mechanisms involved in these functional changes have still not been elucidated. The aims of the present study were (1) to demonstrate the known biological mechanisms of physical exercise regarding muscle adaptation and establish a relationship with exergames; and (2) to present a neurobiological hypothesis about the neuroplastic effects of exergames on the cognitive function of institutionalized older persons. These hypotheses are discussed. PMID:27073355

  18. DEGRO 2009. Radiation oncology - medical physics - radiation biology. Abstracts; DEGRO 2009. Radioonkologie - Medizinische Physik - Strahlenbiologie. Abstracts

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2009-06-15

    The special volume of the journal covers the abstracts of the DEGRO 2009 meeting on radiation oncology, medical physics, and radiation biology, covering the following topics: seldom diseases, gastrointestinal tumors, radiation reactions and radiation protection, medical care and science, central nervous system, medical physics, the non-parvicellular lung carcinomas, ear-nose-and throat, target-oriented radiotherapy plus ''X'', radio-oncology - young academics, lymphomas, mammary glands, modern radiotherapy, life quality and palliative radiotherapy, radiotherapy of the prostate carcinoma, imaging for planning and therapy, the digital documentation in clinics and practical experiences, NMR imaging and tomography, hadrons - actual status in Germany, urinal tract oncology, radiotoxicity.

  19. Exergames: neuroplastic hypothesis about cognitive improvement and biological effects on physical function of institutionalized older persons.

    Science.gov (United States)

    Monteiro-Junior, Renato Sobral; Vaghetti, César Augusto Otero; Nascimento, Osvaldo José M; Laks, Jerson; Deslandes, Andrea Camaz

    2016-02-01

    Exergames can be considered a dual task because the games are performed by a man-videogame interface, requiring cognitive and motor functions simultaneously. Although the literature has shown improvements of cognitive and physical functions due to exergames, the intrinsic mechanisms involved in these functional changes have still not been elucidated. The aims of the present study were (1) to demonstrate the known biological mechanisms of physical exercise regarding muscle adaptation and establish a relationship with exergames; and (2) to present a neurobiological hypothesis about the neuroplastic effects of exergames on the cognitive function of institutionalized older persons. These hypotheses are discussed. PMID:27073355

  20. Physical, chemical, and biological data for selected streams in Chester County, Pennsylvania, 1995-97

    Science.gov (United States)

    Reif, Andrew G.

    2000-01-01

    Physical, chemical, and biological data were collected at 51 sampling sites in Chester County, Pa., from 1970 through 1997 as part of the Stream Conditions of Chester County Program. This report presents data collected from 43 sites from 1995 through 1997 that constitute a continuation of the program. Physical data include water temperature, instantaneous stream discharge, pH, alkalinity, specific conductance, and dissolved oxygen. Chemical data collected include laboratory determinations of nutrients and major ions in whole water samples and selected metals, pesticides, gross polychlorinated biphenyls (PCB's), gross polychlorinated napthalenes (PCN's), and total carbon in stream-sediment samples. The biological data include benthic-macroinvertebrate populations. The data are presented without interpretation. Chester County is undergoing urbanization as agricultural land is converted to residential developments, commercial areas, and industrial and corporate parks. The major goal of the Stream Conditions of Chester County Program is to further the understanding of stream changes in response to urbanization.

  1. Physical, chemical, and biological data for selected streams in Chester County, Pennsylvania, 1981-94

    Science.gov (United States)

    Reif, Andrew G.

    1999-01-01

    Physical, chemical, and biological data were collected at 51 sampling sites in Chester County, Pa., from 1970 through 1994 as part of the Stream Conditions of Chester County Program. This report presents data collected from 1981 through 1994. Physical data include water temperature, instantaneous stream discharge, pH, alkalinity, specific conductance, and dissolved oxygen. Chemical data include laboratory determinations of nutrients, major ions, and selected metals in whole water samples and selected metals, pesticides, gross polychlorinated biphenyls (PCB?s), gross polychlorinated napthalenes (PCN?s), and total carbon in stream-bottom sediment samples. The biological data consists of benthic macroinvertebrate population analyses and diversity indices. Chester County is undergoing rapid urbanization as agricultural lands are converted to residential, commercial, and industrial areas. The purpose of the Stream Conditions of Chester County Program is to further the understanding of stream habitat and chemical changes in response to this urbanization.

  2. Research Data in Core Journals in Biology, Chemistry, Mathematics, and Physics.

    Directory of Open Access Journals (Sweden)

    Ryan P Womack

    Full Text Available This study takes a stratified random sample of articles published in 2014 from the top 10 journals in the disciplines of biology, chemistry, mathematics, and physics, as ranked by impact factor. Sampled articles were examined for their reporting of original data or reuse of prior data, and were coded for whether the data was publicly shared or otherwise made available to readers. Other characteristics such as the sharing of software code used for analysis and use of data citation and DOIs for data were examined. The study finds that data sharing practices are still relatively rare in these disciplines' top journals, but that the disciplines have markedly different practices. Biology top journals share original data at the highest rate, and physics top journals share at the lowest rate. Overall, the study finds that within the top journals, only 13% of articles with original data published in 2014 make the data available to others.

  3. Research Data in Core Journals in Biology, Chemistry, Mathematics, and Physics.

    Science.gov (United States)

    Womack, Ryan P

    2015-01-01

    This study takes a stratified random sample of articles published in 2014 from the top 10 journals in the disciplines of biology, chemistry, mathematics, and physics, as ranked by impact factor. Sampled articles were examined for their reporting of original data or reuse of prior data, and were coded for whether the data was publicly shared or otherwise made available to readers. Other characteristics such as the sharing of software code used for analysis and use of data citation and DOIs for data were examined. The study finds that data sharing practices are still relatively rare in these disciplines' top journals, but that the disciplines have markedly different practices. Biology top journals share original data at the highest rate, and physics top journals share at the lowest rate. Overall, the study finds that within the top journals, only 13% of articles with original data published in 2014 make the data available to others.

  4. Modelling the Influence of Shielding on Physical and Biological Organ Doses

    CERN Document Server

    Ballarini, Francesca; Ferrari, Alfredo; Ottolenghi, Andrea; Pelliccioni, Maurizio; Scannicchio, Domenico

    2002-01-01

    Distributions of "physical" and "biological" dose in different organs were calculated by coupling the FLUKA MC transport code with a geometrical human phantom inserted into a shielding box of variable shape, thickness and material. While the expression "physical dose" refers to the amount of deposited energy per unit mass (in Gy), "biological dose" was modelled with "Complex Lesions" (CL), clustered DNA strand breaks calculated in a previous work based on "event-by-event" track-structure simulations. The yields of complex lesions per cell and per unit dose were calculated for different radiation types and energies, and integrated into a version of FLUKA modified for this purpose, allowing us to estimate the effects of mixed fields. As an initial test simulation, the phantom was inserted into an aluminium parallelepiped and was isotropically irradiated with 500 MeV protons. Dose distributions were calculated for different values of the shielding thickness. The results were found to be organ-dependent. In most ...

  5. Natural physical and biological processes compromise the long-term performance of compacted soil caps

    International Nuclear Information System (INIS)

    Compacted soil barriers are components of essentially all caps placed on closed waste disposal sites. The intended functions of soil barriers in waste facility caps include restricting infiltration of water and release of gases and vapors, either independently or in combination with synthetic membrane barriers, and protecting other manmade or natural barrier components. Review of the performance of installed soil barriers and of natural processes affecting their performance indicates that compacted soil caps may function effectively for relatively short periods (years to decades), but natural physical and biological processes can be expected to cause them to fail in the long term (decades to centuries). This paper addresses natural physical and biological processes that compromise the performance of compacted soil caps and suggests measures that may reduce the adverse consequences of these natural failure mechanisms

  6. InfInformation Theory and Computational Thermodynamics: Lessons for Biology from Physics

    Directory of Open Access Journals (Sweden)

    Hector Zenil

    2012-11-01

    Full Text Available We survey a few aspects of the thermodynamics of computation, connecting information, thermodynamics, computability and physics. We suggest some lines of research into how information theory and computational thermodynamics can help us arrive at a better understanding of biological processes. We argue that while a similar connection between information theory and evolutionary biology seems to be growing stronger and stronger, biologists tend to use information simply as a metaphor. While biologists have for the most part been influenced and inspired by information theory as developed by Claude Shannon, we think the introduction of algorithmic complexity into biology will turn out to be a much deeper and more fruitful cross-pollination.

  7. Radiation physics, biophysics, and radiation biology. Progress report, December 1, 1985-November 30, 1986

    International Nuclear Information System (INIS)

    This is the annual report of the Radiological Research Laboratory of the Department of Radiation Oncology, Columbia University. The bulk of the research of the Laboratory involves basic and fundamental aims, not confined to radiotherapy. Research carried out in the Laboratory covers the determination of microdosimetry quantities, computer simulation of particle tracks, determination of oncogenic transformation, and the transfection of DNA into cells. The Hallmark of the Laboratory is the interaction between physics and biology

  8. Influence of physical and chemical factors on biological leaching process of copper from printed circuit boards

    OpenAIRE

    Willner, J

    2013-01-01

    The article presents the results of the research regarding the biological leaching of this metal from electronic wastes components in the form of printed circuit boards. The purpose of the study was to evaluate the influence of some physical and chemical factors (e.g. pH, oxidation-reduction potential) on bioleaching process and efficiency of copper transfer from solid phase into solution. Bioleaching experiments were carried out with pure cultures of Acidithiobacillus ferrooxidans. The obtai...

  9. Nonequilibrium thermodynamics transport and rate processes in physical, chemical and biological systems

    CERN Document Server

    Demirel, Yasar

    2014-01-01

    Natural phenomena consist of simultaneously occurring transport processes and chemical reactions. These processes may interact with each other and may lead to self-organized structures, fluctuations, instabilities, and evolutionary systems. Nonequilibrium Thermodynamics, 3rd edition emphasizes the unifying role of thermodynamics in analyzing the natural phenomena. This third edition updates and expands on the first and second editions by focusing on the general balance equations for coupled processes of physical, chemical, and biological systems. The new edition contains a new chapte

  10. Effects of timber harvest on river food webs: physical, chemical and biological responses.

    Directory of Open Access Journals (Sweden)

    J Timothy Wootton

    Full Text Available I compared physical, chemical and biological characteristics of nine rivers running through three timber harvest regimes to investigate the effects of land use on river ecosystems, to determine whether these corresponded to changes linked with downstream location, and to compare the response of different types of indicator variables. Physical variables changed with downstream location, but varied little with timber harvest. Most chemical variables increased strongly with timber harvest, but not with downstream location. Most biological variables did not vary systematically with either timber harvest or downstream location. Dissolved organic carbon did not vary with timber harvest or downstream location, but correlated positively with salmonid abundance. Nutrient manipulations revealed no general pattern of nutrient limitation with timber harvest or downstream location. The results suggest that chemical variables most reliably indicate timber harvest impact in these systems. The biological variables most relevant to human stakeholders were surprisingly insensitive to timber harvest, however, apparently because of decoupling from nutrient responses and unexpectedly weak responses by physical variables.

  11. Integration of physics and biology: synergistic undergraduate education for the 21st century.

    Science.gov (United States)

    Woodin, Terry; Vasaly, Helen; McBride, Duncan; White, Gary

    2013-06-01

    This is an exciting time to be a biologist. The advances in our field and the many opportunities to expand our horizons through interaction with other disciplines are intellectually stimulating. This is as true for people tasked with helping the field move forward through support of research and education projects that serve the nation's needs as for those carrying out that research and educating the next generation of biologists. So, it is a pleasure to contribute to this edition of CBE-Life Sciences Education. This column will cover three aspects of the interactions of physics and biology as seen from the viewpoint of four members of the Division of Undergraduate Education of the National Science Foundation. The first section places the material to follow in context. The second reviews some of the many interdisciplinary physics-biology projects we support. The third highlights mechanisms available for supporting new physics-biology undergraduate education projects based on ideas that arise, focusing on those needing and warranting outside support to come to fruition.

  12. Multi-Level iterative methods in computational plasma physics

    International Nuclear Information System (INIS)

    Plasma physics phenomena occur on a wide range of spatial scales and on a wide range of time scales. When attempting to model plasma physics problems numerically the authors are inevitably faced with the need for both fine spatial resolution (fine grids) and implicit time integration methods. Fine grids can tax the efficiency of iterative methods and large time steps can challenge the robustness of iterative methods. To meet these challenges they are developing a hybrid approach where multigrid methods are used as preconditioners to Krylov subspace based iterative methods such as conjugate gradients or GMRES. For nonlinear problems they apply multigrid preconditioning to a matrix-few Newton-GMRES method. Results are presented for application of these multilevel iterative methods to the field solves in implicit moment method PIC, multidimensional nonlinear Fokker-Planck problems, and their initial efforts in particle MHD

  13. Evolution of a physical and biological front from upwelling to relaxation

    Science.gov (United States)

    Zhang, Yanwu; Bellingham, James G.; Ryan, John P.; Godin, Michael A.

    2015-10-01

    Fronts influence the structure and function of coastal marine ecosystems. Due to the complexity and dynamic nature of coastal environments and the small scales of frontal gradient zones, frontal research is difficult. To advance this challenging research we developed a method enabling an autonomous underwater vehicle (AUV) to detect and track fronts, thereby providing high-resolution observations in the moving reference frame of the front itself. This novel method was applied to studying the evolution of a frontal zone in the coastal upwelling environment of Monterey Bay, California, through a period of variability in upwelling intensity. Through 23 frontal crossings in four days, the AUV detected the front using real-time analysis of vertical thermal stratification to identify water types and the front between them, and the vehicle tracked the front as it moved more than 10 km offshore. The physical front coincided with a biological front between strongly stratified phytoplankton-enriched water inshore of the front, and weakly stratified phytoplankton-poor water offshore of the front. While stratification remained a consistent identifier, conditions on both sides of the front changed rapidly as regional circulation responded to relaxation of upwelling winds. The offshore water type transitioned from relatively cold and saline upwelled water to relatively warm and fresh coastal transition zone water. The inshore water type exhibited an order of magnitude increase in chlorophyll concentrations and an associated increase in oxygen and decrease in nitrate. It also warmed and freshened near the front, consistent with the cross-frontal exchange that was detected in the high-resolution AUV data. AUV-observed cross-frontal exchanges beneath the surface manifestation of the front emphasize the importance of AUV synoptic water column surveys in the frontal zone.

  14. A four-dimensional validation of a coupled physical-biological model of the Arabian Sea

    Science.gov (United States)

    Hood, Raleigh R.; Kohler, Kevin E.; McCreary, Julian P.; Smith, Sharon L.

    2003-11-01

    In this paper, we use a coupled biological/physical model to synthesize and understand observations taken during the US JGOFS Arabian Sea Process Study (ASPS). Its physical component is a variable-density, 4 1/2-layer model; its biological component consists of a set of advective-diffusive equations in each layer that determine nitrogen concentrations in four compartments, namely, nutrients, phytoplankton, zooplankton, and detritus. Solutions are compared to time series and cruise sections from the ASPS data set, including observations of mixed-layer thickness, chlorophyll concentrations, inorganic nitrogen concentrations, particulate nitrogen export flux, zooplankton biomass, and primary production. Through these comparisons, we adjust model parameters to obtain a "best-fit" main-run solution, identify key biological and physical processes, and assess model strengths and weaknesses. Substantial improvements in the model/data comparison are obtained by: (1) adjusting the turbulence-production coefficients in the mixed-layer model to thin the mixed layer; (2) increasing the detrital sinking and remineralization rates to improve the timing and amplitude of the model's export flux; and (3) introducing a parameterization of particle aggregation to lower phytoplankton concentrations in coastal upwelling regions. With these adjustments, the model captures many key aspects of the observed physical and biogeochemical variability in offshore waters, including the near-surface DIN and phytoplankton P concentrations, mesozooplankton biomass, and primary production. Nevertheless, there are still significant model/data discrepancies of P for most of the cruises. Most of them can be attributed to forcing or process errors in the physical model: inaccurate mixed-layer thicknesses, lack of mesoscale eddies and filaments, and differences in the timing and spatial extent of coastal upwelling. Relatively few are clearly related to the simplicity of the biological model, the model

  15. The Effect of Sterilization Methods on the Physical Properties of Silk Sericin Scaffolds

    OpenAIRE

    Siritientong, Tippawan; Srichana, Teerapol; Aramwit, Pornanong

    2011-01-01

    Protein-based biomaterials respond differently to sterilization methods. Since protein is a complex structure, heat, or irradiation may result in the loss of its physical or biological properties. Recent investigations have shown that sericin, a degumming silk protein, can be successfully formed into a 3-D scaffolds after mixing with other polymers which can be applied in skin tissue engineering. The objective of this study was to investigate the effectiveness of ethanol, ethylene oxide (EtO)...

  16. Interactive Methods of Teaching Physics at Technical Universities

    Science.gov (United States)

    Krišták, L'uboš; Nemec, Miroslav; Danihelová, Zuzana

    2014-01-01

    The paper presents results of "non-traditional" teaching of the basic course of Physics in the first year of study at the Technical University in Zvolen, specifically teaching via interactive method enriched with problem tasks and experiments. This paper presents also research results of the use of the given method in conditions of…

  17. From Talk to Experience: Transforming the Preservice Physics Methods Course

    Directory of Open Access Journals (Sweden)

    Tom Russell

    2010-07-01

    Full Text Available This report of a collaborative self-study describes and interprets our pedagogical approach at the beginning of a preservice physics methods course and outlines the strategy that we used to create a context for productive learning. We focus on our attempt to engage teacher candidates in dialogue about learning physics and learning to teach physics by engaging them in brief teaching experiences in the first month of a preservice teacher education program, before the first practicum placement. Self-study methodologies are used to frame and reframe our perceptions of teaching and learning as we enacted a pedagogy of teacher education that was unfamiliar both to us and to our teacher candidates.Keywords: self-study of teacher education practices, lesson study, teacher education, physics, curriculum methods

  18. Physical Chemistry for the Chemical and Biological Sciences (by Raymond Chang)

    Science.gov (United States)

    Pounds, Andrew

    2001-05-01

    This book does offer an alternative approach to physical chemistry that is particularly well suited for those who want to pursue a course of study more focused on the biological sciences. It could also be an excellent choice for schools that mainly serve preprofessional programs or for schools that have split physical chemistry tracks to independently serve the B.S. and B.A. degrees. Since the book focuses on single-variable mathematics, schools that require only one year of calculus for their chemistry degree could also think about adopting it. However, in general, the use of the text as a drop-in replacement for physical chemistry for the B.S. degree is questionable owing to its lack of focus on quantum mechanics and its implications for spectroscopy.

  19. Interactions of physical, chemical, and biological weather calling for an integrated approach to assessment, forecasting, and communication of air quality.

    Science.gov (United States)

    Klein, Thomas; Kukkonen, Jaakko; Dahl, Aslög; Bossioli, Elissavet; Baklanov, Alexander; Vik, Aasmund Fahre; Agnew, Paul; Karatzas, Kostas D; Sofiev, Mikhail

    2012-12-01

    This article reviews interactions and health impacts of physical, chemical, and biological weather. Interactions and synergistic effects between the three types of weather call for integrated assessment, forecasting, and communication of air quality. Today's air quality legislation falls short of addressing air quality degradation by biological weather, despite increasing evidence for the feasibility of both mitigation and adaptation policy options. In comparison with the existing capabilities for physical and chemical weather, the monitoring of biological weather is lacking stable operational agreements and resources. Furthermore, integrated effects of physical, chemical, and biological weather suggest a critical review of air quality management practices. Additional research is required to improve the coupled modeling of physical, chemical, and biological weather as well as the assessment and communication of integrated air quality. Findings from several recent COST Actions underline the importance of an increased dialog between scientists from the fields of meteorology, air quality, aerobiology, health, and policy makers.

  20. How can we improve problem solving in undergraduate biology? Applying lessons from 30 years of physics education research.

    Science.gov (United States)

    Hoskinson, A-M; Caballero, M D; Knight, J K

    2013-06-01

    If students are to successfully grapple with authentic, complex biological problems as scientists and citizens, they need practice solving such problems during their undergraduate years. Physics education researchers have investigated student problem solving for the past three decades. Although physics and biology problems differ in structure and content, the instructional purposes align closely: explaining patterns and processes in the natural world and making predictions about physical and biological systems. In this paper, we discuss how research-supported approaches developed by physics education researchers can be adopted by biologists to enhance student problem-solving skills. First, we compare the problems that biology students are typically asked to solve with authentic, complex problems. We then describe the development of research-validated physics curricula emphasizing process skills in problem solving. We show that solving authentic, complex biology problems requires many of the same skills that practicing physicists and biologists use in representing problems, seeking relationships, making predictions, and verifying or checking solutions. We assert that acquiring these skills can help biology students become competent problem solvers. Finally, we propose how biology scholars can apply lessons from physics education in their classrooms and inspire new studies in biology education research.

  1. Physical and biological organ dosimetry analysis for international space station astronauts.

    Science.gov (United States)

    Cucinotta, Francis A; Kim, Myung-Hee Y; Willingham, Veronica; George, Kerry A

    2008-07-01

    In this study, we analyzed the biological and physical organ dose equivalents for International Space Station (ISS) astronauts. Individual physical dosimetry is difficult in space due to the complexity of the space radiation environment, which consists of protons, heavy ions and secondary neutrons, and the modification of these radiation types in tissue as well as limitations in dosimeter devices that can be worn for several months in outer space. Astronauts returning from missions to the ISS undergo biodosimetry assessment of chromosomal damage in lymphocyte cells using the multicolor fluorescence in situ hybridization (FISH) technique. Individual-based pre-flight dose responses for lymphocyte exposure in vitro to gamma rays were compared to those exposed to space radiation in vivo to determine an equivalent biological dose. We compared the ISS biodosimetry results, NASA's space radiation transport models of organ dose equivalents, and results from ISS and space shuttle phantom torso experiments. Physical and biological doses for 19 ISS astronauts yielded average effective doses and individual or population-based biological doses for the approximately 6-month missions of 72 mSv and 85 or 81 mGy-Eq, respectively. Analyses showed that 80% or more of organ dose equivalents on the ISS are from galactic cosmic rays and only a small contribution is from trapped protons and that GCR doses were decreased by the high level of solar activity in recent years. Comparisons of models to data showed that space radiation effective doses can be predicted to within about a +/-10% accuracy by space radiation transport models. Finally, effective dose estimates for all previous NASA missions are summarized. PMID:18582161

  2. Register indicators of physical endurance of biological objects when running a treadmill and swimming with weights using computer video markerless tracking

    Directory of Open Access Journals (Sweden)

    Datsenko A.V.

    2014-12-01

    Full Text Available Purpose: to study the use of video tracking to assess physical endurance and indicators of biological objects fatigue when running on a treadmill and swimming with the load. Material and methods. Physical endurance evaluated by test facilities for running on a treadmill and swimming with the load. As the object of the studies used laboratory rats. Results. For indicators of physical endurance biological objects isolated areas running track of treadmill and electrical stimulation site, when swimming on the total area of the container isolated subarea near the water surface. With video tracking performed computer timing of finding biological object in different zones of the treadmill and containers for swimming. On the basis of data on the time location rats in a given zone apparatus for running and swimming, obtained in the dynamics of the test of physical endurance, build a "fatigue curves", quantified changes in the indices of hard work, depending on the duration of its execution. Conclusion. Video tracking allows to define the execution of physical work to overflowing with loads of aerobic and mixed aerobic-anaerobic power, establish quantitative indicators of changes in the dynamics of biological objects operability testing with the construction of "fatigue curve" and objectively determine the times of occurrence in experimental animals exhaustion when fails to perform physical work.

  3. Interactive Methods of Teaching Physics at Technical Universities

    CERN Document Server

    Krišťák, Ľuboš; Danihelová, Zuzana

    2013-01-01

    The papeer presents results of "non-traditional" teaching of basic course of Physics in the first year of study at the Technical University in Zvolen, specifically teaching via interactive method based on an increased focus on problem tasks and experiments. This paper presents also research results of the use of the given method in conditions of Slovak universities and its comparision with traditional methods.

  4. Biologic data, models, and dosimetric methods for internal emitters

    International Nuclear Information System (INIS)

    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

  5. Synthetic cannabinoids pharmacokinetics and detection methods in biological matrices.

    Science.gov (United States)

    Castaneto, Marisol S; Wohlfarth, Ariane; Desrosiers, Nathalie A; Hartman, Rebecca L; Gorelick, David A; Huestis, Marilyn A

    2015-05-01

    Synthetic cannabinoids (SC), originally developed as research tools, are now highly abused novel psychoactive substances. We present a comprehensive systematic review covering in vivo and in vitro animal and human pharmacokinetics and analytical methods for identifying SC and their metabolites in biological matrices. Of two main phases of SC research, the first investigated therapeutic applications, and the second abuse-related issues. Administration studies showed high lipophilicity and distribution into brain and fat tissue. Metabolite profiling studies, mostly with human liver microsomes and human hepatocytes, structurally elucidated metabolites and identified suitable SC markers. In general, SC underwent hydroxylation at various molecular sites, defluorination of fluorinated analogs and phase II metabolites were almost exclusively glucuronides. Analytical methods are critical for documenting intake, with different strategies applied to adequately address the continuous emergence of new compounds. Immunoassays have different cross-reactivities for different SC classes, but cannot keep pace with changing analyte targets. Gas chromatography and liquid chromatography mass spectrometry assays - first for a few, then numerous analytes - are available but constrained by reference standard availability, and must be continuously updated and revalidated. In blood and oral fluid, parent compounds are frequently present, albeit in low concentrations; for urinary detection, metabolites must be identified and interpretation is complex due to shared metabolic pathways. A new approach is non-targeted HRMS screening that is more flexible and permits retrospective data analysis. We suggest that streamlined assessment of new SC's pharmacokinetics and advanced HRMS screening provide a promising strategy to maintain relevant assays.

  6. Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).

    Science.gov (United States)

    Foffi, G; Pastore, A; Piazza, F; Temussi, P A

    2013-08-02

    conference held in Ascona from 10 to 14 June 2012. In the unique scenario of the Maggiore lake and absorbed in the magic atmosphere of the Centro Stefano Franscini (CSF) at Monte Verità, we enjoyed three-and-a-half days of intense and inspiring activity, where not only many of the most prominent scientists working on macromolecular crowding, but also experts in closely related fields such as colloids and soft matter presented their work. The meeting was intended and has been organized to bring theoreticians and experimentalists together in the attempt to promote an active dialogue. Moreover, we wanted different disciplines to be represented, notably physics and chemistry, besides biology, as cross-fertilization is proving an increasingly fundamental source of inspiration and advancement. This issue of Physical Biology (PB) features a selection of the oral contributions presented at the conference, expanded in the form of research or review articles. PB, one of the scientific journals of the Institute of Physics (IOP), is one of the most dynamic and lively forums active at the interface between biology on one side, and physics and mathematics on the other. As its mission is stated by IOP, PB 'focuses on research in which physics-based approaches lead to new insights into biological systems at all scales of space and time, and all levels of complexity'. For these reasons, and also in view of its high reputation and broad readership, PB appears to be the ideal place for disseminating the thriving pieces of research presented at the conference. We are extremely grateful to PB and its kind and efficient editorial staff who helped make this issue a great scientific follow-up to the conference. The opening lecture of the conference, the first of four day-opening keynote lectures, was given by Allen P Minton from NIH (USA), possibly the most influential among the pioneers in the field. He provided a lucid and well-thought-out overview of the concept of macromolecular crowding

  7. Biogeomorphology of tidal landforms: physical and biological processes shaping the tidal landscape

    Science.gov (United States)

    Marani, M.; D'Alpaos, A.; Da Lio, C.

    2011-12-01

    The equilibrium states and transient dynamics of tidal landforms are the result of many concurring physical and biological forcings, such as tidal range, wind climate, sediment supply, vegetation and microphytobenthos development, and rates of relative sea level rise (RSLR). A 0D model of the coupled elevation-vegetation dynamics is used to explore the relative role of the physical and biological factors shaping these systems. We find that salt marshes exposed to large tidal ranges are more stable, and therefore more resilient to increasing rates of RSLR, than marshes subjected to low tidal ranges and that subtidal platforms in macrotidal systems are less exposed to wind-induced erosion processes than their counterparts in systems with smaller tidal fluctuations. Notably, we find that vegetation crucially affects both the equilibrium marsh elevation, through dissipation of wind waves and organic accumulation, and marsh resilience to accelerations in RSLR rates, important differences being associated with different vegetation types. Furthermore, our results show that the existence and stability of equilibrium states fundamentally depend on the local wind and tidal regime, even within the same tidal system. Finally, we propose a modelling framework to study how biological evolution lead to the emergence of tidal landforms as we know them.

  8. A coupled physical-biological-chemical model for the Indian Ocean

    Indian Academy of Sciences (India)

    P S Swathi; M K Sharada; K S Yajnik

    2000-12-01

    A coupled physical-biological-chemical model has been developed at C-MMACS. for studying the time- variation of primary productivity and air-sea carbon-dioxide exchange in the Indian Ocean. The physical model is based on the Modular Ocean Model, Version 2 (MOM2) and the biological model describes the nonlinear dynamics of a 7-component marine ecosystem. The chemical model includes dynamical equation for the evolution of dissolved inorganic carbon and total alkalinity. The interaction between the biological and chemical model is through the Redfield ratio. The partial pressure of carbon dioxide pCO2 of the surface layer is obtained from the chemical equilibrium equations of Peng et al 1987. Transfer coefficients for air-sea exchange of CO2 are computed dynamically based on the wind speeds. The coupled model reproduces the high productivity observed in the Arabian Sea off the Somali and Omani coasts during the Southwest (SW) monsoon. The entire Arabian Sea is an outgassing region for CO2 in spite of high productivity with transfer rates as high as 80 m-mol C/m2/day during SW monsoon near the Somali Coast on account of strong winds.

  9. A model of heavy ion detection in physical and biological systems

    International Nuclear Information System (INIS)

    Track structure theory (the Katz model) and its application to the detection of heavy ions in physical and biological systems are reviewed. Following the use of a new corrected formula describing the radial distribution of average dose around the path of a heavy ion, based on results of Monte Carlo calculations and on results of experimental measurements, better agreement is achieved between model calculations and experimentally measured relative effectiveness, for enzymatic and viral systems, for the Fricke dosemeter and for alanine and thermoluminescent (TDL-700) dosemeters irradiated with beams of heavy charged particles. From experimentally measured RBE dependences for survival and frequency of neoplastic transformations in a mammalian cell culture irradiated with beams of energetic heavy ions, values of model parameters for these biological endpoints have been extracted, and a model extrapolation to the low-dose region performed. Results of model calculations are then compared with evaluations of the lung cancer hazard in populations exposed to radon and its progeny. The model can be applied to practical phenomenological analysis of radiation damage in solid-state systems and to dosimetry of charged particle and fast neutron beams using a variety of detectors. The model can also serve as a guide in building more basic models of the action of ionizing radiation with physical and biological systems and guide of development of models of radiation risk more relevant than that used presently. 185 refs., 31 figs., 3 tabs. (author)

  10. Fundamental and functional aspects of mesoscopic architectures with examples in physics, cell biology, and chemistry.

    Science.gov (United States)

    Kalay, Ziya

    2011-08-01

    How small can a macroscopic object be made without losing its intended function? Obviously, the smallest possible size is determined by the size of an atom, but it is not so obvious how many atoms are required to assemble an object so small, and yet that performs the same function as its macroscopic counterpart. In this review, we are concerned with objects of intermediate nature, lying between the microscopic and the macroscopic world. In physics and chemistry literature, this regime in-between is often called mesoscopic, and is known to bear interesting and counterintuitive features. After a brief introduction to the concept of mesoscopic systems from the perspective of physics, we discuss the functional aspects of mesoscopic architectures in cell biology, and supramolecular chemistry through many examples from the literature. We argue that the biochemistry of the cell is largely regulated by mesoscopic functional architectures; however, the significance of mesoscopic phenomena seems to be quite underappreciated in biological sciences. With this motivation, one of our main purposes here is to emphasize the critical role that mesoscopic structures play in cell biology and biochemistry.

  11. Analysis of MIR-18 results for physical and biological dosimetry: radiation shielding effectiveness in LEO

    Energy Technology Data Exchange (ETDEWEB)

    Cucinotta, F.A.; Wilson, J.W.; Williams, J.R.; Dicello, J.F

    2000-06-01

    We compare models of radiation transport and biological response to physical and biological dosimetry results from astronauts on the Mir space station. Transport models are shown to be in good agreement with physical measurements and indicate that the ratio of equivalent dose from the Galactic Cosmic Rays (GCR) to protons is about 3/2:1 and that this ratio will increase for exposures to internal organs. Two biological response models are used to compare to the Mir biodosimetry for chromosome aberration in lymphocyte cells; a track-structure model and the linear-quadratic model with linear energy transfer (LET) dependent weighting coefficients. These models are fit to in vitro data for aberration formation in human lymphocytes by photons and charged particles. Both models are found to be in reasonable agreement with data for aberrations in lymphocytes of Mir crew members: however there are differences between the use of LET dependent weighting factors and track structure models for assigning radiation quality factors. The major difference in the models is the increased effectiveness predicted by the track model for low charge and energy ions with LET near 10 keV/{mu}m. The results of our calculations indicate that aluminum shielding, although providing important mitigation of the effects of trapped radiation, provides no protective effect from the galactic cosmic rays (GCR) in low-earth orbit (LEO) using either equivalent dose or the number of chromosome aberrations as a measure until about 100 g/cm{sup 2} of material is used.

  12. Analysis of MIR-18 results for physical and biological dosimetry: radiation shielding effectiveness in LEO.

    Science.gov (United States)

    Cucinotta, F A; Wilson, J W; Williams, J R; Dicello, J F

    2000-06-01

    We compare models of radiation transport and biological response to physical and biological dosimetry results from astronauts on the Mir space station. Transport models are shown to be in good agreement with physical measurements and indicate that the ratio of equivalent dose from the Galactic Cosmic Rays (GCR) to protons is about 3/2:1 and that this ratio will increase for exposures to internal organs. Two biological response models are used to compare to the Mir biodosimetry for chromosome aberration in lymphocyte cells; a track-structure model and the linear-quadratic model with linear energy transfer (LET) dependent weighting coefficients. These models are fit to in vitro data for aberration formation in human lymphocytes by photons and charged particles. Both models are found to be in reasonable agreement with data for aberrations in lymphocytes of Mir crew members: however there are differences between the use of LET dependent weighting factors and track structure models for assigning radiation quality factors. The major difference in the models is the increased effectiveness predicted by the track model for low charge and energy ions with LET near 10 keV/micrometers. The results of our calculations indicate that aluminum shielding, although providing important mitigation of the effects of trapped radiation, provides no protective effect from the galactic cosmic rays (GCR) in low-earth orbit (LEO) using either equivalent dose or the number of chromosome aberrations as a measure until about 100 g/cm 2 of material is used. PMID:11543368

  13. Open water processes of the San Francisco Estuary: From physical forcing to biological responses

    Directory of Open Access Journals (Sweden)

    Wim Kimmerer

    2004-02-01

    Full Text Available This paper reviews the current state of knowledge of the open waters of the San Francisco Estuary. This estuary is well known for the extent to which it has been altered through loss of wetlands, changes in hydrography, and the introduction of chemical and biological contaminants. It is also one of the most studied estuaries in the world, with much of the recent research effort aimed at supporting restoration efforts. In this review I emphasize the conceptual foundations for our current understanding of estuarine dynamics, particularly those aspects relevant to restoration. Several themes run throughout this paper. First is the critical role physical dynamics play in setting the stage for chemical and biological responses. Physical forcing by the tides and by variation in freshwater input combine to control the movement of the salinity field, and to establish stratification, mixing, and dilution patterns throughout the estuary. Many aspects of estuarine dynamics respond to interannual variation in freshwater flow; in particular, abundance of several estuarine-dependent species of fish and shrimp varies positively with flow, although the mechanisms behind these relationships are largely unknown. The second theme is the importance of time scales in determining the degree of interaction between dynamic processes. Physical effects tend to dominate when they operate at shorter time scales than biological processes; when the two time scales are similar, important interactions can arise between physical and biological variability. These interactions can be seen, for example, in the response of phytoplankton blooms, with characteristic time scales of days, to stratification events occurring during neap tides. The third theme is the key role of introduced species in all estuarine habitats; particularly noteworthy are introduced waterweeds and fishes in the tidal freshwater reaches of the estuary, and introduced clams there and in brackish water. The

  14. 09091 Executive Summary -- Formal Methods in Molecular Biology

    OpenAIRE

    Breitling, Rainer; Gilbert, David Roger; Heiner, Monika; Priami, Corrado

    2009-01-01

    Formal logical models play an increasing role in the newly emerging field of Systems Biology. Compared to the classical, well-established approach of modeling biological processes using continuous and stochastic differential equations, formal logical models offer a number of important advantages. Many different formal modeling paradigms have been applied to molecular biology, each with its own community, formalisms and tools. In this seminar we brought together modelers from variou...

  15. Global optimization in systems biology: stochastic methods and their applications

    OpenAIRE

    Balsa-Canto, Eva; Banga, Julio R.; Egea, José A.; Villaverde, A. F.; Hijas-Liste, G. M.

    2012-01-01

    Mathematical optimization is at the core of many problems in systems biology: (1) as the underlying hypothesis for model development, (2) in model identification, or (3) in the computation of optimal stimulation procedures to synthetically achieve a desired biological behavior. These problems are usually formulated as nonlinear programing problems (NLPs) with dynamic and algebraic constraints. However the nonlinear and highly constrained nature of systems biology models, together with the usu...

  16. 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.

  17. Climate change and physical disturbance cause similar community shifts in biological soil crusts.

    Science.gov (United States)

    Ferrenberg, Scott; Reed, Sasha C; Belnap, Jayne

    2015-09-29

    Biological soil crusts (biocrusts)—communities of mosses, lichens, cyanobacteria, and heterotrophs living at the soil surface—are fundamental components of drylands worldwide, and destruction of biocrusts dramatically alters biogeochemical processes, hydrology, surface energy balance, and vegetation cover. Although there has been long-standing concern over impacts of physical disturbances on biocrusts (e.g., trampling by livestock, damage from vehicles), there is increasing concern over the potential for climate change to alter biocrust community structure. Using long-term data from the Colorado Plateau, we examined the effects of 10 y of experimental warming and altered precipitation (in full-factorial design) on biocrust communities and compared the effects of altered climate with those of long-term physical disturbance (>10 y of replicated human trampling). Surprisingly, altered climate and physical disturbance treatments had similar effects on biocrust community structure. Warming, altered precipitation frequency [an increase of small (1.2 mm) summer rainfall events], and physical disturbance from trampling all promoted early successional community states marked by dramatic declines in moss cover and increases in cyanobacteria cover, with more variable effects on lichens. Although the pace of community change varied significantly among treatments, our results suggest that multiple aspects of climate change will affect biocrusts to the same degree as physical disturbance. This is particularly disconcerting in the context of warming, as temperatures for drylands are projected to increase beyond those imposed as treatments in our study.

  18. Climate change and physical disturbance cause similar community shifts in biological soil crusts

    Science.gov (United States)

    Ferrenberg, Scott; Reed, Sasha C.; Belnap, Jayne

    2015-01-01

    Biological soil crusts (biocrusts)—communities of mosses, lichens, cyanobacteria, and heterotrophs living at the soil surface—are fundamental components of drylands worldwide, and destruction of biocrusts dramatically alters biogeochemical processes, hydrology, surface energy balance, and vegetation cover. While there has been long-standing concern over impacts of 5 physical disturbances on biocrusts (e.g., trampling by livestock, damage from vehicles), there is also increasing concern over the potential for climate change to alter biocrust community structure. Using long-term data from the Colorado Plateau, USA, we examined the effects of 10 years of experimental warming and altered precipitation (in full-factorial design) on biocrust communities, and compared the effects of altered climate with those of long-term physical 10 disturbance (>10 years of replicated human trampling). Surprisingly, altered climate and physical disturbance treatments had similar effects on biocrust community structure. Warming, altered precipitation frequency [an increase of small (1.2 mm) summer rainfall events], and physical disturbance from trampling all promoted early successional community states marked by dramatic declines in moss cover and increased cyanobacteria cover, with more variable effects 15 on lichens. While the pace of community change varied significantly among treatments, our results suggest that multiple aspects of climate change will affect biocrusts to the same degree as physical disturbance. This is particularly disconcerting in the context of warming, as temperatures for drylands are projected to increase beyond those imposed by the climate treatments used in our study.

  19. Teleology in biology, chemistry and physics education: what primary teachers should know

    Directory of Open Access Journals (Sweden)

    KOSTAS KAMPOURAKIS

    2007-01-01

    Full Text Available Recent research in cognitive psychology suggests that children develop intuitions that may clash with what is accepted by scientists, thus making certain scientific concepts difficult to understand. Children possess intuitions about design and purpose that make them provide teleological explanations to many different sorts of tasks. One possible explanation for the origin of the bias to view objects as made for something derives from an early sensitivity to intentional agents and to their behavior as intentional object users and object makers. What is important is that teleological explanations may not be exclusively restricted in biological phenomena, as commonly assumed. Consequently, primary school teachers should take that into account when teaching biology, chemistry or physics concepts and try to refrain from enforcing students’ teleological intuitions.

  20. An introduction to computer simulation methods applications to physical systems

    CERN Document Server

    Gould, Harvey; Christian, Wolfgang

    2007-01-01

    Now in its third edition, this book teaches physical concepts using computer simulations. The text incorporates object-oriented programming techniques and encourages readers to develop good programming habits in the context of doing physics. Designed for readers at all levels , An Introduction to Computer Simulation Methods uses Java, currently the most popular programming language. Introduction, Tools for Doing Simulations, Simulating Particle Motion, Oscillatory Systems, Few-Body Problems: The Motion of the Planets, The Chaotic Motion of Dynamical Systems, Random Processes, The Dynamics of Many Particle Systems, Normal Modes and Waves, Electrodynamics, Numerical and Monte Carlo Methods, Percolation, Fractals and Kinetic Growth Models, Complex Systems, Monte Carlo Simulations of Thermal Systems, Quantum Systems, Visualization and Rigid Body Dynamics, Seeing in Special and General Relativity, Epilogue: The Unity of Physics For all readers interested in developing programming habits in the context of doing phy...

  1. Physical-chemical determinant properties of biological communities in continental semi-arid waters.

    Science.gov (United States)

    da Rocha, Francisco Cleiton; de Andrade, Eunice Maia; Lopes, Fernando Bezerra; de Paula Filho, Francisco José; Filho, José Hamilton Costa; da Silva, Merivalda Doroteu

    2016-08-01

    Throughout human history, water has undergone changes in quality. This problem is more serious in dry areas, where there is a natural water deficit due to climatic factors. The aims of this study, therefore, were (i) to verify correlations between physical attributes, chemical attributes and biological metrics and (ii) from the biological attributes, to verify the similarity between different points of a body of water in a tropical semi-arid region. Samples were collected every 2 months, from July 2009 to July 2011, at seven points. Four physical attributes, five chemical attributes and four biological metrics were investigated. To identify the correlations between the physicochemical properties and the biological metrics, hierarchical cluster analysis (HCA) and canonical correlation analysis (CCA) were applied. Nine classes of phytoplankton were identified, with the predominance of species of cyanobacteria, and ten families of macroinvertebrates. The use of HCA resulted in the formation of three similar groups, showing that it was possible to reduce the number of sampling points when monitoring water quality with a consequent reduction in cost. Group I was formed from the waters at the high end of the reservoir (points P1, P2 and P3), group II by the waters from the middle third (points P4 and P5), and group III by the waters from the lower part of the reservoir (points P6 and P7). Richness of the phytoplanktons Cyanophyceae, Chorophyceae and Bacillariophyceae was the attribute which determined dissimilarity in water quality. Using CCA, it was possible to identify the spatial variability of the physicochemical attributes (TSS, TKN, nitrate and total phosphorus) that most influence the metrics of the macroinvertebrates and phytoplankton present in the water. Low macroinvertebrate diversity, with a predominance of indicator families for deterioration in water quality, and the composition of phytoplankton showing a predominance of cyanobacteria, suggests greater

  2. Physical-chemical determinant properties of biological communities in continental semi-arid waters.

    Science.gov (United States)

    da Rocha, Francisco Cleiton; de Andrade, Eunice Maia; Lopes, Fernando Bezerra; de Paula Filho, Francisco José; Filho, José Hamilton Costa; da Silva, Merivalda Doroteu

    2016-08-01

    Throughout human history, water has undergone changes in quality. This problem is more serious in dry areas, where there is a natural water deficit due to climatic factors. The aims of this study, therefore, were (i) to verify correlations between physical attributes, chemical attributes and biological metrics and (ii) from the biological attributes, to verify the similarity between different points of a body of water in a tropical semi-arid region. Samples were collected every 2 months, from July 2009 to July 2011, at seven points. Four physical attributes, five chemical attributes and four biological metrics were investigated. To identify the correlations between the physicochemical properties and the biological metrics, hierarchical cluster analysis (HCA) and canonical correlation analysis (CCA) were applied. Nine classes of phytoplankton were identified, with the predominance of species of cyanobacteria, and ten families of macroinvertebrates. The use of HCA resulted in the formation of three similar groups, showing that it was possible to reduce the number of sampling points when monitoring water quality with a consequent reduction in cost. Group I was formed from the waters at the high end of the reservoir (points P1, P2 and P3), group II by the waters from the middle third (points P4 and P5), and group III by the waters from the lower part of the reservoir (points P6 and P7). Richness of the phytoplanktons Cyanophyceae, Chorophyceae and Bacillariophyceae was the attribute which determined dissimilarity in water quality. Using CCA, it was possible to identify the spatial variability of the physicochemical attributes (TSS, TKN, nitrate and total phosphorus) that most influence the metrics of the macroinvertebrates and phytoplankton present in the water. Low macroinvertebrate diversity, with a predominance of indicator families for deterioration in water quality, and the composition of phytoplankton showing a predominance of cyanobacteria, suggests greater

  3. Physical Growth, Biological Age, and Nutritional Transitions of Adolescents Living at Moderate Altitudes in Peru

    Science.gov (United States)

    Cossio-Bolaños, Marco; Gómez Campos, Rossana; Andruske, Cynthia Lee; Flores, Antonio Viveros; Luarte-Rocha, Cristian; Olivares, Pedro R.; Garcia-Rubio, Javier; de Arruda, Miguel

    2015-01-01

    Background: Peru is experiencing a stage of nutritional transition where the principal characteristics are typical of countries undergoing development. Objectives: The objectives of this study were the following: (a) compare physical growth patterns with an international standard; (b) determine biological age; and (c) analyze the double nutritional burden of adolescents living at a moderate altitude in Peru. Design: Weight, standing height, and sitting height were measured in 551 adolescents of both sexes (12.0 to 17.9 years old) from an urban area of Arequipa, Peru (2328 m). Physical growth was compared with the international standard of the CDC-2000. Biological age was determined by using a non-invasive transversal technique based on years from age at peak height velocity (APHV). Nutritional state was determined by means of weight for age and height for age. Z scores were calculated using international standards from the CDC-2000. Results: Body weight for both sexes was similar to the CDC-2000 international standards. At all ages, the girls’ height (p < 0.05) was below the standards. However, the boys’ height (p < 0.05) was less at ages, 15, 16, and 17. Biological age showed up in girls at age 12.7 years and for boys at 15.2 years. Stunted growth (8.7% boys and 18.0% girls) and over weight (11.3% boys and 8.8% girls) occurred in both groups. A relationship existed in both sexes between the categories of weight for the age and stunted growth by sex. Conclusions: Adolescents living at a moderate altitude exhibited stunted linear growth and biological maturation. Furthermore, adolescents of both sexes showed the presence of the double nutritional burden (stunted growth and excessive weight). PMID:26404334

  4. Physical Growth, Biological Age, and Nutritional Transitions of Adolescents Living at Moderate Altitudes in Peru

    Directory of Open Access Journals (Sweden)

    Marco Cossio-Bolaños

    2015-09-01

    Full Text Available Background: Peru is experiencing a stage of nutritional transition where the principal characteristics are typical of countries undergoing development. Objectives: The objectives of this study were the following: (a compare physical growth patterns with an international standard; (b determine biological age; and (c analyze the double nutritional burden of adolescents living at a moderate altitude in Peru. Design: Weight, standing height, and sitting height were measured in 551 adolescents of both sexes (12.0 to 17.9 years old from an urban area of Arequipa, Peru (2328 m. Physical growth was compared with the international standard of the CDC-2000. Biological age was determined by using a non-invasive transversal technique based on years from age at peak height velocity (APHV. Nutritional state was determined by means of weight for age and height for age. Z scores were calculated using international standards from the CDC-2000. Results: Body weight for both sexes was similar to the CDC-2000 international standards. At all ages, the girls’ height (p < 0.05 was below the standards. However, the boys’ height (p < 0.05 was less at ages, 15, 16, and 17. Biological age showed up in girls at age 12.7 years and for boys at 15.2 years. Stunted growth (8.7% boys and 18.0% girls and over weight (11.3% boys and 8.8% girls occurred in both groups. A relationship existed in both sexes between the categories of weight for the age and stunted growth by sex. Conclusions: Adolescents living at a moderate altitude exhibited stunted linear growth and biological maturation. Furthermore, adolescents of both sexes showed the presence of the double nutritional burden (stunted growth and excessive weight.

  5. Wind erodibility response of physical and biological crusts to rain and flooding

    Science.gov (United States)

    Aubault, H.; Bullard, J. E.; Strong, C. L.; Ghadiri, H.; McTainsh, G. H.

    2015-12-01

    Soil surface crusts are important controllers of the small-scale wind entrainment processes that occur across all dust source regions globally. The crust type influences water and wind erosion by impacting infiltration, runoff, threshold wind velocity and surface storage capacity of both water and loose erodible material. The spatial and temporal patterning of both physical and biological crusts is known to change with rainfall and flooding. However, little is known about the impact of differing water quantity (from light rainfall through to flooding) on soil crusting characteristics (strength, roughness, sediment loss). This study compares the response of two soil types (loamy sand - LS, sandy loam - SL) with and without BSCs to three different rainfall events (2mm, 8mm, 15mm). Two BSC treatments were used one that simulated a young cyanobacteria dominated crust and an older flood induced multi species biological crust. For both soil types, soil surface strength increased with increasing rainfall amount with LS having consistently higher resistance to rupture than SL. Regardless of texture, soils with BSCs were more resistant and strength did not change in response to rainfall impact. Soil loss due to wind erosion was substantially higher on bare LS (4 times higher) and SL (3 times higher) soils compared with those with BSCs. Our results also show that young biological crust (formed by the rainfall event) have reduced soil erodibility with notably greater strength, roughness and reduced sediment losses when compared to soils with physical crust. Interestingly though, the erodibility of the old BSC did not differ greatly from that of the young BSC with respect to strength, roughness and sediment loss. This raises questions regarding the rapid soil surface protection offered by young colonising cyanobacteria crusts. Further analyses exploring the role of biological soil crusts on surface response to rainfall and wind saltation impact are ongoing.

  6. Correlating Multimodal Physical Sensor Information with Biological Analysis in Ultra Endurance Cycling

    Directory of Open Access Journals (Sweden)

    Giles D.Warrington

    2010-07-01

    Full Text Available The sporting domain has traditionally been used as a testing ground for new technologies which subsequently make their way into the public domain. This includes sensors. In this article a range of physical and biological sensors deployed in a 64 hour ultra-endurance non-stop cycling race are described. A novel algorithm to estimate the energy expenditure while cycling and resting during the event are outlined. Initial analysis in this noisy domain of “sensors in the field” are very encouraging and represent a first with respect to cycling.

  7. Correlating Multimodal Physical Sensor Information with Biological Analysis in Ultra Endurance Cycling

    OpenAIRE

    Warrington, Giles D.; Smeaton, Alan F.; Doherty, Aiden R.; May, Gregory C.

    2010-01-01

    The sporting domain has traditionally been used as a testing ground for new technologies which subsequently make their way into the public domain. This includes sensors. In this article a range of physical and biological sensors deployed in a 64 hour ultra-endurance non-stop cycling race are described. A novel algorithm to estimate the energy expenditure while cycling and resting during the event are outlined. Initial analysis in this noisy domain of “sensors in the field” are very encouragin...

  8. Dynamics and thermodynamics in hierarchically organized systems applications in physics, biology and economics

    CERN Document Server

    Auger, P

    2013-01-01

    One of the most fundamental and efficient ways of conceptualizing complex systems is to organize them hierarchically. A hierarchically organized system is represented by a network of interconnected subsystems, each of which has its own network of subsystems, and so on, until some elementary subsystems are reached that are not further decomposed. This original and important book proposes a general mathematical theory of a hierarchical system and shows how it can be applied to very different topics such as physics (Hamiltonian systems), biology (coupling the molecular and the cellular levels), e

  9. Estimating Escherichia coli loads in streams based on various physical, chemical, and biological factors.

    Science.gov (United States)

    Dwivedi, Dipankar; Mohanty, Binayak P; Lesikar, Bruce J

    2013-05-01

    Microbes have been identified as a major contaminant of water resources. Escherichia coli (E. coli) is a commonly used indicator organism. It is well recognized that the fate of E. coli in surface water systems is governed by multiple physical, chemical, and biological factors. The aim of this work is to provide insight into the physical, chemical, and biological factors along with their interactions that are critical in the estimation of E. coli loads in surface streams. There are various models to predict E. coli loads in streams, but they tend to be system or site specific or overly complex without enhancing our understanding of these factors. Hence, based on available data, a Bayesian Neural Network (BNN) is presented for estimating E. coli loads based on physical, chemical, and biological factors in streams. The BNN has the dual advantage of overcoming the absence of quality data (with regards to consistency in data) and determination of mechanistic model parameters by employing a probabilistic framework. This study evaluates whether the BNN model can be an effective alternative tool to mechanistic models for E. coli loads estimation in streams. For this purpose, a comparison with a traditional model (LOADEST, USGS) is conducted. The models are compared for estimated E. coli loads based on available water quality data in Plum Creek, Texas. All the model efficiency measures suggest that overall E. coli loads estimations by the BNN model are better than the E. coli loads estimations by the LOADEST model on all the three occasions (three-fold cross validation). Thirteen factors were used for estimating E. coli loads with the exhaustive feature selection technique, which indicated that six of thirteen factors are important for estimating E. coli loads. Physical factors included temperature and dissolved oxygen; chemical factors include phosphate and ammonia; biological factors include suspended solids and chlorophyll. The results highlight that the LOADEST model

  10. Influence of physical and chemical factors on biological leaching process of copper from printed circuit boards

    Directory of Open Access Journals (Sweden)

    J. Willner

    2013-04-01

    Full Text Available The article presents the results of the research regarding the biological leaching of this metal from electronic wastes components in the form of printed circuit boards. The purpose of the study was to evaluate the influence of some physical and chemical factors (e.g. pH, oxidation-reduction potential on bioleaching process and efficiency of copper transfer from solid phase into solution. Bioleaching experiments were carried out with pure cultures of Acidithiobacillus ferrooxidans. The obtained results were discussed.

  11. FOREWORD: Third Nordic Symposium on Computer Simulation in Physics, Chemistry, Biology and Mathematics

    Science.gov (United States)

    Kaski, K.; Salomaa, M.

    1990-01-01

    These are Proceedings of the Third Nordic Symposium on Computer Simulation in Physics, Chemistry, Biology, and Mathematics, held August 25-26, 1989, at Lahti (Finland). The Symposium belongs to an annual series of Meetings, the first one of which was arranged in 1987 at Lund (Sweden) and the second one in 1988 at Kolle-Kolle near Copenhagen (Denmark). Although these Symposia have thus far been essentially Nordic events, their international character has increased significantly; the trend is vividly reflected through contributions in the present Topical Issue. The interdisciplinary nature of Computational Science is central to the activity; this fundamental aspect is also responsible, in an essential way, for its rapidly increasing impact. Crucially important to a wide spectrum of superficially disparate fields is the common need for extensive - and often quite demanding - computational modelling. For such theoretical models, no closed-form (analytical) solutions are available or they would be extremely difficult to find; hence one must rather resort to the Art of performing computational investigations. Among the unifying features in the computational research are the methods of simulation employed; methods which frequently are quite closely related with each other even for faculties of science that are quite unrelated. Computer simulation in Natural Sciences is presently apprehended as a discipline on its own right, occupying a broad region somewhere between the experimental and theoretical methods, but also partially overlapping with and complementing them. - Whichever its proper definition may be, the computational approach serves as a novel and an extremely versatile tool with which one can equally well perform "pure" experimental modelling and conduct "computational theory". Computational studies that have earlier been made possible only through supercomputers have opened unexpected, as well as exciting, novel frontiers equally in mathematics (e.g., fractals

  12. Physical, chemical, and biological data collected in Mobile Bay, Alabama in May 1989-December 1999 (NODC Accession 0116496)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This dataset contains physical, chemical, and biological data collected during ten years of near-monthly shipboard surveys carried out in Mobile Bay between May...

  13. Assessment of mild steel damage characteristics by physical methods

    Science.gov (United States)

    Botvina, L. R.; Soldatenkov, A. P.; Levin, V. P.; Tyutin, M. R.; Demina, Yu. A.; Petersen, T. B.; Dubov, A. A.; Semashko, N. A.

    2016-01-01

    The deformation and fracture localization characteristics are estimated by the methods of replicas, acoustic emission, metal magnetic memory, ultrasonic attenuation, microhardness, and electrical resistance. The relation between the estimated physical parameters on the one hand and the plastic zone size and the microcrack concentration in this zone, on the other, is considered.

  14. An entrepreneurial physics method and its experimental test

    Science.gov (United States)

    Brown, Robert

    2012-02-01

    As faculty in a master's program for entrepreneurial physics and in an applied physics PhD program, I have advised upwards of 40 master and doctoral theses in industrial physics. I have been closely involved with four robust start-up manufacturing companies focused on physics high-technology and I have spent 30 years collaborating with industrial physicists on research and development. Thus I am in a position to reflect on many articles and advice columns centered on entrepreneurship. What about the goals, strategies, resources, skills, and the 10,000 hours needed to be an entrepreneur? What about business plans, partners, financing, patents, networking, salesmanship and regulatory affairs? What about learning new technology, how to solve problems and, in fact, learning innovation itself? At this point, I have my own method to propose to physicists in academia for incorporating entrepreneurship into their research lives. With this method, we do not start with a major invention or discovery, or even with a search for one. The method is based on the training we have, and the teaching we do (even quantum electrodynamics!), as physicists. It is based on the networking we build by 1) providing courses of continuing education for people working in industry and 2) through our undergraduate as well as graduate students who have gone on to work in industry. In fact, if we were to be limited to two words to describe the method, they are ``former students.'' Data from local and international medical imaging manufacturing industry are presented.

  15. Biological activity of terpene compounds produced by biotechnological methods.

    Science.gov (United States)

    Paduch, Roman; Trytek, Mariusz; Król, Sylwia K; Kud, Joanna; Frant, Maciej; Kandefer-Szerszeń, Martyna; Fiedurek, Jan

    2016-06-01

    Context Biotransformation systems are profitable tools for structural modification of bioactive natural compounds into valuable biologically active terpenoids. Objective This study determines the biological effect of (R)-(+)-limonene and (-)-α-pinene, and their oxygenated derivatives, (a) perillyl alcohol and (S)-(+)- and (R)-(-)-carvone enantiomers and (b) linalool, trans-verbenol and verbenone, respectively, on human colon tumour cells and normal colonic epithelium. Materials and methods Biotransformation procedures and in vitro cell culture tests were used in this work. Cells were incubated for 24 h with terpenes at concentrations of 5-500 μg/mL for NR, MTT, DPPH, and NO assays. IL-6 was determined by ELISA with/without 2 h pre-activation with 10 μg/mL LPS. Results trans-Verbenol and perillyl alcohol, obtained via biotransformation, produced in vitro effect against tumour cells at lower concentrations (IC50 value = 77.8 and 98.8 μg/mL, respectively) than their monoterpene precursors, (R)-(+)-limonene (IC50 value = 171.4 μg/mL) and (-)-α-pinene (IC50 value = 206.3 μg/mL). They also showed lower cytotoxicity against normal cells (IC50 > 500 and > 200 μg/mL, respectively). (S)-(+)-Carvone was 59.4% and 27.1% more toxic to tumour and normal cells, respectively, than the (R)-(-)-enantiomer. (R)-(+)-limonene derivatives decreased IL-6 production from normal cells in media with or without LPS (30.2% and 13.9%, respectively), while (-)-α-pinene derivatives induced IL-6 (verbenone had the strongest effect, 60.2% and 29.1% above control, respectively). None of the terpenes had antioxidative activity below 500 μg/mL. Discussion and conclusions Bioactivity against tumour cells decreased in the following order: alcohols > ketones > hydrocarbons. (R)-(+)-limonene, (-)-α-pinene, and their derivatives expressed diverse activity towards normal and tumour cells with noticeable enantiomeric differences. PMID:26808720

  16. Dosing method of physical activity in aerobics classes for students

    OpenAIRE

    Beliak Yu. I.; Zinchenko N.M.

    2014-01-01

    Purpose : reasons for the method of dosing of physical activity in aerobics classes for students. The basis of the method is the evaluation of the metabolic cost of funds used in them. Material : experiment involved the assessment of the pulse response of students to load complexes classical and step aerobics (n = 47, age 20-23 years). In complexes used various factors regulating the intensity: perform combinations of basic steps, involvement of movements with his hands, holding in hands dumb...

  17. Monte Carlo methods and applications in nuclear physics

    International Nuclear Information System (INIS)

    Monte Carlo methods for studying few- and many-body quantum systems are introduced, with special emphasis given to their applications in nuclear physics. Variational and Green's function Monte Carlo methods are presented in some detail. The status of calculations of light nuclei is reviewed, including discussions of the three-nucleon-interaction, charge and magnetic form factors, the coulomb sum rule, and studies of low-energy radiative transitions. 58 refs., 12 figs

  18. Nature's longest threads new frontiers in the mathematics and physics of information in biology

    CERN Document Server

    Sreekantan, B V

    2014-01-01

    Organisms endowed with life show a sense of awareness, interacting with and learning from the universe in and around them. Each level of interaction involves transfer of information of various kinds, and at different levels. Each thread of information is interlinked with the other, and woven together, these constitute the universe — both the internal self and the external world — as we perceive it. They are, figuratively speaking, Nature's longest threads. This volume reports inter-disciplinary research and views on information and its transfer at different levels of organization by reputed scientists working on the frontier areas of science. It is a frontier where physics, mathematics and biology merge seamlessly, binding together specialized streams such as quantum mechanics, dynamical systems theory, and mathematics. The topics would interest a broad cross-section of researchers in life sciences, physics, cognition, neuroscience, mathematics and computer science, as well as interested amateurs, familia...

  19. Physical descriptions of the bacterial nucleoid at large scales, and their biological implications

    CERN Document Server

    Benza, Vincenzo G; Dorfman, Kevin D; Scolari, Vittore F; Bromek, Krystyna; Cicuta, Pietro; Lagomarsino, Marco Cosentino

    2012-01-01

    Recent experimental and theoretical approaches have attempted to quantify the physical organization (compaction and geometry) of the bacterial chromosome with its complement of proteins (the nucleoid). The genomic DNA exists in a complex and dynamic protein-rich state, which is highly organised at various length scales. This has implications on modulating (when not enabling) the core biological processes of replication, transcription, segregation. We overview the progress in this area, driven in the last few years by new scientific ideas and new interdisciplinary experimental techniques, ranging from high space- and time-resolution microscopy to high-throughput genomics employing sequencing to map different aspects of the nucleoid-related interactome. The aim of this review is to present the wide spectrum of experimental and theoretical findings coherently, from a physics viewpoint. We also discuss some attempts of interpretation that unify different results, highlighting the role that statistical and soft co...

  20. XXXIV Bialowieza Workshop on Geometric Methods in Physics

    CERN Document Server

    Ali, S; Bieliavsky, Pierre; Odzijewicz, Anatol; Schlichenmaier, Martin; Voronov, Theodore

    2016-01-01

    This book features a selection of articles based on the XXXIV Białowieża Workshop on Geometric Methods in Physics, 2015. The articles presented are mathematically rigorous, include important physical implications and address the application of geometry in classical and quantum physics. Special attention deserves the session devoted to discussions of Gerard Emch's most important and lasting achievements in mathematical physics. The Białowieża workshops are among the most important meetings in the field and gather participants from mathematics and physics alike. Despite their long tradition, the Workshops remain at the cutting edge of ongoing research. For the past several years, the Białowieża Workshop has been followed by a School on Geometry and Physics, where advanced lectures for graduate students and young researchers are presented. The unique atmosphere of the Workshop and School is enhanced by the venue, framed by the natural beauty of the Białowieża forest in eastern Poland.

  1. Crystallo-optic diagnostics method of the soft laser-induced effects in biological fluids

    Science.gov (United States)

    Skopinov, S. A.; Yakovleva, S. V.

    1991-05-01

    Presently, it is well known that individual cells"2 and higher organisms3'4 exhibit a marked response to soft laser irradiation in certain parts of the visible and near infrared spectral ranges. Broad clinical applications of laser therapy and slow progress in understanding of the physical, chemical and biological mechanisms of this phenomenon make the task to search new methods of objectivisation of laser-induces bioeffects very insistent. In this paper we give a short review of the methods of structural-optical diagnostics of the soft laser-induced effects in biofluids (blood and its fractions, saliva, juices, mucuses, exudations, etc.) and suggest their applications in experimental and clinical studies of the soft laser bioeffects.

  2. Radiation damage and repair in cells and cell components. Part 2. Physical radiations and biological significance. Final report

    International Nuclear Information System (INIS)

    The report comprises a teaching text, encompassing all physical radiations likely to be of biological interest, and the relevant biological effects and their significance. Topics include human radiobiology, delayed effects, radiation absorption in organisms, aqueous radiation chemistry, cell radiobiology, mutagenesis, and photobiology

  3. Highly cited German research contributions to the fields of radiation oncology, biology, and physics. Focus on collaboration and diversity

    Energy Technology Data Exchange (ETDEWEB)

    Nieder, C. [Nordland Hospital, Bodoe (Norway). Dept. of Oncology and Palliative Medicine; Tromsoe Univ. (Norway). Inst. of Clinical Medicine

    2012-10-15

    Background and purpose: Tight budgets and increasing competition for research funding pose challenges for highly specialized medical disciplines such as radiation oncology. Therefore, a systematic review was performed of successfully completed research that had a high impact on clinical practice. These data might be helpful when preparing new projects. Methods: Different measures of impact, visibility, and quality of published research are available, each with its own pros and cons. For this study, the article citation rate was chosen (minimum 15 citations per year on average). Highly cited German contributions to the fields of radiation oncology, biology, and physics (published between 1990 and 2010) were identified from the Scopus database. Results: Between 1990 and 2010, 106 articles published in 44 scientific journals met the citation requirement. The median average of yearly citations was 21 (maximum 167, minimum 15). All articles with {>=} 40 citations per year were published between 2003 and 2009, consistent with the assumption that the citation rate gradually increases for up to 2 years after publication. Most citations per year were recorded for meta-analyses and randomized phase III trials, which typically were performed by collaborative groups. Conclusion: A large variety of clinical radiotherapy, biology, and physics topics achieved high numbers of citations. However, areas such as quality of life and side effects, palliative radiotherapy, and radiotherapy for nonmalignant disorders were underrepresented. Efforts to increase their visibility might be warranted. (orig.)

  4. Applications of Symmetry Methods to the Theory of Plasma Physics

    Directory of Open Access Journals (Sweden)

    Giampaolo Cicogna

    2006-02-01

    Full Text Available The theory of plasma physics offers a number of nontrivial examples of partial differential equations, which can be successfully treated with symmetry methods. We propose three different examples which may illustrate the reciprocal advantage of this "interaction" between plasma physics and symmetry techniques. The examples include, in particular, the complete symmetry analysis of system of two PDE's, with the determination of some conditional and partial symmetries, the construction of group-invariant solutions, and the symmetry classification of a nonlinear PDE.

  5. Fundamentals of many-body physics principles and methods

    CERN Document Server

    Nolting, Wolfgang

    2009-01-01

    This textbook addresses the special physics of many-particle systems, especially those dominated by correlation effects. It develops modern methods to treat such systems and demonstrates their application through numerous appropriate exercises, mainly from the field of solid state physics. The book is written in a tutorial style appropriate for those who want to learn many-body theory and eventually to use this to do research work in this field. The exercises, together with full solutions for evaluating one's performance, help to deepen understanding of the main aspects of many-particle systems.

  6. Applications of physical methods in high-frequency futures markets

    OpenAIRE

    Bartolozzi, M.; Mellen, C.; Chan, F; Oliver, David J.; Di Matteo, T.; Aste, Tomaso

    2007-01-01

    In the present work we demonstrate the application of different physical methods to high-frequency or tick-by-tick financial time series data. In particular, we calculate the Hurst exponent and inverse statistics for the price time series taken from a range of futures indices. Additionally, we show that in a limit order book the relaxation times of an imbalanced book state with more demand or supply can be described by stretched exponential laws analogous to those seen in many physical systems.

  7. Academic Training Lecture: Statistical Methods for Particle Physics

    CERN Multimedia

    PH Department

    2012-01-01

    2, 3, 4 and 5 April 2012 Academic Training Lecture  Regular Programme from 11:00 to 12:00 -  Bldg. 222-R-001 - Filtration Plant Statistical Methods for Particle Physics by Glen Cowan (Royal Holloway) The series of four lectures will introduce some of the important statistical methods used in Particle Physics, and should be particularly relevant to those involved in the analysis of LHC data. The lectures will include an introduction to statistical tests, parameter estimation, and the application of these tools to searches for new phenomena.  Both frequentist and Bayesian methods will be described, with particular emphasis on treatment of systematic uncertainties.  The lectures will also cover unfolding, that is, estimation of a distribution in binned form where the variable in question is subject to measurement errors.

  8. Thiosemicarbazones: preparation methods, synthetic applications and biological importance

    International Nuclear Information System (INIS)

    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)

  9. Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012)

    Science.gov (United States)

    Foffi, G.; Pastore, A.; Piazza, F.; Temussi, P. A.

    2013-08-01

    held in Ascona from 10 to 14 June 2012. In the unique scenario of the Maggiore lake and absorbed in the magic atmosphere of the Centro Stefano Franscini (CSF) at Monte Verità, we enjoyed three-and-a-half days of intense and inspiring activity, where not only many of the most prominent scientists working on macromolecular crowding, but also experts in closely related fields such as colloids and soft matter presented their work. The meeting was intended and has been organized to bring theoreticians and experimentalists together in the attempt to promote an active dialogue. Moreover, we wanted different disciplines to be represented, notably physics and chemistry, besides biology, as cross-fertilization is proving an increasingly fundamental source of inspiration and advancement. This issue of Physical Biology (PB) features a selection of the oral contributions presented at the conference, expanded in the form of research or review articles. PB, one of the scientific journals of the Institute of Physics (IOP), is one of the most dynamic and lively forums active at the interface between biology on one side, and physics and mathematics on the other. As its mission is stated by IOP, PB 'focuses on research in which physics-based approaches lead to new insights into biological systems at all scales of space and time, and all levels of complexity'. For these reasons, and also in view of its high reputation and broad readership, PB appears to be the ideal place for disseminating the thriving pieces of research presented at the conference. We are extremely grateful to PB and its kind and efficient editorial staff who helped make this issue a great scientific follow-up to the conference. The opening lecture of the conference, the first of four day-opening keynote lectures, was given by Allen P Minton from NIH (USA), possibly the most influential among the pioneers in the field. He provided a lucid and well-thought-out overview of the concept of macromolecular crowding through an

  10. Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).

    Science.gov (United States)

    Foffi, G; Pastore, A; Piazza, F; Temussi, P A

    2013-08-01

    conference held in Ascona from 10 to 14 June 2012. In the unique scenario of the Maggiore lake and absorbed in the magic atmosphere of the Centro Stefano Franscini (CSF) at Monte Verità, we enjoyed three-and-a-half days of intense and inspiring activity, where not only many of the most prominent scientists working on macromolecular crowding, but also experts in closely related fields such as colloids and soft matter presented their work. The meeting was intended and has been organized to bring theoreticians and experimentalists together in the attempt to promote an active dialogue. Moreover, we wanted different disciplines to be represented, notably physics and chemistry, besides biology, as cross-fertilization is proving an increasingly fundamental source of inspiration and advancement. This issue of Physical Biology (PB) features a selection of the oral contributions presented at the conference, expanded in the form of research or review articles. PB, one of the scientific journals of the Institute of Physics (IOP), is one of the most dynamic and lively forums active at the interface between biology on one side, and physics and mathematics on the other. As its mission is stated by IOP, PB 'focuses on research in which physics-based approaches lead to new insights into biological systems at all scales of space and time, and all levels of complexity'. For these reasons, and also in view of its high reputation and broad readership, PB appears to be the ideal place for disseminating the thriving pieces of research presented at the conference. We are extremely grateful to PB and its kind and efficient editorial staff who helped make this issue a great scientific follow-up to the conference. The opening lecture of the conference, the first of four day-opening keynote lectures, was given by Allen P Minton from NIH (USA), possibly the most influential among the pioneers in the field. He provided a lucid and well-thought-out overview of the concept of macromolecular crowding

  11. Darwin's legacy: why biology is not physics, or why evolution has not become a common sense.

    Science.gov (United States)

    Singh, Rama S

    2011-10-01

    Cosmology and evolution together have enabled us to look deep into the past and comprehend evolution-from the big bang to the cosmos, from molecules to humans. Here, I compare the nature of theories in biology and physics and ask why physical theories get accepted by the public without necessarily comprehending them but biological theories do not. Darwin's theory of natural selection, utterly simple in its premises but profound in its consequences, is not accepted widely. Organized religions, and creationists in particularly, have been the major critic of evolution, but not all opposition to evolution comes from organized religions. A great many people, between evolutionary biologists on one hand and creationists on the other, many academics included, who may not be logically opposed to evolution nevertheless do not accept it. This is because the process of and the evidence for evolution are invisible to a nonspecialist, or the theory may look too simple to explain complex traits to some, or because people compare evolution against God and find evolutionary explanations threatening to their beliefs. Considering how evolution affects our lives, including health and the environment to give just two examples, a basic course in evolution should become a required component of all our college and university educational systems.

  12. General transmission method based on PXI platform for physical experiments

    International Nuclear Information System (INIS)

    In this paper, a general method of data transmission system design on PXI platform is proposed. It can be used in readout system design for physical experiments. It aims at providing reusable and general interfaces for customized design of PXI while maintaining the transmission performance. It has three main features: (1) universal logic hardware interface, (2) ethernet based socket software interface, and (3) specific and simple data transmission protocol. Data transmission on PXI bus can be realized with the said two universal interfaces coordinated by this specific protocol. Test shows that this method is feasible and stable. This method can be easily reused in readout system designs for different experiments. (authors)

  13. Predicting Salmonella populations from biological, chemical, and physical indicators in Florida surface waters.

    Science.gov (United States)

    McEgan, Rachel; Mootian, Gabriel; Goodridge, Lawrence D; Schaffner, Donald W; Danyluk, Michelle D

    2013-07-01

    Coliforms, Escherichia coli, and various physicochemical water characteristics have been suggested as indicators of microbial water quality or index organisms for pathogen populations. The relationship between the presence and/or concentration of Salmonella and biological, physical, or chemical indicators in Central Florida surface water samples over 12 consecutive months was explored. Samples were taken monthly for 12 months from 18 locations throughout Central Florida (n = 202). Air and water temperature, pH, oxidation-reduction potential (ORP), turbidity, and conductivity were measured. Weather data were obtained from nearby weather stations. Aerobic plate counts and most probable numbers (MPN) for Salmonella, E. coli, and coliforms were performed. Weak linear relationships existed between biological indicators (E. coli/coliforms) and Salmonella levels (R(2) Salmonella levels (R(2) Salmonella levels. The lack of good correlations between biological indicators and Salmonella levels and between physicochemical indicators and Salmonella levels shows that the relationship between pathogens and indicators is complex. However, Escherichia coli provides a reasonable way to predict Salmonella levels in Central Florida surface water through logistic regression.

  14. Tritium in the Physical and Biological Sciences. V. 1. Proceedings of a Symposium

    International Nuclear Information System (INIS)

    The use of tritium for research in physics, chemistry, biology and hydrology has in recent years become increasingly important. It was for this reason that the first international conference to discuss the progress of new developments was organized by the IAEA in conjunction with the Joint Commission on Applied Radioactivity and held from 3-10 May 1961, in Vienna. The first five sessions of the Symposium were devoted to the use of tritium in hydrology, physics and chemistry. Special emphasis was laid on the role of tritium as a tracer in hydrology, especially in the study of water movement. The establishment and improvement of counting and detection techniques to facilitate the application of tritium as a tracer was another aspect discussed in this part of the proceedings. Papers were read on the preparation of tritiated compounds and it was generally agreed that further clarification of the mechanism of various techniques, and of the Wilzbach gas exposure technique in particular, would lead to further developments in the synthesis of a number of tritium compounds important in biology. Other papers were concerned with tritium applications to studies of the mechanism of some chemical reactions together with the effects of tritium isotopes. During the second part of the Symposium the biological applications of tritium and tritiated compounds were discussed. These included general problems connected with the biological uses of tritium and the radiation effects of tritium on living organisms such as viruses, bacteria and cancer cells. The value of tritium in biological studies became apparent because of the ease with which a large number of metabolically active compounds such as hormones, vitamins and other important constituents in the body can be labelled with tritium. Tritium is also a weak beta-emitter and autoradiographie s of tissues and single cells containing tritium-labelled compounds allow an excellent localization of the tracer. The Symposium was attended by

  15. Introduction on microbiological and biological methods and their possible combination with other analytical techniques for the detection of irradiated food

    International Nuclear Information System (INIS)

    Food irradiation is a physical method of processing and preserving food. One of the main purposes of the application of this technology to food is to obtain specific biological effects on the treated foodstuff. Typical examples of these treatment effects are listed in the article. A whole range of techniques is at disposal of the analyst to assure the Quality Control (QC) of various foodstuffs. They are based on microbiological, organoleptical, chemical, biochemical, immunological and/or physical methods. In the case of irradiation preserved food the opinion of the writer is that very often only a combination of analytical methods can solve the problem of detection of irradiated foodstuffs and in particular in most cases this combination could be formed by a biological or microbiological method + a chemical or physical one. The meaning of these combination of techniques is manifold. Combining the advantages of a rapid screening method with those of a more refined, reliable, even if more time consuming one; offering the possibility to carry out the analysis for the control of irradiated foodstuffs to different kinds of food control laboratories, often equipped in a different way, are some of the most evident advantages. These methods are briefly explained. At present, none method seems promising for the quantitative determination of the irradiation dose. Moreover, some of the proposed methods can only give a good presumption of the irradiation treatment applied to particular foodstuffs. (18 refs)

  16. 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

  17. Methods of Efficient Study Habits and Physics Learning

    Science.gov (United States)

    Zettili, Nouredine

    2010-02-01

    We want to discuss the methods of efficient study habits and how they can be used by students to help them improve learning physics. In particular, we deal with the most efficient techniques needed to help students improve their study skills. We focus on topics such as the skills of how to develop long term memory, how to improve concentration power, how to take class notes, how to prepare for and take exams, how to study scientific subjects such as physics. We argue that the students who conscientiously use the methods of efficient study habits achieve higher results than those students who do not; moreover, a student equipped with the proper study skills will spend much less time to learn a subject than a student who has no good study habits. The underlying issue here is not the quantity of time allocated to the study efforts by the students, but the efficiency and quality of actions so that the student can function at peak efficiency. These ideas were developed as part of Project IMPACTSEED (IMproving Physics And Chemistry Teaching in SEcondary Education), an outreach grant funded by the Alabama Commission on Higher Education. This project is motivated by a major pressing local need: A large number of high school physics teachers teach out of field. )

  18. Decomposing the effects of ocean warming on chlorophyll a concentrations into physically and biologically driven contributions

    International Nuclear Information System (INIS)

    Recently compiled observational data suggest a substantial decline in the global median chlorophyll a concentration over the 20th century, a trend that appears to be linked to ocean warming. Several modelling studies have considered changes in the ocean’s physical structure as a possible cause, while experimental work supports a biological mechanism, namely an observed increase in zooplankton grazing rate that outpaces phytoplankton production at higher temperatures. Here, we present transient simulations derived from a coupled ocean general circulation and carbon cycle model forced by atmospheric fields under unabated anthropogenic global warming (IPCC SRES A1FI scenario). The simulations account for both physical and biological mechanisms, and can reproduce about one quarter of the observed chlorophyll a decline during the 20th century, when using realistically parameterized temperature sensitivity of zooplankton metabolism (Q10 between 2 and 4) and phytoplankton growth (Q10 ∼ 1.9). Therefore, we have employed and re-calibrated the standard ecosystem model which assumes a lower temperature sensitivity of zooplankton grazing (Q10 = 1.1049) by re-scaling phytoplankton growth rates and zooplankton grazing rates. Our model projects a global chlorophyll a decline of >50% by the end of the 21st century. While phytoplankton abundance and chlorophyll a experience pronounced negative effects, primary production and zooplankton concentrations are less sensitive to ocean warming. Although changes in physical structure play an important role, much of the simulated change in chlorophyll a and productivity is related to the uneven temperature sensitivity of the marine ecosystem. (letter)

  19. Radiation physics, biophysics, and radiation biology. Progress report, December 1, 1992--November 30, 1993

    Energy Technology Data Exchange (ETDEWEB)

    Hall, E.J.; Zaider, M.

    1993-05-01

    Research at the Center for Radiological Research is a multidisciplenary blend of physics, chemistry and biology aimed at understanding the mechanisms involved in the health problems resulting from human exposure to ionizing radiations. The focus is increased on biochemistry and the application of the techniques of molecular biology to the problems of radiation biology. Research highlights of the program from the past year are described. A mathematical model describing the production of single-strand and double-strand breaks in DNA as a function radiation quality has been completed. For the first time Monte Carlo techniques have been used to obtain directly the spatial distribution of DNA moieties altered by radiation. This information was obtained by including the transport codes a realistic description of the electronic structure of DNA. We have investigated structure activity relationships for the potential oncogenicity of a new generation of bioreductive drugs that function as hypoxic cytotoxins. Experimental and theoretical investigation of the inverse dose rate effect, whereby medium LET radiations actually produce an c effect when the dose is protracted, is now at a point where the basic mechanisms are reasonably understood and the complex interplay between dose, dose rate and radiation quality which is necessary for the effect to be present can now be predicted at least in vitro. In terms of early radiobiological damage, a quantitative link has been established between basic energy deposition and locally multiply damaged sites, the radiochemical precursor of DNA double strand breaks; specifically, the spatial and energy deposition requirements necessary to form LMDs have been evaluated. For the first time, a mechanically understood ``biological fingerprint`` of high-LET radiation has been established. Specifically measurement of the ratio of inter-to intra-chromosomal aberrations produces a unique signature from alpha-particles or neutrons.

  20. Learning physics: A comparative analysis between instructional design methods

    Science.gov (United States)

    Mathew, Easow

    The purpose of this research was to determine if there were differences in academic performance between students who participated in traditional versus collaborative problem-based learning (PBL) instructional design approaches to physics curricula. This study utilized a quantitative quasi-experimental design methodology to determine the significance of differences in pre- and posttest introductory physics exam performance between students who participated in traditional (i.e., control group) versus collaborative problem solving (PBL) instructional design (i.e., experimental group) approaches to physics curricula over a college semester in 2008. There were 42 student participants (N = 42) enrolled in an introductory physics course at the research site in the Spring 2008 semester who agreed to participate in this study after reading and signing informed consent documents. A total of 22 participants were assigned to the experimental group (n = 22) who participated in a PBL based teaching methodology along with traditional lecture methods. The other 20 students were assigned to the control group (n = 20) who participated in the traditional lecture teaching methodology. Both the courses were taught by experienced professors who have qualifications at the doctoral level. The results indicated statistically significant differences (p academic performance between students who participated in traditional (i.e., lower physics posttest scores and lower differences between pre- and posttest scores) versus collaborative (i.e., higher physics posttest scores, and higher differences between pre- and posttest scores) instructional design approaches to physics curricula. Despite some slight differences in control group and experimental group demographic characteristics (gender, ethnicity, and age) there were statistically significant (p = .04) differences between female average academic improvement which was much higher than male average academic improvement (˜63%) in the control

  1. Group-theoretical method for physical property tensors of quasicrystals

    Institute of Scientific and Technical Information of China (English)

    Gong Ping; Hu Cheng-Zheng; Zhou Xiang; Wang Ai-Jun; Miao Ling

    2006-01-01

    In addition to the phonon variable there is the phason variable in hydrodynamics for quasicrystals. These two kinds of hydrodynamic variables have different transformation properties. The phonon variable transforms under the vector representation, whereas the phason variable transforms under another related representation. Thus, a basis (or a set of basis functions) in the representation space should include such two kinds of variables. This makes it more difficult to determine the physical property tensors of quasicrystals. In this paper the group-theoretical method is given to determine the physical property tensors of quasicrystals. As an illustration of this method we calculate the third-order elasticity tensors of quasicrystals with five-fold symmetry by means of basis functions. It follows that the linear phonon elasticity is isotropic, but the nonlinear phonon elasticity is anisotropic for pentagonal quasicrystals. Meanwhile, the basis functions are constructed for all noncrystallographic point groups of quasicrystals.

  2. Biological effects and physical safety aspects of NMR imaging and in vivo spectroscopy

    Energy Technology Data Exchange (ETDEWEB)

    Tenforde, T.S.; Budinger, T.F.

    1985-08-01

    An assessment is made of the biological effects and physical hazards of static and time-varying fields associated with the NMR devices that are being used for clinical imaging and in vivo spectroscopy. A summary is given of the current state of knowledge concerning the mechanisms of interaction and the bioeffects of these fields. Additional topics that are discussed include: (1) physical effects on pacemakers and metallic implants such as aneurysm clips, (2) human health studies related to the effects of exposure to nonionizing electromagnetic radiation, and (3) extant guidelines for limiting exposure of patients and medical personnel to the fields produced by NMR devices. On the basis of information available at the present time, it is concluded that the fields associated with the current generation of NMR devices do not pose a significant health risk in themselves. However, rigorous guidelines must be followed to avoid the physical interaction of these fields with metallic implants and medical electronic devices. 476 refs., 5 figs., 2 tabs.

  3. Biological effects and physical safety aspects of NMR imaging and in vivo spectroscopy

    International Nuclear Information System (INIS)

    An assessment is made of the biological effects and physical hazards of static and time-varying fields associated with the NMR devices that are being used for clinical imaging and in vivo spectroscopy. A summary is given of the current state of knowledge concerning the mechanisms of interaction and the bioeffects of these fields. Additional topics that are discussed include: (1) physical effects on pacemakers and metallic implants such as aneurysm clips, (2) human health studies related to the effects of exposure to nonionizing electromagnetic radiation, and (3) extant guidelines for limiting exposure of patients and medical personnel to the fields produced by NMR devices. On the basis of information available at the present time, it is concluded that the fields associated with the current generation of NMR devices do not pose a significant health risk in themselves. However, rigorous guidelines must be followed to avoid the physical interaction of these fields with metallic implants and medical electronic devices. 476 refs., 5 figs., 2 tabs

  4. Protons at the speed of sound: Predicting specific biological signaling from physics

    Science.gov (United States)

    Fichtl, Bernhard; Shrivastava, Shamit; Schneider, Matthias F.

    2016-05-01

    Local changes in pH are known to significantly alter the state and activity of proteins and enzymes. pH variations induced by pulses propagating along soft interfaces (e.g. membranes) would therefore constitute an important pillar towards a physical mechanism of biological signaling. Here we investigate the pH-induced physical perturbation of a lipid interface and the physicochemical nature of the subsequent acoustic propagation. Pulses are stimulated by local acidification and propagate - in analogy to sound - at velocities controlled by the interface’s compressibility. With transient local pH changes of 0.6 directly observed at the interface and velocities up to 1.4 m/s this represents hitherto the fastest protonic communication observed. Furthermore simultaneously propagating mechanical and electrical changes in the lipid interface are detected, exposing the thermodynamic nature of these pulses. Finally, these pulses are excitable only beyond a threshold for protonation, determined by the pKa of the lipid head groups. This protonation-transition plus the existence of an enzymatic pH-optimum offer a physical basis for intra- and intercellular signaling via sound waves at interfaces, where not molecular structure and mechano-enyzmatic couplings, but interface thermodynamics and thermodynamic transitions are the origin of the observations.

  5. 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…

  6. Continuum methods of physical modeling continuum mechanics, dimensional analysis, turbulence

    CERN Document Server

    Hutter, Kolumban

    2004-01-01

    The book unifies classical continuum mechanics and turbulence modeling, i.e. the same fundamental concepts are used to derive model equations for material behaviour and turbulence closure and complements these with methods of dimensional analysis. The intention is to equip the reader with the ability to understand the complex nonlinear modeling in material behaviour and turbulence closure as well as to derive or invent his own models. Examples are mostly taken from environmental physics and geophysics.

  7. Human development VII: a spiral fractal model of fine structure of physical energy could explain central aspects of biological information, biological organization and biological creativity.

    Science.gov (United States)

    Ventegodt, Søren; Hermansen, Tyge Dahl; Flensborg-Madsen, Trine; Rald, Erik; Nielsen, Maj Lyck; Merrick, Joav

    2006-01-01

    In this paper we have made a draft of a physical fractal essence of the universe, a sketch of a new cosmology, which we believe to lay at the root of our new holistic biological paradigm. We present the fractal roomy spiraled structures and the energy-rich dancing "infinite strings" or lines of the universe that our hypothesis is based upon. The geometric language of this cosmology is symbolic and both pre-mathematical and pre-philosophical. The symbols are both text and figures, and using these we step by step explain the new model that at least to some extent is able to explain the complex informational system behind morphogenesis, ontogenesis, regeneration and healing. We suggest that it is from this highly dynamic spiraled structure that organization of cells, organs, and the wholeness of the human being including consciousness emerge. The model of "dancing fractal spirals" carries many similarities to premodern cultures descriptions of the energy of the life and universe. Examples are the Native American shamanistic descriptions of their perception of energy and the old Indian Yogis descriptions of the life-energy within the body and outside. Similar ideas of energy and matter are found in the modern superstring theories. The model of the informational system of the organism gives new meaning to Bateson's definition of information: "A difference that makes a difference", and indicates how information-directed self-organization can exist on high structural levels in living organisms, giving birth to their subjectivity and consciousness. PMID:17115083

  8. Levels of Biological Diversity: a Spatial Approach to Assessment Methods

    Directory of Open Access Journals (Sweden)

    ALEXANDRU-IONUŢ PETRIŞOR

    2008-01-01

    Full Text Available Biological diversity, interpreted as a variety of natural and man-dominated biological and ecological systems, plays an important role in assuring their stability and can be interpreted at different spatial scales, based on the hierarchical level of the system (biocoenose/ ecosystem, biome/complex of ecosystem, biosphere/ecosphere. Literature distinguishes six levels of biodiversity, namely alpha, beta, gamma, delta, epsilon, and omega. The current paper lists methodologies appropriate for assessing diversity at each of these levels, with a particular focus on regional diversity (gamma, delta, and epsilon diversities, i.e. CORINE land cover classification and the biogeographical regions of the European Union.

  9. Separating physical and biological nutrient retention and quantifying uptake kinetics from ambient to saturation in successive mountain stream reaches

    Science.gov (United States)

    Covino, Timothy; McGlynn, Brian; Baker, Michelle

    2010-12-01

    Hydrological and biogeochemical processes in stream reaches impact the downstream transport of nutrients. The output from one stream reach becomes the input for the next, leading to serial processing along stream networks. The shape of the uptake-concentration curve for each reach indicates in-stream biological uptake of nutrient. Combined with physical retention due to hydrologic turnover, both biological and physical retention will control nutrient export downstream. We performed an instantaneous addition of conservative (chloride, Cl) and nonconservative nutrient (nitrate-nitrogen, NO3-N) tracers to ascertain the relative roles of physical and biological retention across four adjacent reaches along a 3744 m stream network in the Sawtooth Mountains, ID. Physical retention dominated total retention ranging from 15% to 58% across individual reaches and totaling 81% across the entire stream length. Within each reach, biological uptake was strongly controlled by nutrient concentration. We quantified continuous Michaelis-Menten (M-M) kinetic curves for each reach and determined that ambient uptake (Uamb) ranged from 19 to 58 μg m-2 min-1, maximum uptake (Umax) from 65 to 240 μg m-2 min-1, and half-saturation constants (Km) from 4.2 to 14.4 μg l-1 NO3-N. Biological retention capacity indicated by Umax decreased in a downstream direction. Although biological retention capacity decreased moving downstream, it did not decrease as much as physical retention, which led to biological retention comprising a larger portion of total retention at downstream reaches. We suggest that accurate assessment of total retention across stream reaches and stream networks requires quantification of physical retention and the concentration-dependent nature of biological uptake.

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

    OpenAIRE

    Snezana Stavrova Veselinovskaa

    2011-01-01

    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 Lab...

  11. Environmental parameters of the Tennessee River in Alabama. 2: Physical, chemical, and biological parameters. [biological and chemical effects of thermal pollution from nuclear power plants on water quality

    Science.gov (United States)

    Rosing, L. M.

    1976-01-01

    Physical, chemical and biological water quality data from five sites in the Tennessee River, two in Guntersville Reservoir and three in Wheeler Reservoir were correlated with climatological data for three annual cycles. Two of the annual cycles are for the years prior to the Browns Ferry Nuclear Power Plant operations and one is for the first 14 months of Plant operations. A comparison of the results of the annual cycles indicates that two distinct physical conditions in the reservoirs occur, one during the warm months when the reservoirs are at capacity and one during the colder winter months when the reservoirs have been drawn-down for water storage during the rainy months and for weed control. The wide variations of physical and chemical parameters to which the biological organisms are subjected on an annual basis control the biological organisms and their population levels. A comparison of the parameters of the site below the Power plant indicates that the heated effluent from the plant operating with two of the three reactors has not had any effect on the organisms at this site. Recommendations given include the development of prediction mathematical models (statistical analysis) for the physical and chemical parameters under specific climatological conditions which affect biological organisms. Tabulated data of chemical analysis of water and organism populations studied is given.

  12. From the Physical World to the Biological Universe: Historical Developments Underlying SETI

    Science.gov (United States)

    Dick, Steven J.

    More than thirty years ago the French historian of science Alexandre Koyré (1957) wrote his classic volume, From the Closed World to the Infinite Universe, in which he argued that a fundamental shift in world view had taken place in 17th century cosmology. Between Nicholas of Cusa in the fifteenth century and Newton and Leibniz in the seventeenth, he found that the very terms in which humans thought about their universe had changed. These changes he characterized broadly as the destruction of the closed finite cosmos and the geometrization of space. The occasion of the Third International Bioastronomy Symposium in France is an especially appropriate time to argue that the SETI endeavor represents a test for a similar fundamental shift in cosmological world view, from the physical world to the biological universe. I define the biological universe, equivalent to what I have called before the biophysical cosmology (Dick, 1989), as the scientific world view which holds that life is widespread throughout the universe. In this case the biological universe does not necessarily supersede the physical universe, but a universe filled with life would certainly fundamentally alter our attitude toward the universe, and our place in it. Although Koyré mentioned life beyond the Earth as an adjunct to the revolution from the closed world to the infinite universe, only in the 1980s has the history of science begun to give full treatment to the subject. What follows is meant to be a contribution to that ongoing endeavor to understand where the extraterrestrial life debate fits in the history of science. The modern era in the extraterrestrial life debate is normally dated from Cocconi and Morrison's paper in 1959, and though one can always find precursors, this in my view is a valid perception. Cocconi and Morrison gave definite form to SETI, Frank Drake independently first carried out the experiment, a network of interested scientists began to form and met in Green Bank in

  13. Physical and biological predictors of radiation-induced whole lung injury: early results of a prospective study

    International Nuclear Information System (INIS)

    Purpose: To develop methods of predicting the pulmonary consequences of thoracic irradiation (RT) by prospectively studying changes in pulmonary function following RT. Methods: 105 patients receiving incidental partial lung irradiation during treatment of tumors in/around the thorax (lung-70, breast-18, lymphoma-4, misc-3) had whole lung function assessed (symptoms and pulmonary function tests [PFTs: FEV1-forced expiratory volume 1 sec; DLCO-diffusion capacity]) before and repeatedly 6-48 months following RT. All had computed tomography-based 3-dimensional (3D) dose calculations with lung density heterogeneity corrections for dose-volume histogram (DVH) and NTCP (normal tissue complication probability) calculations. Functional DVHs (DVfH) based on SPECT (single photon emission computed tomography) lung perfusion scans, and serial transforming growth factor-beta (TGF-β) levels were available in 50 and 30 patients, respectively. The incidence and severity of changes in whole lung function were correlated with clinical, physical and biological factors outlined in the results. Exploratory statistical analyses were preformed using chi-square, logistic regression, and multiple linear regression. Mean pt age=57, range 21-87; sex: 63 F, 42 M; 29 had chemotherapy (CT) before/with RT; Follow-up 6-48 months (mean 15, median 12). Results RT-induced symptoms developed in 26 patients (7-grade I-no intervention; 16 grade II-steroids; 3 grade III-oxygen and steroids). A mixed model based on pre-RT DLCO and CT-based NTCP was strongly predictive for the development of symptoms (p30 Gy. In patients with 'good' pre-RT PFTs, there may be a relationship between the % reduction in PFT and % lung volume receiving >30 Gy (figure). Conclusion: Whole lung injury (symptoms or PFT changes) appears to be related to a variety of physical, biological and clinical factors. The data suggest that no one variable is likely to be an adequate predictor and that multi-faceted predictive models will be

  14. Stable isotope methods in biological and ecological studies of arthropods

    NARCIS (Netherlands)

    Hood-Nowotny, R.C.; Knols, B.G.J.

    2007-01-01

    This is an eclectic review and analysis of contemporary and promising stable isotope methodologies to study the biology and ecology of arthropods. It is augmented with literature from other disciplines, indicative of the potential for knowledge transfer. It is demonstrated that stable isotopes can b

  15. Thin film composition with biological substance and method of making

    Energy Technology Data Exchange (ETDEWEB)

    Campbell, Allison A. (Kennewick, WA); Song, Lin (Richland, WA)

    1999-01-01

    The invention provides a thin-film composition comprising an underlying substrate of a first material including a plurality of attachment sites; a plurality of functional groups chemically attached to the attachment sites of the underlying substrate; and a thin film of a second material deposited onto the attachment sites of the underlying substrate, and a biologically active substance deposited with the thin-film. Preferably the functional groups are attached to a self assembling monolayer attached to the underlying substrate. Preferred functional groups attached to the underlying substrate are chosen from the group consisting of carboxylates, sulfonates, phosphates, optionally substituted, linear or cyclo, alkyl, alkene, alkyne, aryl, alkylaryl, amine, hydroxyl, thiol, silyl, phosphoryl, cyano, metallocenyl, carbonyl, and polyphosphate. Preferred materials for the underlying substrate are selected from the group consisting of a metal, a metal alloy, a plastic, a polymer, a proteic film, a membrane, a glass or a ceramic. The second material is selected from the group consisting of inorganic crystalline structures, inorganic amorphus structures, organic crystalline structures, and organic amorphus structures. Preferred second materials are phosphates, especially calcium phosphates and most particularly calcium apatite. The biologically active molecule is a protein, peptide, DNA segment, RNA segment, nucleotide, polynucleotide, nucleoside, antibiotic, antimicrobal, radioisotope, chelated radioisotope, chelated metal, metal salt, anti-inflamatory, steriod, nonsteriod anti-inflammatory, analgesic, antihistamine, receptor binding agent, or chemotherapeutic agent, or other biologically active material. Preferably the biologically active molecule is an osteogenic factor the compositions listed above.

  16. Biological stability of drinking water: Controlling factors, methods, and challenges

    NARCIS (Netherlands)

    Prest, E.I.E.D.; Hammes, F.; Van Loosdrecht, M.C.M.; Vrouwenvelder, J.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 ca

  17. Using Collision Cones to Asses Biological Deconiction Methods

    Science.gov (United States)

    Brace, Natalie

    For autonomous vehicles to navigate the world as efficiently and effectively as biological species, improvements are needed in terms of control strategies and estimation algorithms. Reactive collision avoidance is one specific area where biological systems outperform engineered algorithms. To better understand the discrepancy between engineered and biological systems, a collision avoidance algorithm was applied to frames of trajectory data from three biological species (Myotis velifer, Hirundo rustica, and Danio aequipinnatus). The algorithm uses information that can be sensed through visual cues (relative position and velocity) to define collision cones which are used to determine if agents are on a collision course and if so, to find a safe velocity that requires minimal deviation from the original velocity for each individual agent. Two- and three-dimensional versions of the algorithm with constant speed and maximum speed velocity requirements were considered. The obstacles provided to the algorithm were determined by the sensing range in terms of either metric or topological distance. The calculated velocities showed good correlation with observed velocities over the range of sensing parameters, indicating that the algorithm is a good basis for comparison and could potentially be improved with further study.

  18. Thin film composition with biological substance and method of making

    International Nuclear Information System (INIS)

    The invention provides a thin-film composition comprising an underlying substrate of a first material including a plurality of attachment sites; a plurality of functional groups chemically attached to the attachment sites of the underlying substrate; and a thin film of a second material deposited onto the attachment sites of the underlying substrate, and a biologically active substance deposited with the thin-film. Preferably the functional groups are attached to a self assembling monolayer attached to the underlying substrate. Preferred functional groups attached to the underlying substrate are chosen from the group consisting of carboxylates, sulfonates, phosphates, optionally substituted, linear or cyclo, alkyl, alkene, alkyne, aryl, alkylaryl, amine, hydroxyl, thiol, silyl, phosphoryl, cyano, metallocenyl, carbonyl, and polyphosphate. Preferred materials for the underlying substrate are selected from the group consisting of a metal, a metal alloy, a plastic, a polymer, a proteic film, a membrane, a glass or a ceramic. The second material is selected from the group consisting of inorganic crystalline structures, inorganic amorphous structures, organic crystalline structures, and organic amorphous structures. Preferred second materials are phosphates, especially calcium phosphates and most particularly calcium apatite. The biologically active molecule is a protein, peptide, DNA segment, RNA segment, nucleotide, polynucleotide, nucleoside, antibiotic, antimicrobial, radioisotope, chelated radioisotope, chelated metal, metal salt, anti-inflammatory, steroid, nonsteroid anti-inflammatory, analgesic, antihistamine, receptor binding agent, or chemotherapeutic agent, or other biologically active material. Preferably the biologically active molecule is an osteogenic factor consisting of the compositions listed above

  19. 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

    selected biologically based treatments, mild chemical and physical treatments could reduce fumonisin contamination effectively. In rural subsistence farming communities, simple, practical, and culturally acceptable hand-sorting, maize kernel washing, and dehulling intervention methods proved to be effective as a last line of defense for reducing fumonisin exposure. Biologically based methods for control of fumonisin-producing Fusarium spp. and decontamination of the fumonisins could have potential commercial application, while simple and practical intervention strategies could also impact positively on food safety and security, especially in rural populations reliant on maize as a dietary staple. PMID:27199904

  20. 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

    , together with selected biologically based treatments, mild chemical and physical treatments could reduce fumonisin contamination effectively. In rural subsistence farming communities, simple, practical and culturally acceptable hand-sorting, maize kernel washing and dehulling intervention methods proved to be effective as a last line of defence for reducing fumonisin exposure. Biologically based methods for control of fumonisin-producing Fusarium spp. and decontamination of the fumonisins could have potential commercial application, while simple and practical intervention strategies could also impact positively on food safety and security, especially in rural populations reliant on maize as a dietary staple.

  1. Using Metaphor Theory to Examine Conceptions of Energy in Biology, Chemistry, and Physics

    Science.gov (United States)

    Lancor, Rachael

    2014-06-01

    Energy is one of the most important unifying themes in science. Yet the way energy is conceptualized varies depending on context. In this paper, the discourse used to explain the role of energy in systems from biology, chemistry, and physics is examined from the perspective of metaphor theory. Six substance metaphors for energy are identified in pedagogical discourse (i.e., textbooks and the science education literature): energy as a substance that can be accounted for, can flow, can be carried, can change forms, can be lost, and can be an ingredient, a product or stored in some way. Each of these conceptual metaphors highlight and obscure various characteristics of energy, and provide a set of frameworks that each afford a different understanding of the energy concept.

  2. Design in nature how the constructal law governs evolution in biology, physics, technology, and social organization

    CERN Document Server

    Bejan, Adrian

    2013-01-01

    In this groundbreaking book, Adrian Bejan takes the recurring patterns in nature—trees, tributaries, air passages, neural networks, and lightning bolts—and reveals how a single principle of physics, the constructal law, accounts for the evolution of these and many other designs in our world. Everything—from biological life to inanimate systems—generates shape and structure and evolves in a sequence of ever-improving designs in order to facilitate flow. River basins, cardiovascular systems, and bolts of lightning are very efficient flow systems to move a current—of water, blood, or electricity. Likewise, the more complex architecture of animals evolve to cover greater distance per unit of useful energy, or increase their flow across the land. Such designs also appear in human organizations, like the hierarchical “flowcharts” or reporting structures in corporations and political bodies. All are governed by the same principle, known as the constructal law, and configure and reconfigure themselves...

  3. Physical, chemical, and biological properties of soils in the city of Mariupol, Ukraine

    Science.gov (United States)

    Shekhovtseva, O. G.; Mal'tseva, I. A.

    2015-12-01

    Physicochemical and biological properties of urbanized soils in the city of Mariupol have been considered in comparison with the background soils. The parametrical characteristics (abundance and biomass) of soil algal groups, the content of humus, the reaction of soil solution, the content of heavy metals, and the particle size distributions of soils under different anthropogenic impacts have been assessed. The physicochemical properties of soils developing under urboecosystem conditions affect the number of structure-forming species, biomass, and proportions of soil algae. According to the particle size distribution, urban soils are classified among the medium and heavy loamy soils with the predominance of the clay and coarse silt fractions. The fractions of physical clay and clay are of highest importance for the existence of algae. The accumulation of heavy metals in the surface horizons of soils can stimulate or inhibit the development of algae depending on the metal concentration.

  4. Temporal changes in physical, chemical and biological sediment parameters in a tropical estuary after mangrove deforestation

    Science.gov (United States)

    Ellegaard, Marianne; Nguyen, Ngoc Tuong Giang; Andersen, Thorbjørn Joest; Michelsen, Anders; Nguyen, Ngoc Lam; Doan, Nhu Hai; Kristensen, Erik; Weckström, Kaarina; Son, Tong Phuoc Hoang; Lund-Hansen, Lars Chresten

    2014-04-01

    Dated sediment cores taken near the head and mouth of a tropical estuary, Nha-Phu/Binh Cang, in south central Viet Nam were analyzed for changes over time in physical, chemical and biological proxies potentially influenced by removal of the mangrove forest lining the estuary. A time-series of satellite images was obtained, which showed that the depletion of the mangrove forest at the head of the estuary was relatively recent. Most of the area was converted into aquaculture ponds, mainly in the late 1990's. The sediment record showed a clear increase in sedimentation rate at the head of the estuary at the time of mangrove deforestation and a change in diatom assemblages in the core from the mouth of the estuary indicating an increase in the water column turbidity of the entire estuary at the time of the mangrove deforestation. The proportion of fine-grained sediment and the δ13C signal both increased with distance from the head of the estuary while the carbon content decreased. The nitrogen content and the δ15N signal were more or less constant throughout the estuary. The proportion of fine-grained material and the chemical proxies were more or less stable over time in the core from the mouth while they varied synchronously over time in the core from the head of the estuary. The sediment proxies combined show that mangrove deforestation had large effects on the estuary with regard to both the physical and chemical environment with implications for the biological functioning.

  5. Linking Physical Dynamics and Biological Productivity in a Coastal Mesoscale Eddy

    Science.gov (United States)

    Simons, R. D.; Nishimoto, M. M.; Washburn, L.; Brown, K. S.; Siegel, D. A.

    2014-12-01

    The Santa Barbara Channel (SBC) eddy is a cyclonic mesoscale eddy located off the coast of Southern California, USA. In the summer of 1998 and 1999, the SBC eddy was surveyed for juvenile fishes. In 1998, very high numbers of juvenile fishes were observed within the eddy, but not in 1999. The ocean conditions that contributed to the differences in fish abundances inside the eddy were investigated with three-dimensional numerical modeling. The physical dynamics of the SBC eddy, which included eddy size, three-dimensional rotational structure, and isopycnal uplift, were evaluated using a three-dimensional Regional Ocean Modeling System (ROMS). The retention ability of the eddy was quantified using a three-dimensional particle tracking model driven by the ROMS. The physical dynamics and particle retention of the SBC eddy were found to differ significantly in 1998 and 1999. In 1998, when the SBC eddy was rotating at a steady rate spatially and temporally and cycling consistently in and out of solid-body rotation, the particle retention was high and the isopycnal uplift sustained. However in 1999, when the SBC eddy was rotating unsteadily in space and time and did not have periods of solid-body rotation, the particle retention was low and the isopycnal uplift unstable. We theorize that the steady symmetric rotation of the eddy in 1998 had two important impacts on the biological productivity inside the eddy. First, it provided a prolonged period of cold nutrient rich water uplifting into the euphotic zone, which stimulated productivity and consequently attracted zooplankton. Second, it allowed the zooplankton, prey for the juvenile fish, to be retained inside the eddy, which attracted the juvenile fish. We conclude that biological productivity inside mesoscale eddies may be linked to the stability of its three-dimensional rotational structure and consequently its ability to retain particles.

  6. 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...

  7. A comparative analysis on computational methods for fitting an ERGM to biological network data

    Directory of Open Access Journals (Sweden)

    Sudipta Saha

    2015-03-01

    Full Text Available Exponential random graph models (ERGM based on graph theory are useful in studying global biological network structure using its local properties. However, computational methods for fitting such models are sensitive to the type, structure and the number of the local features of a network under study. In this paper, we compared computational methods for fitting an ERGM with local features of different types and structures. Two commonly used methods, such as the Markov Chain Monte Carlo Maximum Likelihood Estimation and the Maximum Pseudo Likelihood Estimation are considered for estimating the coefficients of network attributes. We compared the estimates of observed network to our random simulated network using both methods under ERGM. The motivation was to ascertain the extent to which an observed network would deviate from a randomly simulated network if the physical numbers of attributes were approximately same. Cut-off points of some common attributes of interest for different order of nodes were determined through simulations. We implemented our method to a known regulatory network database of Escherichia coli (E. coli.

  8. Methods of information theory and algorithmic complexity for network biology.

    Science.gov (United States)

    Zenil, Hector; Kiani, Narsis A; Tegnér, Jesper

    2016-03-01

    We survey and introduce concepts and tools located at the intersection of information theory and network biology. We show that Shannon's information entropy, compressibility and algorithmic complexity quantify different local and global aspects of synthetic and biological data. We show examples such as the emergence of giant components in Erdös-Rényi random graphs, and the recovery of topological properties from numerical kinetic properties simulating gene expression data. We provide exact theoretical calculations, numerical approximations and error estimations of entropy, algorithmic probability and Kolmogorov complexity for different types of graphs, characterizing their variant and invariant properties. We introduce formal definitions of complexity for both labeled and unlabeled graphs and prove that the Kolmogorov complexity of a labeled graph is a good approximation of its unlabeled Kolmogorov complexity and thus a robust definition of graph complexity.

  9. Integrated Ecological River Health Assessments, Based on Water Chemistry, Physical Habitat Quality and Biological Integrity

    Directory of Open Access Journals (Sweden)

    Ji Yoon Kim

    2015-11-01

    Full Text Available This study evaluated integrative river ecosystem health using stressor-based models of physical habitat health, chemical water health, and biological health of fish and identified multiple-stressor indicators influencing the ecosystem health. Integrated health responses (IHRs, based on star-plot approach, were calculated from qualitative habitat evaluation index (QHEI, nutrient pollution index (NPI, and index of biological integrity (IBI in four different longitudinal regions (Groups I–IV. For the calculations of IHRs values, multi-metric QHEI, NPI, and IBI models were developed and their criteria for the diagnosis of the health were determined. The longitudinal patterns of the river were analyzed by a self-organizing map (SOM model and the key major stressors in the river were identified by principal component analysis (PCA. Our model scores of integrated health responses (IHRs suggested that mid-stream and downstream regions were impaired, and the key stressors were closely associated with nutrient enrichment (N and P and organic matter pollutions from domestic wastewater disposal plants and urban sewage. This modeling approach of IHRs may be used as an effective tool for evaluations of integrative ecological river health..

  10. The response of tidal morphologies to changing physical and biological forcings

    Science.gov (United States)

    D'Alpaos, A.; da Lio, C.; Marani, M.

    2009-12-01

    In times of natural climate changes and human interferences, tidal ecosystems are most exposed to possibly irreversible transformations, with far-reaching ecological, economical and social implications worldwide. Relative sea-level fluctuations, changes in nutrient and sediment loading, and ecological characteristics expose tidal ecosystems to responses which may or may not be reversible. Improving our understanding of the chief landforming processes which drive their morphogenesis and long-term evolution, is deemed to be a subject of leading theoretical and practical importance. We have modelled the joint evolution of tidal landforms and biota including the dynamics of intertidal vegetation, benthic microbial assemblages, erosional and depositional processes, local and general hydrodynamics, and relative sea-level change. Alternative stable states and punctuated equilibrium dynamics emerge, characterized by possible sudden transitions of the system, governed by vegetation type, disturbances of the benthic biofilm, sediment availability, wind climate, local hydrodynamics, and the vagaries of relative sea level rise. The existence of feedbacks between physical and biological processes affect trajectories characterizing the evolution of these ecosystems and the reversibility of such trajectories. They highlight the importance of the coupling between biological and sediment transport processes in determining the evolution of a tidal system as a whole.

  11. Visual Representations on High School Biology, Chemistry, Earth Science, and Physics Assessments

    Science.gov (United States)

    LaDue, Nicole D.; Libarkin, Julie C.; Thomas, Stephen R.

    2015-12-01

    The pervasive use of visual representations in textbooks, curricula, and assessments underscores their importance in K-12 science education. For example, visual representations figure prominently in the recent publication of the Next Generation Science Standards (NGSS Lead States in Next generation science standards: for states, by states. Achieve, Inc. on behalf of the twenty-six states and partners that collaborated on the NGSS, 2013). Although assessments of the NGSS have yet to be developed, most students are currently evaluated on their ability to interpret science visuals. While numerous studies exist on particular visuals, it is unclear whether the same types of visuals are emphasized in all science disciplines. The present study is an evaluation of the similarities and differences of visuals used to assess students' knowledge of chemistry, earth science, living environment (biology), and physics on the New York State Regents examination. Analysis of 266 distinct visual representations categorized across the four content examinations reveals that the frequency and type of visuals vary greatly between disciplines. Diagrams, Graphs, Tables, and Maps are the most prevalent across all science disciplines. Maps, Cartograms, and Time Charts are unique to the Earth Science examination, and Network Diagrams are unique to the living environment (biology) examination. This study identifies which representations are most critical for training students across the science disciplines in anticipation of the implementation and eventual assessment of the NGSS.

  12. ACTIVE AND PARTICIPATORY METHODS IN BIOLOGY: PROBLEM-SOLVING

    OpenAIRE

    Adela NEMEŞ; Nicoleta IANOVICI

    2010-01-01

    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 id...

  13. Human Development VII: A Spiral Fractal Model of Fine Structure of Physical Energy Could Explain Central Aspects of Biological Information, Biological Organization and Biological Creativity

    Directory of Open Access Journals (Sweden)

    Søren Ventegodt

    2006-01-01

    Full Text Available In this paper we have made a draft of a physical fractal essence of the universe, a sketch of a new cosmology, which we believe to lay at the root of our new holistic biological paradigm. We present the fractal roomy spiraled structures and the energy-rich dancing “infinite strings” or lines of the universe that our hypothesis is based upon. The geometric language of this cosmology is symbolic and both pre-mathematical and pre-philosophical. The symbols are both text and figures, and using these we step by step explain the new model that at least to some extent is able to explain the complex informational system behind morphogenesis, ontogenesis, regeneration and healing. We suggest that it is from this highly dynamic spiraled structure that organization of cells, organs, and the wholeness of the human being including consciousness emerge. The model of ““dancing fractal spirals” carries many similarities to premodern cultures descriptions of the energy of the life and universe. Examples are the Native American shamanistic descriptions of their perception of energy and the old Indian Yogis descriptions of the life-energy within the body and outside. Similar ideas of energy and matter are found in the modern superstring theories. The model of the informational system of the organism gives new meaning to Bateson’s definition of information: “A difference that makes a difference”, and indicates how information-directed self-organization can exist on high structural levels in living organisms, giving birth to their subjectivity and consciousness.

  14. Methods for Analyzing Pathways through a Physics Major

    OpenAIRE

    Aiken, John M.; Caballero, Marcos D.

    2016-01-01

    Physics Education Research frequently investigates what students studying physics do on small time scales (e.g. single courses, observations within single courses), or post-education time scales (e.g., what jobs do physics majors get?) but there is little research into how students get from the beginning to the end of a physics degree. Our work attempts to visualize students paths through the physics major, and quantitatively describe the students who take physics courses, receive physics deg...

  15. Psychotherapy, biological psychiatry, and the nature of matter: a view from physics.

    Science.gov (United States)

    Berger, L S

    2001-01-01

    Biological psychiatry has marginalized psychotherapy, and it is difficult for psychotherapists to counter its hegemony. The reductionist/materialist position seems incontrovertible and self-evident. An important factor in maintaining this stance is the belief that the physical world is understandable, solid, unproblematic, especially when compared to the realm of the psychological. Developments in quantum and relativity theories, however, cast doubt on that belief. They show the fundamental nature of the material world to be problematic, enigmatic, paradoxical, impossible to understand or conceptualize in terms of everyday experience. This insight weakens the prima facie case for privileging the material over the psychological, and alternative (i.e., nonneurobiological) approaches to mental health matters should, therefore, be able to compete on an equal footing. However, the materialist-reductionist stance is kept in place by powerful forces and is well defended; rational arguments alone are unlikely to have an impact. This pervasive ideological resistance to rational, often well-founded critiques of physical reductionism continues to be a major impediment to changing the present materialist climate. That resistance has to be addressed before any significant shift in orientation can be expected to occur.

  16. The Gaussian CLs method for searches of new physics

    Science.gov (United States)

    Qian, X.; Tan, A.; Ling, J. J.; Nakajima, Y.; Zhang, C.

    2016-08-01

    We describe a method based on the CLs approach to present results in searches of new physics, under the condition that the relevant parameter space is continuous. Our method relies on a class of test statistics developed for non-nested hypotheses testing problems, denoted by ΔT, which has a Gaussian approximation to its parent distribution when the sample size is large. This leads to a simple procedure of forming exclusion sets for the parameters of interest, which we call the Gaussian CLs method. Our work provides a self-contained mathematical proof for the Gaussian CLs method that explicitly outlines the required conditions. These conditions are milder than that required by Wilks' theorem to set confidence intervals (CIs). We illustrate the Gaussian CLs method in an example of searching for a sterile neutrino, where the CLs approach was rarely used before. We also compare data analysis results produced by the Gaussian CLs method and various CI methods to showcase their differences.

  17. A Data Transmission Method Based on Ethernet Physical Layer for Particle Physics Experiment

    CERN Document Server

    Xi-Ru, Huang; Jia-Jun, Zheng

    2015-01-01

    Due to the advantages of universality, flexibility and high performance, fast Ethernet is widely used in readout system design of modern particle physics experiments. However, Ethernet is usually used together with TCP/IP protocol stack, which makes it difficult to be implemented because designers have to use operating system to process this protocol. Furthermore, TCP/IP protocol degrades the transmission efficiency and real-time performance. To maximize the performance of Ethernet in physics experiment applications, a data readout method based on physical layer (PHY) is proposed in this paper. In this method, TCP/IP protocol is forsaken and replaced with a customized and simple protocol, which make it easier to be implemented. On each readout module, data from front-end electronics is first fed into an FPGA for protocol processing and then sent out to a PHY chip controlled by this FPGA for transmission. This kind of data path is fully implemented by hardware. While from the side of data acquisition system (D...

  18. Dosing method of physical activity in aerobics classes for students

    Directory of Open Access Journals (Sweden)

    Beliak Yu.I.

    2014-10-01

    Full Text Available Purpose : reasons for the method of dosing of physical activity in aerobics classes for students. The basis of the method is the evaluation of the metabolic cost of funds used in them. Material : experiment involved the assessment of the pulse response of students to load complexes classical and step aerobics (n = 47, age 20-23 years. In complexes used various factors regulating the intensity: perform combinations of basic steps, involvement of movements with his hands, holding in hands dumbbells weighing 1kg increase in the rate of musical accompaniment, varying heights step platform. Results . on the basis of the relationship between heart rate and oxygen consumption was determined by the energy cost of each admission control load intensity. This indicator has been used to justify the intensity and duration of multiplicity aerobics. Figure correspond to the level of physical condition and motor activity deficits students. Conclusions : the estimated component of this method of dosing load makes it convenient for use in automated computer programs. Also it can be easily modified to dispense load other types of recreational fitness.

  19. Shallow-water System Dynamics in Chesapeake Bay, with Physical-Biological Modeling Application

    Science.gov (United States)

    Tian, R.; Wang, P.; Linker, L. C.

    2014-12-01

    Chesapeake Bay is the largest estuary in the United States. The total surface area is 9920 square kilometers of which 7540 square kilometers are shallower than 10 m. These shallow systems provide vital habitats and nursery grounds for numerous species of fish, shellfish, and wildlife. In the Chesapeake the shallow water systems have deteriorated in terms of healthy ecosystem levels and submerged aquatic vegetation (SAV). Restoration of the shallow water systems requires an understanding of their dynamics including wave-current interactions, shoreline erosion, sediment suspension, biological and biogeochemical processes, sediment diagenesis, sediment-water exchange, and diel cycles of temperature, salinity, turbidity, alkalinity, chlorophyll, nutrients, and dissolved oxygen (DO). To this end, an extensive shallow water monitoring program has been implemented in the Chesapeake since 2003. The program includes bi-weekly cruises of nutrient sampling, a continuous monitoring network with electronic sensors collecting data at a 15 minute interval, and a unique data flow survey from moving boats that collect underway observations with a datum frequency of seconds. The data reveal large diel cycles, with chlorophyll varying between a few mg/l to hundreds of mg/l, DO between 0 to 20 mg/l (with saturation from 0 to 250%), turbidity between 0 to 1500 NTUs, and pH from 6.0 to 9.5, which demonstrate the highly dynamic nature in physical and biological process of the shallow water systems . In order to better understand the key mechanisms and processes of these shallow-water systems and to explore the monitoring data, we applied a coupled physical and water quality model to the Chester and Corsica tributaries. The physical model is the Unstructured Finite Volume Coastal Ocean Model (FVCOM) and the water quality model is the Integrated Compartment Model (ICM) which has 36 state variables such as phytoplankton, zooplankton, DO, nutrients, and various organic matter and sediment

  20. Effects of physical therapy for the management of patients with ankylosing spondylitis in the biological era.

    Science.gov (United States)

    Giannotti, Erika; Trainito, Sabina; Arioli, Giovanni; Rucco, Vincenzo; Masiero, Stefano

    2014-09-01

    Exercise is considered a fundamental tool for the management of ankylosing spondylitis (AS), in combination with pharmacological therapy that with the advent of biological therapy has improved dramatically the control of signs and symptoms of this challenging disease. Current evidence shows that a specific exercise protocol has not been validated yet. The purpose of this review is to update the most recent evidence (July 2010-November 2013) about physiotherapy in AS, analyzing the possible role and synergistic interactions between exercise and biological drugs. From 117 studies initially considered, only 15 were included in the review. The results support a multimodal approach, including educational sessions, conducted in a group setting, supervised by a physiotherapist and followed by a maintaining home-based regimen. Spa exercise and McKenzie, Heckscher, and Pilates methods seem promising in AS rehabilitation, but their effectiveness should be further investigated in future randomized controlled trials (RCTs). When performed in accordance with the American College of Sports Medicine guidelines, cardiovascular training has been proven safe and effective and should be included in AS rehabilitation protocols. Exercise training plays an important role in the biological era, being now applicable to stabilized patients, leading ultimately to a better management of AS by physiatrists and rheumatologists throughout the world. On the basis of the current evidence, further research should aim to determine which exercise protocols should be recommended. PMID:24797772

  1. Effects of physical therapy for the management of patients with ankylosing spondylitis in the biological era.

    Science.gov (United States)

    Giannotti, Erika; Trainito, Sabina; Arioli, Giovanni; Rucco, Vincenzo; Masiero, Stefano

    2014-09-01

    Exercise is considered a fundamental tool for the management of ankylosing spondylitis (AS), in combination with pharmacological therapy that with the advent of biological therapy has improved dramatically the control of signs and symptoms of this challenging disease. Current evidence shows that a specific exercise protocol has not been validated yet. The purpose of this review is to update the most recent evidence (July 2010-November 2013) about physiotherapy in AS, analyzing the possible role and synergistic interactions between exercise and biological drugs. From 117 studies initially considered, only 15 were included in the review. The results support a multimodal approach, including educational sessions, conducted in a group setting, supervised by a physiotherapist and followed by a maintaining home-based regimen. Spa exercise and McKenzie, Heckscher, and Pilates methods seem promising in AS rehabilitation, but their effectiveness should be further investigated in future randomized controlled trials (RCTs). When performed in accordance with the American College of Sports Medicine guidelines, cardiovascular training has been proven safe and effective and should be included in AS rehabilitation protocols. Exercise training plays an important role in the biological era, being now applicable to stabilized patients, leading ultimately to a better management of AS by physiatrists and rheumatologists throughout the world. On the basis of the current evidence, further research should aim to determine which exercise protocols should be recommended.

  2. Evolutionary game theory for physical and biological scientists. I. Training and validating population dynamics equations.

    Science.gov (United States)

    Liao, David; Tlsty, Thea D

    2014-08-01

    Failure to understand evolutionary dynamics has been hypothesized as limiting our ability to control biological systems. An increasing awareness of similarities between macroscopic ecosystems and cellular tissues has inspired optimism that game theory will provide insights into the progression and control of cancer. To realize this potential, the ability to compare game theoretic models and experimental measurements of population dynamics should be broadly disseminated. In this tutorial, we present an analysis method that can be used to train parameters in game theoretic dynamics equations, used to validate the resulting equations, and used to make predictions to challenge these equations and to design treatment strategies. The data analysis techniques in this tutorial are adapted from the analysis of reaction kinetics using the method of initial rates taught in undergraduate general chemistry courses. Reliance on computer programming is avoided to encourage the adoption of these methods as routine bench activities.

  3. Inaccuracies of nitric oxide measurement methods in biological media

    OpenAIRE

    Hunter, Rebecca A.; Storm, Wesley L.; Coneski, Peter N.; Schoenfisch, Mark H.

    2013-01-01

    Despite growing reports on the biological action of nitric oxide (NO) as a function of NO payload, the validity of such work is often questionable due to the manner in which NO is measured and/or the solution composition in which NO is quantified. To highlight the importance of measurement technique for a given sample type, NO produced from a small molecule NO donor (N-diazeniumdiolated l-proline, PROLI/NO) and a NO-releasing xerogel film were quantified in a number of physiological buffers a...

  4. Marine rock physical flume experiment: The method of seafloor shallow sediment recognition by ultrasonic physical attributes

    Science.gov (United States)

    Wang, Qing; Wang, Yun; Hu, Xiaoya; Zhang, Jianli; Guo, Shiguang

    2015-04-01

    It's a key problem to recognize the kinds of sediments in the ocean bottom during an acoustic survey or seismic exploration. In this paper, an ultrasonic rock physics experiment was introduced in the flume, which simulated different sedimentary types of ocean bottom, such as stone, fine sand, coarse sand, silt and cement. After processing the simulated acoustic data, some physical attributes, which are sensitive to different types of sediment, was found. In which, the weighted average frequency attribute can distinguish the coarse sand, silt and stone substrate if combined with sweetness attribute. The instantaneous quality factor (Q) attribute highlights the cement restrained with the weighted average frequency attribute. Through analyzing the relationships between porosity, density and these sensitive acoustic attributes, the types of sediment in the flume can be deduced and inversed by artificial neural network method.

  5. Experimental evidence in support of the biological effects and physical basis of homeopathic potencies

    Directory of Open Access Journals (Sweden)

    Nirmal Sukul

    2012-09-01

    Full Text Available Background: Homeopathic potencies 12 cH and above cross the Avogadro number and, for this, do not contain any original drug molecules. Two major problems involved in the scientific study of potencies are (1 understanding the physical basis of potencies and (2 demonstrating the biological effects of potencies. The present study aims to address these questions. Methods and Results: In course of our experimental studies spanned over more than 30 years we have demonstrated significant effects of homeopathic potencies on man, animals and plants. We have also showed that potencies could be differentiated through their electronic spectra, and this difference in spectra can be attributed to the electron transfer interaction. In a molecular complex, electron of one molecule absorbs a quantum of visible radiation and is excited, not to a higher energy level of this molecule, but to one of the vacant high energy levels of the neighboring molecules. This process is known as electron or charge transfer interaction. This has been demonstrated in Iodine Ó© in two different solvents of CCl4 and aqueous ethanol (Sukul N C, Environ Ecol 17,866-872, 1999. We have further demonstrated that the effect of a homeopathic potency can be transmitted from one part of a plant to another, and also from one plant to another through water. I am presenting here a few selected cases of our experimental studies. Potentized Nux vomica significantly reduced ethanol consumption in rats by 73.7%and ethanol-induced sleep time in albino mice by 44.4%. Causticum 30 C and Rhus tox 30 C produced anti-inflamatory and anti-nocicptive effect on adjuvant arthritis in albino rats. Potentized homeopathic drugs reduced microfilaraemia by 28 to 100% and filariasis in two villages of West Bengal endemic for Bancroftian filaiasis. Potentized Cina and Thuja ameliorated trichinellosis in mice reducing larval population in muscles by 84% and 68%, respectively. Potencies of Agaricus and Nux

  6. Accurate measurement and physical insight: The X-ray extended range technique for fundamental atomic physics, condensed matter research and biological sciences

    International Nuclear Information System (INIS)

    Research in core physics or atomic and condensed matter science is increasingly relevant for diverse fields and are finding application in chemistry, engineering and biological sciences, linking to experimental research at synchrotrons, reactors and specialised facilities. Over recent synchrotron experiments and publications we have developed methods for measuring the absorption coefficient far from the edge and in the XAFS (X-ray absorption fine structure) region in neutral atoms, simple compounds and organometallics reaching accuracies of below 0.02%. This is 50-500 times more accurate than earlier methods, and 50-250 times more accurate than claimed uncertainties in theoretical computations for these systems. The data and methodology are useful for a wide range of applications, including major synchrotron and laboratory techniques relating to fine structure, near-edge analysis and standard crystallography. Experiments are sensitive to theoretical and computational issues, including correlation between convergence of electronic and atomic orbitals and wavefunctions. Hence, particularly in relation to the popular techniques of XAFS and XANES (X-ray absorption near-edge structure), this development calls for strong theoretical involvement but has great applications in solid state structural determination, catalysis and enzyme environments, active centres of biomolecules and organometallics, phase changes and fluorescence investigations and others. We discuss key features of the X-ray extended range technique (XERT) and illustrate applications.

  7. Influence of physical and biological processes on the seasonal cycle of biogenic flux in the equatorial Indian Ocean

    Digital Repository Service at National Institute of Oceanography (India)

    Vidya, P.J.; PrasannaKumar, S.; Gauns, M.; Verenkar, A.; Unger, D.; Ramaswamy, V.

    very little carbon to sink (Banse, 2013; Boyd and Trull, 2007, Williams, 1998). Finally, we present a schematic picture (Fig. 14), that de- picts the above discussed physical-biological processes start- ing from organic carbon production in the euphotic... Fe ca l P el le te s Grazing M es op el ag ic z on e Eu ph ot ic z on e + Advection Fig. 14. Schematic picture summarising the physical and biological processes starting from production of organic carbon in the upper ocean to its export...

  8. Methods for Analyzing Pathways through a Physics Major

    CERN Document Server

    Aiken, John M

    2016-01-01

    Physics Education Research frequently investigates what students studying physics do on small time scales (e.g. single courses, observations within single courses), or post-education time scales (e.g., what jobs do physics majors get?) but there is little research into how students get from the beginning to the end of a physics degree. Our work attempts to visualize students paths through the physics major, and quantitatively describe the students who take physics courses, receive physics degrees, and change degree paths into and out of the physics program at Michigan State University.

  9. Physical chemical and citotoxic evaluation of highly diluted solutions of Euphorbia tirucalli L. prepared through the fifty milesimal homeopathic method

    Directory of Open Access Journals (Sweden)

    Carlos Renato Zacharias

    2010-07-01

    Full Text Available Background: although Hahnemann described the fifty-milesimal (LM method in the 6th edition of the Organon of the Medical Art, very little research has been carried out on the physical chemical properties of these homeopathic preparations. Furthermore, there is still no evidence allowing for the correlation between the alleged physical chemical properties and the biological effects of high dilutions. Aims: to evaluate physical chemical characteristics of LM preparations including electrical conductivity, pH and refraction index, and their effect on biological experimental models. Materials and methods: preparations tested for physical chemical analysis were dilutions 1 lm to 10 lm of Euphorbia tirucalli L. prepared from the latex and the juice of the plant. To rule the seasonal characteristics of this plant, 2 different populations were used, one collected in June 2007 and the other in May 2008. Furthermore, the cytotoxic effect of Euphorbia tirucalli 5 lm was tested on human breast cancer cells (MCF7 through MTT assay. Some differences among the two collections were observed. However, any clear correlation could be observed between physical chemical properties and biological activity.

  10. NATO Advanced Study Institute on Methods in Computational Molecular Physics

    CERN Document Server

    Diercksen, Geerd

    1992-01-01

    This volume records the lectures given at a NATO Advanced Study Institute on Methods in Computational Molecular Physics held in Bad Windsheim, Germany, from 22nd July until 2nd. August, 1991. This NATO Advanced Study Institute sought to bridge the quite considerable gap which exist between the presentation of molecular electronic structure theory found in contemporary monographs such as, for example, McWeeny's Methods 0/ Molecular Quantum Mechanics (Academic Press, London, 1989) or Wilson's Electron correlation in moleeules (Clarendon Press, Oxford, 1984) and the realization of the sophisticated computational algorithms required for their practical application. It sought to underline the relation between the electronic structure problem and the study of nuc1ear motion. Software for performing molecular electronic structure calculations is now being applied in an increasingly wide range of fields in both the academic and the commercial sectors. Numerous applications are reported in areas as diverse as catalysi...

  11. Literature in Focus: Statistical Methods in Experimental Physics

    CERN Multimedia

    2007-01-01

    Frederick James was a high-energy physicist who became the CERN "expert" on statistics and is now well-known around the world, in part for this famous text. The first edition of Statistical Methods in Experimental Physics was originally co-written with four other authors and was published in 1971 by North Holland (now an imprint of Elsevier). It became such an important text that demand for it has continued for more than 30 years. Fred has updated it and it was released in a second edition by World Scientific in 2006. It is still a top seller and there is no exaggeration in calling it «the» reference on the subject. A full review of the title appeared in the October CERN Courier.Come and meet the author to hear more about how this book has flourished during its 35-year lifetime. Frederick James Statistical Methods in Experimental Physics Monday, 26th of November, 4 p.m. Council Chamber (Bldg. 503-1-001) The author will be introduced...

  12. A data transmission method for particle physics experiments based on Ethernet physical layer

    Science.gov (United States)

    Huang, Xi-Ru; Cao, Ping; Zheng, Jia-Jun

    2015-11-01

    Due to its advantages of universality, flexibility and high performance, fast Ethernet is widely used in readout system design for modern particle physics experiments. However, Ethernet is usually used together with the TCP/IP protocol stack, which makes it difficult to implement readout systems because designers have to use the operating system to process this protocol. Furthermore, TCP/IP degrades the transmission efficiency and real-time performance. To maximize the performance of Ethernet in physics experiment applications, a data readout method based on the physical layer (PHY) is proposed. In this method, TCP/IP is replaced with a customized and simple protocol, which makes it easier to implement. On each readout module, data from the front-end electronics is first fed into an FPGA for protocol processing and then sent out to a PHY chip controlled by this FPGA for transmission. This kind of data path is fully implemented by hardware. From the side of the data acquisition system (DAQ), however, the absence of a standard protocol causes problems for the network related applications. To solve this problem, in the operating system kernel space, data received by the network interface card is redirected from the traditional flow to a specified memory space by a customized program. This memory space can easily be accessed by applications in user space. For the purpose of verification, a prototype system has been designed and implemented. Preliminary test results show that this method can meet the requirements of data transmission from the readout module to the DAQ with an efficient and simple manner. Supported by National Natural Science Foundation of China (11005107) and Independent Projects of State Key Laboratory of Particle Detection and Electronics (201301)

  13. Meta-cognition about biological sex and gender-stereotypic physical appearance: consequences for the assessment of leadership competence.

    Science.gov (United States)

    Sczesny, Sabine; Kühnen, Ulrich

    2004-01-01

    Previous findings are inconsistent with regard to whether men are judged as being more or less competent leaders than women. However, masculine-relative to feminine-looking persons seem to be judged consistently as more competent leaders. Can this different impact of biological sex and physical appearance be due to the disparate availability of meta-cognitive knowledge about both sources? The results of Study 1 indicated that individuals possess meta-cognitive knowledge about a possible biasing influence of persons' biological sex, but not for their physical appearance. In Study 2, participants judged the leadership competence of a male versus female stimulus person with either masculine or feminine physical appearance. In addition, the available cognitive capacity was manipulated. When high capacity was available, participants corrected for the influence of stimulus persons' sex, but they fell prey to this influence under cognitive load. However, the effect of physical appearance was not moderated by cognitive capacity.

  14. Max Delbruck Prize in Biological Physics Talk: Zoom into life at the nanoscale with STORM

    Science.gov (United States)

    Zhuang, Xiaowei

    2011-03-01

    Powered by its molecule-specific contrast and live-cell compatibility, fluorescence microscopy is one of the most widely used imaging methods in biological research. The resolution of fluorescence microscopy is classically limited by the diffraction of light to several hundred nanometers. This resolution limit is substantially larger than the typical molecular length scales in cells, preventing detailed characterization of most sub-cellular structures. Here, I describe a new imaging method, stochastic optical reconstruction microscopy (STORM), which breaks the diffraction limit and allows for super-resolution imaging. STORM uses single-molecule imaging and photo-switchable fluorescent probes to temporally separate the spatially overlapping images of individual molecules, thereby allowing each molecule to be localized with high precision and a super-resolution image to be reconstructed from the numerous measured positions of the molecules. Using this approach, we have imaged cellular structures with nanometer-scale resolution. In this talk, I will discuss the general concept, recent technical advances, and various biological applications of STORM.

  15. Progress report, Biology and Health Physics Division, April 1 to June 30, 1978

    International Nuclear Information System (INIS)

    The effects of neutrons reflected by the body of a wearer of a neutron threshold activation detector have been determined experimentally. Agreement with the previously calculated effect was good. Calculations and experiments are in progress on the response of organic scintillators to fast neutron and gamma radiation. Other work in health physics included examination of the feasibility of using water-permeable membranes to separate HTO from HT and design of instrumentation for measuring discharge of radio-xenons from a Mo-99 production plant. A variety of environmental research programs included studies dealing with the effects of thermal stress on food-chain organisms in fresh water and mobility of arsenic in sand columns. Computer studies on linked health records will be phased out at Chalk River Nuclear Laboratories. Similar work will be performed at Statistics Canada, the University of British Columbia, and in Hawaii under its cancer register. Work in biology has continued to focus upon the effects of radiation on a variety of organisms, ranging from bacterial viruses to humans. The principal target for long-term biological effects of radiation on all living organisms is DNA. The chemical nature of damage caused in DNA by radiation and the response of cells to this damage is being studied by a variety of biochemical and genetic techniques. Studies on cultured skin cells from various humans have shown interesting characteristics associated with different rare hereditary diseases. It has now been shown that repair-deficient ataxia telangiectasia (AT) cells are surprisingly different from repair-proficient AT cells in their reponse to ultraviolet light at 313 nm. (OST)

  16. Physical Methods for Seed Invigoration: Advantages and Challenges in Seed Technology.

    Science.gov (United States)

    Araújo, Susana de Sousa; Paparella, Stefania; Dondi, Daniele; Bentivoglio, Antonio; Carbonera, Daniela; Balestrazzi, Alma

    2016-01-01

    In the context of seed technology, the use of physical methods for increasing plant production offers advantages over conventional treatments based on chemical substances. The effects of physical invigoration treatments in seeds can be now addressed at multiple levels, ranging from morpho-structural aspects to changes in gene expression and protein or metabolite accumulation. Among the physical methods available, "magneto-priming" and irradiation with microwaves (MWs) or ionizing radiations (IRs) are the most promising pre-sowing seed treatments. "Magneto-priming" is based on the application of magnetic fields and described as an eco-friendly, cheap, non-invasive technique with proved beneficial effects on seed germination, vigor and crop yield. IRs, as γ-rays and X-rays, have been widely regarded as a powerful tool in agricultural sciences and food technology. Gamma-rays delivered at low dose have showed to enhance germination percentage and seedling establishment, acting as an actual 'priming' treatment. Different biological effects have been observed in seeds subjected to MWs and X-rays but knowledge about their impact as seed invigoration agent or stimulatory effects on germination need to be further extended. Ultraviolet (UV) radiations, namely UV-A and UV-C have shown to stimulate positive impacts on seed health, germination, and seedling vigor. For all mentioned physical treatments, extensive fundamental and applied research is still needed to define the optimal dose, exposition time, genotype- and environment-dependent irradiation conditions. Electron paramagnetic resonance has an enormous potential in seed technology not fully explored to monitor seed invigoration treatments and/or identifying the best suitable irradiation dose or time-point to stop the treatment. The present manuscript describes the use of physical methods for seed invigoration, while providing a critical discussion on the constraints and advantages. The future perspectives related to

  17. Physical methods for seed vigourization: advantages and challenges in seed technology

    Directory of Open Access Journals (Sweden)

    Susana eAraújo

    2016-05-01

    Full Text Available In the context of seed technology, the use of physical methods for increasing plant production offers advantages over conventional treatments based on chemical substances. The effects of physical vigourization treatments in seeds can be now addressed at multiple levels, ranging from morpho-structural aspects to changes in gene expression and protein or metabolite accumulation. Among the physical methods available, magneto-priming and irradiation with microwaves or ionizing radiations are the most promissory pre-sowing seed treatments. Magneto-priming is based on the application of magnetic fields and described as an eco-friendly, cheap, non-invasive technique with proved beneficial effects on seed germination, vigour and crop yield. Ionizing radiations, as gamma-rays and X-rays, have been widely regarded as a powerful tool in agricultural sciences and food technology. Gamma-rays delivered at low dose have showed to enhance germination percentage and seedling establishment, acting as an actual ‘priming’ treatment. Different biological effects have been observed in seeds subjected to microwaves and X-rays but knowledge about their impact as seed vigourization agent or stimulatory effects on germination need to be further extended. Ultraviolet (UV radiations, namely UV-A and UV-C have shown to stimulate positive impacts on seed health, germination and seedling vigour. For all mentioned physical treatments, extensive fundamental and applied research is still needed to define the optimal dose, exposition time, genotype- and environment-dependent irradiation conditions. Electron paramagnetic resonance (EPR has an enormous potential in seed technology not fully explored to monitor seed vigourization treatments and/or identifying the best suitable irradiation dose or time-point to stop the treatment. The present manuscript describes the use of physical methods for seed vigourization, while providing a critical discussion on the constraints and

  18. Evolution of physical and biological characteristics of mesoscale eddy in north-central Red Sea

    KAUST Repository

    Zarokanellos, Nikolaos

    2015-04-01

    Eddies appear to be important to both the physical and biogeochemical dynamics of the Red Sea. Numerical simulations of physical dynamics and remote sensing studies of chlorophyll concentration and sea surface height in the Red Sea indicate their importance to the upper portions of the sea (Raitsos et al., 2013; Yao et al., 2014; Zhan et al., 2014). Despite their apparent importance, process studies of these eddies have been lacking. In March 2013 we began an extended observational study of the north-central Red Sea (NCRS) where anticyclonic eddies have been observed. The study began with a ship-based characterization of the eddy and was followed by a three-month observational time series using an autonomous glider equipped with a CTD, oxygen sensor, and optical sensors for chlorophyll, CDOM and optical backscatter. The ship-based study captured an initial snapshot of an anticyclonic eddy and it\\'s associated biological and bio-optical distributions. Initially, chlorophyll distributions tended to mirror the density distribution, with deeper isopycnals and chlorophyll maximum depth in the anticyclonic eddy center. The anticyclone eddy in March had an along basin diameter of 150 km, penetrated vertically less than 150 m and elevated near surface chlorophyll concentrations appeared along its outer boundary. The shallowing of the pycnocline of the outer boundaries of the anticyclone eddy on March may elevate nutrients into the lower euphotic zone, contributing to phytoplankton productivity and biomass within the eddy. This eddy contains most of the kinetic energy of the region with the maximum velocities up to 30 - 35 cm/s. The eddy appeared to interact with the coastal reefs where exchange particulate and dissolved matter may occur. The autonomous glider provided the spring-to-summer progression of the system with increasing stratification, shallowing of the subsurface chlorophyll maximum, and fluctuations in the position and intensity of the eddy. Our glider effort

  19. Biologic

    CERN Document Server

    Kauffman, L H

    2002-01-01

    In this paper we explore the boundary between biology and the study of formal systems (logic). In the end, we arrive at a summary formalism, a chapter in "boundary mathematics" where there are not only containers but also extainers ><, entities open to interaction and distinguishing the space that they are not. The boundary algebra of containers and extainers is to biologic what boolean algebra is to classical logic. We show how this formalism encompasses significant parts of the logic of DNA replication, the Dirac formalism for quantum mechanics, formalisms for protein folding and the basic structure of the Temperley Lieb algebra at the foundations of topological invariants of knots and links.

  20. Implementation of statistical analysis methods for medical physics data; Implementacao de metodos de analise estatistica para dados de fisica medica

    Energy Technology Data Exchange (ETDEWEB)

    Teixeira, Marilia S.; Pinto, Nivia G.P.; Barroso, Regina C.; Oliveira, Luis F., E-mail: mariliasilvat@gmail.co, E-mail: lfolive@oi.com.b, E-mail: cely_barroso@hotmail.co, E-mail: nitatag@gmail.co [Universidade do Estado do Rio de Janeiro (UERJ), Rio de Janeiro, RJ (Brazil). Inst. de Fisica

    2009-07-01

    The objective of biomedical research with different radiation natures is to contribute for the understanding of the basic physics and biochemistry of the biological systems, the disease diagnostic and the development of the therapeutic techniques. The main benefits are: the cure of tumors through the therapy, the anticipated detection of diseases through the diagnostic, the using as prophylactic mean for blood transfusion, etc. Therefore, for the better understanding of the biological interactions occurring after exposure to radiation, it is necessary for the optimization of therapeutic procedures and strategies for reduction of radioinduced effects. The group pf applied physics of the Physics Institute of UERJ have been working in the characterization of biological samples (human tissues, teeth, saliva, soil, plants, sediments, air, water, organic matrixes, ceramics, fossil material, among others) using X-rays diffraction and X-ray fluorescence. The application of these techniques for measurement, analysis and interpretation of the biological tissues characteristics are experimenting considerable interest in the Medical and Environmental Physics. All quantitative data analysis must be initiated with descriptive statistic calculation (means and standard deviations) in order to obtain a previous notion on what the analysis will reveal. It is well known que o high values of standard deviation found in experimental measurements of biologicals samples can be attributed to biological factors, due to the specific characteristics of each individual (age, gender, environment, alimentary habits, etc). This work has the main objective the development of a program for the use of specific statistic methods for the optimization of experimental data an analysis. The specialized programs for this analysis are proprietary, another objective of this work is the implementation of a code which is free and can be shared by the other research groups. As the program developed since the

  1. Application of Innovative Methods to Optimize the Learning Process in Physics for Medical Students

    Science.gov (United States)

    Zlateva, Genoveva; Tsankova, Emilya

    2010-01-01

    Unlike chemistry and biology courses in the high schools which occupy the attention and interest of students as they need to achieve maximum results of examinations for admission in higher medical schools, physics remains away from their interest. Striving for awakening the interest of medical students to classes in physics and diversification of the learning process requires the continuous search of new forms of organization of this process in order to fulfill the main task of education: optimal development of each student, creating conditions for creative work with the highest possible productivity. Using innovations in teaching physics, aimed at the purpose of training in non-traditional way, transforms the passive learning in an active creative process. This allows rapid identification and compensation of gaps in the knowledge, which in turn leads to a rationalization and a more complete and lasting control of educational content. The aim of the study is analysis and evaluation of the effectiveness of the implementation of innovative educational methods to increase motivation and the quality of teaching physics to students of medicine. The discussion is based on the opinions expressed in surveys of students and results of various forms of feedback.

  2. A magnetic method to concentrate and trap biological targets

    KAUST Repository

    Li, Fuquan

    2012-11-01

    Magnetoresistive sensors in combination with magnetic particles have been used in biological applications due to, e.g., their small size and high sensitivity. A growing interest is to integrate magnetoresistive sensors with microchannels and electronics to fabricate devices that can perform complex analyses. A major task in such systems is to immobilize magnetic particles on top of the sensor surface, which is required to detect the particles\\' stray field. In the presented work, a bead concentrator, consisting of gold microstructures, at the bottom of a microchannel, is used to attract and move magnetic particles into a trap. The trap is made of a chamber with a gold microstructure underneath and is used to attract and immobilize a defined number of magnetic beads. In order to detect targets, two kinds of solutions were prepared; one containing only superparamagnetic particles, the other one containing beads with the protein Bovine serum albumin as the target and fluorescent markers. Due to the size difference between bare beads and beads with target, less magnetic beads were immobilized inside the volume chamber in case of magnetic beads with target as compared to bare magnetic beads. © 1965-2012 IEEE.

  3. RT-PCR Protocols - Methods in Molecular Biology

    Directory of Open Access Journals (Sweden)

    Manuela Monti

    2011-03-01

    Full Text Available “The first record I have of it, is when I made a computer file which I usually did whenever I had an idea, that would have been on the Monday when I got back, and I called it Chain Reaction.POL, meaning polymerase. That was the identifier for it and later I called the thing the Polymerase Chain Reaction, which a lot of people thought was a dumb name for it, but it stuck, and it became PCR”. With these words the Nobel prize winner, Kary Mullis, explains how he named the PCR: one of the most important techniques ever invented and currently used in molecular biology. This book “RT-PCR Protocols” covers a wide range of aspects important for the setting of a PCR experiment for both beginners and advanced users. In my opinion the book is very well structured in three different sections. The first one describes the different technologies now available, like competitive RT-PCR, nested RT-PCR or RT-PCR for cloning. An important part regards the usage of PCR in single cell mouse embryos, stressing how important...........

  4. WE-E-17A-07: Patient-Specific Mathematical Neuro-Oncology: Biologically-Informed Radiation Therapy and Imaging Physics

    Energy Technology Data Exchange (ETDEWEB)

    Swanson, K; Corwin, D [Northwestern University, Chicago, IL (United States); Rockne, R

    2014-06-15

    Purpose: To demonstrate a method of generating patient-specific, biologically-guided radiation therapy (RT) plans and to quantify and predict response to RT in glioblastoma. We investigate the biological correlates and imaging physics driving T2-MRI based response to radiation therapy using an MRI simulator. Methods: We have integrated a patient-specific biomathematical model of glioblastoma proliferation, invasion and radiotherapy with a multiobjective evolutionary algorithm for intensity-modulated RT optimization to construct individualized, biologically-guided plans. Patient-individualized simulations of the standard-of-care and optimized plans are compared in terms of several biological metrics quantified on MRI. An extension of the PI model is used to investigate the role of angiogenesis and its correlates in glioma response to therapy with the Proliferation-Invasion-Hypoxia- Necrosis-Angiogenesis model (PIHNA). The PIHNA model is used with a brain tissue phantom to predict tumor-induced vasogenic edema, tumor and tissue density that is used in a multi-compartmental MRI signal equation for generation of simulated T2- weighted MRIs. Results: Applying a novel metric of treatment response (Days Gained) to the patient-individualized simulation results predicted that the optimized RT plans would have a significant impact on delaying tumor progression, with Days Gained increases from 21% to 105%. For the T2- MRI simulations, initial validation tests compared average simulated T2 values for white matter, tumor, and peripheral edema to values cited in the literature. Simulated results closely match the characteristic T2 value for each tissue. Conclusion: Patient-individualized simulations using the combination of a biomathematical model with an optimization algorithm for RT generated biologically-guided doses that decreased normal tissue dose and increased therapeutic ratio with the potential to improve survival outcomes for treatment of glioblastoma. Simulated T2-MRI

  5. Climate change and physical disturbance manipulations result in distinct biological soil crust communities.

    Science.gov (United States)

    Steven, Blaire; Kuske, Cheryl R; Gallegos-Graves, La Verne; Reed, Sasha C; Belnap, Jayne

    2015-11-01

    Biological soil crusts (biocrusts) colonize plant interspaces in many drylands and are critical to soil nutrient cycling. Multiple climate change and land use factors have been shown to detrimentally impact biocrusts on a macroscopic (i.e., visual) scale. However, the impact of these perturbations on the bacterial components of the biocrusts remains poorly understood. We employed multiple long-term field experiments to assess the impacts of chronic physical (foot trampling) and climatic changes (2°C soil warming, altered summer precipitation [wetting], and combined warming and wetting) on biocrust bacterial biomass, composition, and metabolic profile. The biocrust bacterial communities adopted distinct states based on the mechanism of disturbance. Chronic trampling decreased biomass and caused small community compositional changes. Soil warming had little effect on biocrust biomass or composition, while wetting resulted in an increase in the cyanobacterial biomass and altered bacterial composition. Warming combined with wetting dramatically altered bacterial composition and decreased Cyanobacteria abundance. Shotgun metagenomic sequencing identified four functional gene categories that differed in relative abundance among the manipulations, suggesting that climate and land use changes affected soil bacterial functional potential. This study illustrates that different types of biocrust disturbance damage biocrusts in macroscopically similar ways, but they differentially impact the resident soil bacterial communities, and the communities' functional profiles can differ depending on the disturbance type. Therefore, the nature of the perturbation and the microbial response are important considerations for management and restoration of drylands.

  6. Biological and physical contributions to the accumulation of strombid gastropods in a Pliocene shell bed

    Energy Technology Data Exchange (ETDEWEB)

    Geary, D.H. (Univ. of Wisconsin, Madison (USA)); Allmon, W.D. (Univ. of South Florida, Tampa (USA))

    1990-06-01

    Before the evolutionary and ecological information contained in shell beds can be interpreted, the conditions of shell bed formation must be understood. Here the authors investigate the mode and time scale of accumulation of a dense layer of Strombus floridanus in the Pliocene Pinecrest Beds of Florida. They utilize a variety of comparative taphonomic data, including the extent of encrustation and boring on strombid shells of different ontogenetic ages, and on accompanying pelecypods of different ecological types. The taphonomic comparisons enable them to reconstruct more accurately the events of shell bed formation. The formation of the strombid shell layer involved both biological and physical components. The characteristically gregarious behavior of Strombus is reflected in the large number of individuals preserved in this layer. Based on average densities of individuals in strombid colonies today, the authors estimate that a time period of tens to hundreds of years was required to accumulate these fossils. Repeated sediment winnowing by storms, followed by rapid reburial in a regime of at least episodically high sedimentation rates, is the most likely mechanism of accumulation, and accounts for the observed patterns of encrustation and boring on the shells of Strombus and various associated pelecypods. The origin of Florida's Plio-Pleistocene shelly sands is poorly understood; analysis of this bed may provide a working model for future taphonomic studies.

  7. Biological and physical induced oxygen dynamics in melting sea ice of the Fram Strait

    DEFF Research Database (Denmark)

    Glud, Ronnie; Rysgaard, Søren; Turner, Gavin;

    2014-01-01

    We investigated the production, consumption, and exchange of O2 in melting sea ice to assess the biological- and physical-induced O2 turnover. The underside of the ice was covered with 5–20 cm3 large, buoyant algal aggregates. Their gross primary production amounted to 0.49 mmol C m−2 d−1, which...... that the aggregates were formed from agglutinated algae released from the melting ice. At the prevailing light conditions, the sea ice–encrusted communities were almost at metabolic balance, while the aggregates were net heterotrophic. Together, the two communities were responsible for an overall O2 consumption of 0.......32 mmol m−2 d−1. The sea ice–associated communities thereby represent a southward-drifting carbon source that is being exhausted by sea ice–affiliated food webs. The sea ice volume decreased rapidly, releasing meltwater at a rate 25 L m−2 d−1, but no surface melt ponds were formed. Aquatic eddy...

  8. Scales and scaling in turbulent ocean sciences; physics-biology coupling

    Science.gov (United States)

    Schmitt, Francois

    2015-04-01

    Geophysical fields possess huge fluctuations over many spatial and temporal scales. In the ocean, such property at smaller scales is closely linked to marine turbulence. The velocity field is varying from large scales to the Kolmogorov scale (mm) and scalar fields from large scales to the Batchelor scale, which is often much smaller. As a consequence, it is not always simple to determine at which scale a process should be considered. The scale question is hence fundamental in marine sciences, especially when dealing with physics-biology coupling. For example, marine dynamical models have typically a grid size of hundred meters or more, which is more than 105 times larger than the smallest turbulence scales (Kolmogorov scale). Such scale is fine for the dynamics of a whale (around 100 m) but for a fish larvae (1 cm) or a copepod (1 mm) a description at smaller scales is needed, due to the nonlinear nature of turbulence. The same is verified also for biogeochemical fields such as passive and actives tracers (oxygen, fluorescence, nutrients, pH, turbidity, temperature, salinity...) In this framework, we will discuss the scale problem in turbulence modeling in the ocean, and the relation of Kolmogorov's and Batchelor's scales of turbulence in the ocean, with the size of marine animals. We will also consider scaling laws for organism-particle Reynolds numbers (from whales to bacteria), and possible scaling laws for organism's accelerations.

  9. Physical Activity and Gastrointestinal Cancers: Primary and Tertiary Preventive Effects and Possible Biological Mechanisms

    Directory of Open Access Journals (Sweden)

    Karen Steindorf

    2015-07-01

    Full Text Available Gastrointestinal cancers account for 37% of all cancer deaths worldwide, underlining the need to further investigate modifiable factors for gastrointestinal cancer risk and prognosis. This review summarizes the corresponding evidence for physical activity (PA, including, briefly, possible biological mechanisms. Despite high public health relevance, there is still a scarcity of studies, especially for tertiary prevention. Besides the convincing evidence of beneficial effects of PA on colon cancer risk, clear risk reduction for gastroesophageal cancer was identified, as well as weak indications for pancreatic cancer. Inverse associations were observed for liver cancer, yet based on few studies. Only for rectal cancer, PA appeared to be not associated with cancer risk. With regard to cancer-specific mortality of the general population, published data were rare but indicated suggestive evidence of protective effects for colon and liver cancer, and to a lesser extent for rectal and gastroesophageal cancer. Studies in cancer patients on cancer-specific and total mortality were published for colorectal cancer only, providing good evidence of inverse associations with post-diagnosis PA. Overall, evidence of associations of PA with gastrointestinal cancer risk and progression is promising but still limited. However, the already available knowledge further underlines the importance of PA to combat cancer.

  10. Physical and biological characteristics of the main biomaterials used in pelvic surgery.

    Science.gov (United States)

    Brun, J L; Bordenave, L; Lefebvre, F; Bareille, R; Barbié, C; Rouais, F; Baquey, C H

    1992-01-01

    Our study compared mechanical and biological properties of four materials classically used in surgery: polyethylene terephtalate (Mersilene), polypropylene (Marlex), polytetrafluoroethylene (Teflon) and expanded one (Gore-Tex) and polyaramide (Kevlar). No deterioration for polytetrafluoroethylene and polypropylene under irradiation was observed when materials were treated by physical means. Mechanical tests showed that all these materials could bear more than 50 N. Such a high tensile strength is never reached in visceral physiology. Results of graft elongation during tensile strength test shows two classes: a first one that includes high elongation grafts (Gore-Tex and Marlex) and a second one that includes low elongation grafts (Mersilene and Kevlar). As these materials have many potential uses in surgery, we have performed cytotoxicity tests. Material extracts were obtained under standardized conditions, and we have looked at a potentially toxic effect of substances eventually leached from the materials towards cells cultured in vitro. None of the material extracts listed above were cytotoxic except for untreated Kevlar. Toxicity disappeared when Kevlar was treated with methanol. As suspected, untreated Kevlar contains toxic additives introduced during the manufacture of this textile. Thus, in spite of good mechanical properties, Kevlar should not be used in pelvic surgery on account of its lower bicompatibility. These results shows that the choice of the grafts by surgeons must be relevant in a given application. PMID:1483122

  11. How Plankton Swim: An Interdisciplinary Approach for Using Mathematics & Physics to Understand the Biology of the Natural World

    Science.gov (United States)

    Clay, Tansy W.; Fox, Jennifer B.; Grunbaum, Daniel; Jumars, Peter A.

    2008-01-01

    The authors have developed and field-tested high school-level curricular materials that guide students to use biology, mathematics, and physics to understand plankton and how these tiny organisms move in a world where their intuition does not apply. The authors chose plankton as the focus of their materials primarily because the challenges faced…

  12. A Study of Motivation and Other Factors as Relating to Course Achievement in Introductory College Biology, Chemistry, and Physics.

    Science.gov (United States)

    Pridmore, Brooke M.; Halyard, Rebecca A.

    Results of a preliminary study that examined various factors relating to achievement in introductory level biology, chemistry, and physics classes at a public junior college are presented. Background variables, including age, sex, college major, grade point average, SAT-Verbal and SAT-Quantitative, and the sixteen-part scores of Academic…

  13. Current developments using emerging transdermal technologies in physical enhancement methods.

    Science.gov (United States)

    Nanda, A; Nanda, S; Ghilzai, N M Khan

    2006-07-01

    Transdermal drug delivery using patches offers many advantages, but is limited primarily by the stratum corneum barrier. Amongst the various methods to overcome this barrier, physical methods are gaining in popularity and commercial devices development. Macroflux, MTS and Silex are based on microporation, involving use of microneedles that pierce thereby bypassing the stratum corneum. Intraject , Powderject and Helios are based on needleless jet injectors wherein very fine, solid particulate drug, is fired directly into the skin, using high-pressure gas. Med- Tats incorporate use of modified drug-containing tattoos, which bind to the skin, wherein the drug is absorbed. CHADD is based on use of heat, which increases skin - permeation of drugs. High-power, pulsed lasers transmit positive mechanical forces to the skin and create intercellular channels into the skin transiently. Sonophoresis involves use of ultrasound, which transiently disrupts the stratum corneum barrier. This technique offers a non-invasive transdermal extraction of interstitial fluids of sampling body fluids. Modified Liposomes include Ethosomes (containing alcohol) and Transferosomes (containing surfactants), which have enhanced skin permeability. Pulsed magnetic fields may create transient pores in cell membranes, including skin, resulting in increased permeation. Iontophoresis is based on application of electric potential for enhancing the movement of substances to and from the body. Dupel, Ionzyme, Liposite, ETrans, Phoresor and Drionic are based on iontophoresis. GlucoWatch offers non-invasive blood glucose monitoring, based on reverse iontophoresis. This review outlines recent commercial developments in physical transdermal drug delivery technology and the specific devices and applications being targeted by the pharmaceutical industry. PMID:16848725

  14. Sensitivity and Uncertainty Analysis of Coupled Reactor Physics Problems: Method Development for Multi-Physics in Reactors

    NARCIS (Netherlands)

    Perkó, Z.

    2015-01-01

    This thesis presents novel adjoint and spectral methods for the sensitivity and uncertainty (S&U) analysis of multi-physics problems encountered in the field of reactor physics. The first part focuses on the steady state of reactors and extends the adjoint sensitivity analysis methods well establish

  15. Signal processing for molecular and cellular biological physics: an emerging field

    Science.gov (United States)

    Little, Max A.; Jones, Nick S.

    2013-01-01

    Recent advances in our ability to watch the molecular and cellular processes of life in action—such as atomic force microscopy, optical tweezers and Forster fluorescence resonance energy transfer—raise challenges for digital signal processing (DSP) of the resulting experimental data. This article explores the unique properties of such biophysical time series that set them apart from other signals, such as the prevalence of abrupt jumps and steps, multi-modal distributions and autocorrelated noise. It exposes the problems with classical linear DSP algorithms applied to this kind of data, and describes new nonlinear and non-Gaussian algorithms that are able to extract information that is of direct relevance to biological physicists. It is argued that these new methods applied in this context typify the nascent field of biophysical DSP. Practical experimental examples are supplied. PMID:23277603

  16. ELECTRO PHYSICAL METHODS AND DEVICES OF ELECTRO TECHNOLOGICAL FARM COMPLEX IN THE KUBAN REGION

    Directory of Open Access Journals (Sweden)

    Kurzin N. N.

    2015-10-01

    Full Text Available The absence of theoretical bases for interaction of the magnetic field and cellular mechanism, the lack of an effective way to determining the results of this action has led to the creation of a large number of machines and devices of electromagnetic influence on biological objects of vegetable and animal origin. Many of them are contain special generators and inductors developed for a specific type of object. By means of these constructions, used in electro technological processes at agricultural companies of the Kuban region, we increase productivity of different crops, increase productivity of animals and poultry, change the physical and chemical properties of liquids and solutions, conducted in boiler water preparation. A distinctive feature of the electromagnetic field processing of objects of biological origin is sufficiently high efficiency of outcomes at insignificant energy costs. All this foreshadows further improve the long-term development and research in this area. By analyzing the existing devices, it can be concluded, that all of presently available designs for electromagnetic treatment are classified by a common attribute - a method for creating a magnetic field. The lack of reliable, logically complete theory of influence of electromagnetic influence on biological systems agricultural purpose and the availability of practical recommendations when to use inductors working on constant, and when the AC has led to the fact that to obtain the necessary effect, share the same devices have become connected to various sources of supply

  17. High throughput instruments, methods, and informatics for systems biology.

    Energy Technology Data Exchange (ETDEWEB)

    Sinclair, Michael B.; Cowie, Jim R. (New Mexico State University, Las Cruces, NM); Van Benthem, Mark Hilary; Wylie, Brian Neil; Davidson, George S.; Haaland, David Michael; Timlin, Jerilyn Ann; Aragon, Anthony D. (University of New Mexico, Albuquerque, NM); Keenan, Michael Robert; Boyack, Kevin W.; Thomas, Edward Victor; Werner-Washburne, Margaret C. (University of New Mexico, Albuquerque, NM); Mosquera-Caro, Monica P. (University of New Mexico, Albuquerque, NM); Martinez, M. Juanita (University of New Mexico, Albuquerque, NM); Martin, Shawn Bryan; Willman, Cheryl L. (University of New Mexico, Albuquerque, NM)

    2003-12-01

    High throughput instruments and analysis techniques are required in order to make good use of the genomic sequences that have recently become available for many species, including humans. These instruments and methods must work with tens of thousands of genes simultaneously, and must be able to identify the small subsets of those genes that are implicated in the observed phenotypes, or, for instance, in responses to therapies. Microarrays represent one such high throughput method, which continue to find increasingly broad application. This project has improved microarray technology in several important areas. First, we developed the hyperspectral scanner, which has discovered and diagnosed numerous flaws in techniques broadly employed by microarray researchers. Second, we used a series of statistically designed experiments to identify and correct errors in our microarray data to dramatically improve the accuracy, precision, and repeatability of the microarray gene expression data. Third, our research developed new informatics techniques to identify genes with significantly different expression levels. Finally, natural language processing techniques were applied to improve our ability to make use of online literature annotating the important genes. In combination, this research has improved the reliability and precision of laboratory methods and instruments, while also enabling substantially faster analysis and discovery.

  18. Test Methods for Evaluating Solid Waste, Physical/Chemical Methods. First Update. (3rd edition)

    International Nuclear Information System (INIS)

    The proposed Update is for Test Methods for Evaluating Solid Waste, Physical/Chemical Methods, SW-846, Third Edition. Attached to the report is a list of methods included in the proposed update indicating whether the method is a new method, a partially revised method, or a totally revised method. Do not discard or replace any of the current pages in the SW-846 manual until the proposed update I package is promulgated. Until promulgation of the update package, the methods in the update package are not officially part of the SW-846 manual and thus do not carry the status of EPA-approved methods. In addition to the proposed Update, six finalized methods are included for immediate inclusion into the Third Edition of SW-846. Four methods, originally proposed October 1, 1984, will be finalized in a soon to be released rulemaking. They are, however, being submitted to subscribers for the first time in the update. These methods are 7211, 7381, 7461, and 7951. Two other methods were finalized in the 2nd Edition of SW-846. They were inadvertantly omitted from the 3rd Edition and are not being proposed as new. These methods are 7081 and 7761

  19. Top Quark Physics at the ILC: Methods and Meanings

    OpenAIRE

    Sullivan, Zack

    2009-01-01

    The physics case for studying top-quark physics at the International Linear Collider is well established. This summary places in context the top-quark physics goals, examines the current state-of-the art in understanding of the top-quark mass, and identifies some areas in which the study of the top-quark mass enhances our understanding of new techniques.

  20. Glutarimides: Biological activity, general synthetic methods and physicochemical properties

    Directory of Open Access Journals (Sweden)

    Popović-Đorđević Jelena B.

    2015-01-01

    Full Text Available Glutarimides, 2,6-dioxopiperidines are compounds that rarely occur in natural sources, but so far isolated ones exert widespread pharmacological activities, which makes them valuable as potential pharmacotherapeutics. Glutarimides act as androgen receptor antagonists, anti-inflammatory, anxiolytics, antibacterials, and tumor suppressing agents. Some synthetic glutarimide derivatives are already in use as immunosuppressive and sedative (e.g., thalidomide or anxiolytics (buspirone drugs. The wide applicability of this class of compounds, justify the interest of scientists to explore new pathways for its syntheses. General methods for synthesis of six-membered imide ring, are presented in this paper. These methods include: a reaction of dicarboxylic acids with ammonia or primary amine, b reactions of cyclization: amido-acids, diamides, dinitriles, nitrilo-acids, amido-nitriles, amido-esters, amidoacyl-chlorides or diacyl-chlorides, c adition of carbon-monoxide on a,b-unsaturated amides, d oxidation reactions, e Michael adition of active methylen compounds on methacrylamide or conjugated amides. Some of the described methods are used for closing glutarimide ring in syntheses of farmacological active compounds sesbanimide and aldose reductase inhibitors (ARI. Analyses of the geometry, as well as, the spectroscopic analyses (NMR and FT-IR of some glutarimides are presented because of their broad spectrum of pharmacological activity. To elucidate structures of glutarimides, geometrical parameters of newly synthesized tert-pentyl-1-benzyl-4-methyl-glutarimide-3-carboxylate (PBMG are analyzed and compared with the experimental data from X-ray analysis for glutarimide. Moreover, molecular electrostatic potential (MEP surface which is plotted over the optimized geometry to elucidate the reactivity of PBMG molecule is analyzed. The electronic properties of glutarimide derivatives are explained on the example of thalidomide. The Frontier Molecular Orbital

  1. Thermodynamics, Gibbs Method and Statistical Physics of Electron Gases Gibbs Method and Statistical Physics of Electron Gases

    CERN Document Server

    Askerov, Bahram M

    2010-01-01

    This book deals with theoretical thermodynamics and the statistical physics of electron and particle gases. While treating the laws of thermodynamics from both classical and quantum theoretical viewpoints, it posits that the basis of the statistical theory of macroscopic properties of a system is the microcanonical distribution of isolated systems, from which all canonical distributions stem. To calculate the free energy, the Gibbs method is applied to ideal and non-ideal gases, and also to a crystalline solid. Considerable attention is paid to the Fermi-Dirac and Bose-Einstein quantum statistics and its application to different quantum gases, and electron gas in both metals and semiconductors is considered in a nonequilibrium state. A separate chapter treats the statistical theory of thermodynamic properties of an electron gas in a quantizing magnetic field.

  2. Biological effects and physics of solar and galactic cosmic radiation, Part B; Proceedings of a NATO Advanced Study Institute on Biological Effects and Physics of Solar and Galactic Cosmic Radiation, Algarve, Portugal, Oct. 13-23, 1991

    Science.gov (United States)

    Swenberg, Charles E. (Editor); Horneck, Gerda (Editor); Stassinopoulos, E. G. (Editor)

    1993-01-01

    Since there is an increasing interest in establishing lunar bases and exploring Mars by manned missions, it is important to develop appropriate risk estimates and radiation protection guidelines. The biological effects and physics of solar and galactic cosmic radiation are examined with respect to the following: the radiation environment of interplanetary space, the biological responses to radiation in space, and the risk estimates for deep space missions. There is a need for a long-term program where ground-based studies can be augmented by flight experiments and an international standardization with respect to data collection, protocol comparison, and formulation of guidelines for future missions.

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

    OpenAIRE

    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 de...

  4. Tree species traits influence soil physical, chemical, and biological properties in high elevation forests.

    Directory of Open Access Journals (Sweden)

    Edward Ayres

    Full Text Available BACKGROUND: Previous studies have shown that plants often have species-specific effects on soil properties. In high elevation forests in the Southern Rocky Mountains, North America, areas that are dominated by a single tree species are often adjacent to areas dominated by another tree species. Here, we assessed soil properties beneath adjacent stands of trembling aspen, lodgepole pine, and Engelmann spruce, which are dominant tree species in this region and are distributed widely in North America. We hypothesized that soil properties would differ among stands dominated by different tree species and expected that aspen stands would have higher soil temperatures due to their open structure, which, combined with higher quality litter, would result in increased soil respiration rates, nitrogen availability, and microbial biomass, and differences in soil faunal community composition. METHODOLOGY/PRINCIPAL FINDINGS: We assessed soil physical, chemical, and biological properties at four sites where stands of aspen, pine, and spruce occurred in close proximity to one-another in the San Juan Mountains, Colorado. Leaf litter quality differed among the tree species, with the highest nitrogen (N concentration and lowest lignin:N in aspen litter. Nitrogen concentration was similar in pine and spruce litter, but lignin:N was highest in pine litter. Soil temperature and moisture were highest in aspen stands, which, in combination with higher litter quality, probably contributed to faster soil respiration rates from stands of aspen. Soil carbon and N content, ammonium concentration, and microbial biomass did not differ among tree species, but nitrate concentration was highest in aspen soil and lowest in spruce soil. In addition, soil fungal, bacterial, and nematode community composition and rotifer, collembolan, and mesostigmatid mite abundance differed among the tree species, while the total abundance of nematodes, tardigrades, oribatid mites, and prostigmatid

  5. An evaluation of teaching methods in the introductory physics classroom

    Science.gov (United States)

    Savage, Lauren Michelle Williams

    The introductory physics mechanics course at the University of North Carolina at Charlotte has a history of relatively high DFW rates. In 2011, the course was redesigned from the traditional lecture format to the inverted classroom format (flipped). This format inverts the classroom by introducing material in a video assigned as homework while the instructor conducts problem solving activities and guides discussions during the regular meetings. This format focuses on student-centered learning and is more interactive and engaging. To evaluate the effectiveness of the new method, final exam data over the past 10 years was mined and the pass rates examined. A normalization condition was developed to evaluate semesters equally. The two teaching methods were compared using a grade distribution across multiple semesters. Students in the inverted class outperformed those in the traditional class: "A"s increased by 22% and "B"s increased by 38%. The final exam pass rate increased by 12% under the inverted classroom approach. The same analysis was used to compare the written and online final exam formats. Surprisingly, no students scored "A"s on the online final. However, the percent of "B"s increased by 136%. Combining documented best practices from a literature review with personal observations of student performance and attitudes from first hand classroom experience as a teaching assistant in both teaching methods, reasons are given to support the continued use of the inverted classroom approach as well as the online final. Finally, specific recommendations are given to improve the course structure where weaknesses have been identified.

  6. Biological and physical processes in and around Astoria submarine Canyon, Oregon, USA

    Science.gov (United States)

    Bosley, Keith L.; Lavelle, J. William; Brodeur, Richard D.; Wakefield, W. Waldo; Emmett, Robert L.; Baker, Edward T.; Rehmke, Kara M.

    2004-09-01

    Astoria Canyon represents the westernmost portion of the Columbia River drainage system, with the head of the canyon beginning just 16 km west of the mouth of the Columbia River along the northern Oregon and southern Washington coasts. During the summer of 2001, physical, chemical, and biological measurements in the canyon were taken to better understand the hydrodynamic setting of, and the feeding relationships among, the pelagic and benthic communities. Results show that currents were strongly tidal, and transport, where measured, was primarily up and into the canyon below shelf depth as previous studies in the canyon have shown. Temperature time series suggests that the largest diurnal oscillations occurred at, or were trapped near, the bottom of the canyon. Within the upper canyon, subtidal temperature was correlated with upper-level shelf-edge currents, linking subtidal upwelling events in the canyon with near-surface subtidal along-shore flow. Invertebrates, such as shrimp, euphausiids, and squid, as well as mesopelagic fishes, dominated the Isaacs-Kidd midwater trawl catches along the canyon walls. Large trawl catches were comprised mainly of hake and rockfishes (shallow trawls) and macrourids, scorpaenids, stomiids, and zoarcids (bottom trawls). Gut-content analysis of rockfishes and lanternfishes revealed substantial use of midwater prey such as euphausiids and mesopelagic fishes. The δ13C values of fishes and invertebrates reflected local primary production, as indicated by particulate organic matter (POM) δ13C values from samples collected at various depths along the axis of the canyon, as well as across the canyon at several sites. The δ15N values of fishes and invertebrates indicated lanternfishes, along with euphausiids, amphipods, shrimp and squid, may be important dietary components of higher-trophic-level fishes in both the benthic and benthopelagic food webs. The δ13C and δ15N values of Sebastes species showed significant enrichment in the

  7. IMOS National Reference Stations: A Continental-Wide Physical, Chemical and Biological Coastal Observing System

    Science.gov (United States)

    Lynch, Tim P.; Morello, Elisabetta B.; Evans, Karen; Richardson, Anthony J.; Rochester, Wayne; Steinberg, Craig R.; Roughan, Moninya; Thompson, Peter; Middleton, John F.; Feng, Ming; Sherrington, Robert; Brando, Vittorio; Tilbrook, Bronte; Ridgway, Ken; Allen, Simon; Doherty, Peter; Hill, Katherine; Moltmann, Tim C.

    2014-01-01

    Sustained observations allow for the tracking of change in oceanography and ecosystems, however, these are rare, particularly for the Southern Hemisphere. To address this in part, the Australian Integrated Marine Observing System (IMOS) implemented a network of nine National Reference Stations (NRS). The network builds on one long-term location, where monthly water sampling has been sustained since the 1940s and two others that commenced in the 1950s. In-situ continuously moored sensors and an enhanced monthly water sampling regime now collect more than 50 data streams. Building on sampling for temperature, salinity and nutrients, the network now observes dissolved oxygen, carbon, turbidity, currents, chlorophyll a and both phytoplankton and zooplankton. Additional parameters for studies of ocean acidification and bio-optics are collected at a sub-set of sites and all data is made freely and publically available. Our preliminary results demonstrate increased utility to observe extreme events, such as marine heat waves and coastal flooding; rare events, such as plankton blooms; and have, for the first time, allowed for consistent continental scale sampling and analysis of coastal zooplankton and phytoplankton communities. Independent water sampling allows for cross validation of the deployed sensors for quality control of data that now continuously tracks daily, seasonal and annual variation. The NRS will provide multi-decadal time series, against which more spatially replicated short-term studies can be referenced, models and remote sensing products validated, and improvements made to our understanding of how large-scale, long-term change and variability in the global ocean are affecting Australia's coastal seas and ecosystems. The NRS network provides an example of how a continental scaled observing systems can be developed to collect observations that integrate across physics, chemistry and biology. PMID:25517905

  8. IMOS National Reference Stations: a continental-wide physical, chemical and biological coastal observing system.

    Directory of Open Access Journals (Sweden)

    Tim P Lynch

    Full Text Available Sustained observations allow for the tracking of change in oceanography and ecosystems, however, these are rare, particularly for the Southern Hemisphere. To address this in part, the Australian Integrated Marine Observing System (IMOS implemented a network of nine National Reference Stations (NRS. The network builds on one long-term location, where monthly water sampling has been sustained since the 1940s and two others that commenced in the 1950s. In-situ continuously moored sensors and an enhanced monthly water sampling regime now collect more than 50 data streams. Building on sampling for temperature, salinity and nutrients, the network now observes dissolved oxygen, carbon, turbidity, currents, chlorophyll a and both phytoplankton and zooplankton. Additional parameters for studies of ocean acidification and bio-optics are collected at a sub-set of sites and all data is made freely and publically available. Our preliminary results demonstrate increased utility to observe extreme events, such as marine heat waves and coastal flooding; rare events, such as plankton blooms; and have, for the first time, allowed for consistent continental scale sampling and analysis of coastal zooplankton and phytoplankton communities. Independent water sampling allows for cross validation of the deployed sensors for quality control of data that now continuously tracks daily, seasonal and annual variation. The NRS will provide multi-decadal time series, against which more spatially replicated short-term studies can be referenced, models and remote sensing products validated, and improvements made to our understanding of how large-scale, long-term change and variability in the global ocean are affecting Australia's coastal seas and ecosystems. The NRS network provides an example of how a continental scaled observing systems can be developed to collect observations that integrate across physics, chemistry and biology.

  9. Soil Physical Characteristics and Biological Indicators of Soil Quality Under Different Biodegradable Mulches

    Science.gov (United States)

    Schaeffer, S. M.; Flury, M.; Sintim, H.; Bandopadhyay, S.; Ghimire, S.; Bary, A.; DeBruyn, J.

    2015-12-01

    Application of conventional polyethylene (PE) mulch in crop production offers benefits of increased water use efficiency, weed control, management of certain plant diseases, and maintenance of a micro-climate conducive for plant growth. These factors improve crop yield and quality, but PE must be retrieved and safely disposed of after usage. Substituting PE with biodegradable plastic mulches (BDM) would alleviate disposal needs, and is potentially a more sustainable practice. However, knowledge of potential impacts of BDMs on agricultural soil ecosystems is needed to evaluate sustainability. We (a) monitored soil moisture and temperature dynamics, and (b) assessed soil quality upon usage of different mulches, with pie pumpkin (Cucurbita pepo) as the test crop. Experimental field trials are ongoing at two sites, one at Northwestern Washington Research and Extension Center, Mount Vernon, WA, and the other at East Tennessee Research and Education Center, Knoxville, TN. The treatments constitute four different commercial BDM products, one experimental BDM; no mulch and PE served as the controls. Soil quality parameters being examined include: organic matter content, aggregate stability, water infiltration rate, CO2 flux, pH, and extracellular enzyme activity. In addition, lysimeters were installed to examine the soil water and heat flow dynamics. We present baseline and the first field season results from this study. Mulch cover appeared to moderate soil temperatures, but biodegradable mulches also appeared to lose water more quickly than PE. All mulch types, with the exception of cellulose, reduced the diurnal fluctuations in soil temperature at 10cm depth from 1 to 4ºC. However, volumetric water content ranged from 0.10 to 0.22 m3 m-3 under the five biodegradable mulches compared to 0.22 to 0.28 m3 m-3 under conventional PE. Results from the study will be useful for management practices by providing knowledge on how different mulches impact soil physical and

  10. Seasonal nutrient and plankton dynamics in a physical-biological model of Crater Lake

    Science.gov (United States)

    Fennel, K.; Collier, R.; Larson, G.; Crawford, G.; Boss, E.

    2007-01-01

    A coupled 1D physical-biological model of Crater Lake is presented. The model simulates the seasonal evolution of two functional phytoplankton groups, total chlorophyll, and zooplankton in good quantitative agreement with observations from a 10-year monitoring study. During the stratified period in summer and early fall the model displays a marked vertical structure: the phytoplankton biomass of the functional group 1, which represents diatoms and dinoflagellates, has its highest concentration in the upper 40 m; the phytoplankton biomass of group 2, which represents chlorophyta, chrysophyta, cryptomonads and cyanobacteria, has its highest concentrations between 50 and 80 m, and phytoplankton chlorophyll has its maximum at 120 m depth. A similar vertical structure is a reoccurring feature in the available data. In the model the key process allowing a vertical separation between biomass and chlorophyll is photoacclimation. Vertical light attenuation (i.e., water clarity) and the physiological ability of phytoplankton to increase their cellular chlorophyll-to-biomass ratio are ultimately determining the location of the chlorophyll maximum. The location of the particle maxima on the other hand is determined by the balance between growth and losses and occurs where growth and losses equal. The vertical particle flux simulated by our model agrees well with flux measurements from a sediment trap. This motivated us to revisit a previously published study by Dymond et al. (1996). Dymond et al. used a box model to estimate the vertical particle flux and found a discrepancy by a factor 2.5-10 between their model-derived flux and measured fluxes from a sediment trap. Their box model neglected the exchange flux of dissolved and suspended organic matter, which, as our model and available data suggests is significant for the vertical exchange of nitrogen. Adjustment of Dymond et al.'s assumptions to account for dissolved and suspended nitrogen yields a flux estimate that is

  11. Dose Response Association between Physical Activity and Biological, Demographic, and Perceptions of Health Variables

    Directory of Open Access Journals (Sweden)

    Paul D. Loprinzi

    2013-08-01

    Full Text Available Background: Few population-based studies have examined the association between physical activity (PA and cardiovascular disease risk factors, demographic variables, and perceptions of health status, and we do not have a clear understanding of the dose-response relationship among these variables. Methods: Data from the 2003-2006 National Health and Nutrition Examination Survey was used to examine the dose-response relationship between objectively measured PA and metabolic syndrome (and its individual cardiovascular disease risk factors, demographic variables, and perceptions of health. After exclusions, 5,538 participants 18 years or older were included in the present study, with 2,538 participants providing fasting glucose and 2,527 providing fasting triglyceride data. PA was categorized into deciles. Results: Overall, the health benefits showed a general pattern of increase with each increasing levels of PA. Of the ten PA classifications examined, participants in the highest moderate-to-vigorous physical activity (MVPA category (at least 71 min/day had the lowest odds of developing metabolic syndrome. Conclusion: At a minimum, sedentary adults should strive to meet current PA guidelines (i.e., 150 min/week of MVPA, with additional positive benefits associated with engaging in three times this level of PA.

  12. Apparatus and method for biological purification of waste

    Science.gov (United States)

    Lucido, John A.; Keenan, Daniel; Premuzic, Eugene T.; Lin, Mow S.; Shelenkova, Ludmila

    1998-11-24

    An apparatus is disclosed for containing a microorganism culture in an active exponential growth and delivering a supply of microorganisms to an environment containing wastes for bio-augmenting the biodegradation of the wastes. The apparatus comprises a bioreactor and an operably connected controller. The bioreactor has a bioreactor chamber for containing a supply of microorganisms, a second chamber for containing a supply of water and inorganic nutrients, and a third chamber for containing a supply of organic nutrients. The bioreactor is operably connected to the controller in which a first pump is operably connected in fluid communication between the bioreactor chamber and the second chamber and third chamber, and a second pump is operably connected in fluid communication between the bioreactor chamber and the environment containing wastes to be biodegraded. The controller further includes a timer and regulator operably connected to the first and second pumps to effectively maintain the microorganisms in exponential growth in the bioreactor chamber and to deliver microorganisms to an environment to be treated. Also, disclosed is a method for bio-augmenting the biodegradation of wastes.

  13. Research on Catalytic Properties of Palladium Catalyst Prepared by Biological Reduction Method

    Institute of Scientific and Technical Information of China (English)

    Zhang Feng; Fu Jiquan

    2013-01-01

    This paper relates to highly dispersed supported Pd/MWCNTs and Pd/α-Al2O3 catalysts prepared by biological reduction method. The physico-chemical properties and the difference in catalytic activity of Pd catalysts prepared by bio-logical reduction method and chemical method, respectively, were investigated using XRD, TEM and speciifc surface char-acterization methods. The catalytic properties of catalysts were studied through activity evaluation means. The test results showed that the catalysts prepared by biological method were characteristic of small Pd nanoparticle size, good dispersion and low agglomeration, while possessing a high activity and stability in styrene hydrogenation reaction in comparison with catalysts prepared via the chemical method.

  14. Approaching complexity by stochastic methods: From biological systems to turbulence

    Energy Technology Data Exchange (ETDEWEB)

    Friedrich, Rudolf [Institute for Theoretical Physics, University of Muenster, D-48149 Muenster (Germany); Peinke, Joachim [Institute of Physics, Carl von Ossietzky University, D-26111 Oldenburg (Germany); Sahimi, Muhammad [Mork Family Department of Chemical Engineering and Materials Science, University of Southern California, Los Angeles, CA 90089-1211 (United States); Reza Rahimi Tabar, M., E-mail: mohammed.r.rahimi.tabar@uni-oldenburg.de [Department of Physics, Sharif University of Technology, Tehran 11155-9161 (Iran, Islamic Republic of); Institute of Physics, Carl von Ossietzky University, D-26111 Oldenburg (Germany); Fachbereich Physik, Universitaet Osnabrueck, Barbarastrasse 7, 49076 Osnabrueck (Germany)

    2011-09-15

    This review addresses a central question in the field of complex systems: given a fluctuating (in time or space), sequentially measured set of experimental data, how should one analyze the data, assess their underlying trends, and discover the characteristics of the fluctuations that generate the experimental traces? In recent years, significant progress has been made in addressing this question for a class of stochastic processes that can be modeled by Langevin equations, including additive as well as multiplicative fluctuations or noise. Important results have emerged from the analysis of temporal data for such diverse fields as neuroscience, cardiology, finance, economy, surface science, turbulence, seismic time series and epileptic brain dynamics, to name but a few. Furthermore, it has been recognized that a similar approach can be applied to the data that depend on a length scale, such as velocity increments in fully developed turbulent flow, or height increments that characterize rough surfaces. A basic ingredient of the approach to the analysis of fluctuating data is the presence of a Markovian property, which can be detected in real systems above a certain time or length scale. This scale is referred to as the Markov-Einstein (ME) scale, and has turned out to be a useful characteristic of complex systems. We provide a review of the operational methods that have been developed for analyzing stochastic data in time and scale. We address in detail the following issues: (i) reconstruction of stochastic evolution equations from data in terms of the Langevin equations or the corresponding Fokker-Planck equations and (ii) intermittency, cascades, and multiscale correlation functions.

  15. Cell method a purely algebraic computational method in physics and engineering

    CERN Document Server

    Ferretti, Elena

    2014-01-01

    The Cell Method (CM) is a computational tool that maintains criticalmultidimensional attributes of physical phenomena in analysis. Thisinformation is neglected in the differential formulations of the classicalapproaches of finite element, boundary element, finite volume,and finite difference analysis, often leading to numerical instabilitiesand spurious results.This book highlights the central theoretical concepts of the CM thatpreserve a more accurate and precise representation of the geometricand topological features of variables for practical problem solving.Important applications occur in

  16. Biological Maturation, Body Morphology and Physical Performance in 8-16 Year-Old Obese Girls from Montes Claros – Mg

    Directory of Open Access Journals (Sweden)

    Freitas Alex S.

    2014-12-01

    Full Text Available Measurements of maturity depend on the biological system considered since differences are often found in performance and body size in subjects of the same chronological age. The objective of this study was to identify associations between biological maturation, body morphology and physical performance in girls aged from 8.0 to 15.9 year-old and to verify the bone age in obese girls and compare it with chronological age. For that purpose 2040 (11.9 ± 2.3 years school girls from Montes Claros, participated in this study. Regular anthropometric measures as height and body mass were taken. Triceps, biceps, subscapular, abdominal, suprailiac and calf skinfolds were also registered. Physical performance was assessed trough the test of a standing long jump, handgrip strength and 20 m multistage shuttle run. Maturational status, the average age at menarche and identification of PHV (maturity off set were determined by means of the retrospective method. Girls with the BMI above the 95th percentile got their bone age evaluated through X-ray of the left hand/wrist, in accordance with the FELS method. It was possible to find an average age at menarche of 11.30 ± 0.70, while the average age at PHV was 12.17 ± 0.71 years of age. It was observed that both body composition and physical performance showed a tendency to increase with advancing age. However, when controlling the effect of maturation, despite having higher values in body composition the post-menarche girls group did not show higher levels of physical performance. In all age groups, obese girls showed mean rates of bone age higher than chronologic age (12.25 ± 2.09 and 14.09 ± 2.35, respectively, p=0.000. Chronological age should be used with caution when evaluating obese teenagers as it may underestimate biological age.

  17. Electron spin interactions in chemistry and biology fundamentals, methods, reactions mechanisms, magnetic phenomena, structure investigation

    CERN Document Server

    Likhtenshtein, Gertz

    2016-01-01

    This book presents the versatile and pivotal role of electron spin interactions in nature. It provides the background, methodologies and tools for basic areas related to spin interactions, such as spin chemistry and biology, electron transfer, light energy conversion, photochemistry, radical reactions, magneto-chemistry and magneto-biology. The book also includes an overview of designing advanced magnetic materials, optical and spintronic devices and photo catalysts. This monograph appeals to scientists and graduate students working in the areas related to spin interactions physics, biophysics, chemistry and chemical engineering.

  18. Physical chemical and biological characterization of a new bacteriocin produced byBacillus cereusNS02

    Institute of Scientific and Technical Information of China (English)

    Senbagam D; Gurusamy R; Senthilkumar B

    2013-01-01

    Objective:To screen the bacteriocinogenic isolate from buffalo milk and to characterize it on physical, chemical and biological aspects for the application in biopreservation.Methods:Bacillus cereus(B. cereus) was isolated and assessed for its baceteriocinogenic activity. Bacteriocin was produced and purified by ammonium sulphate precipitation, dialysis and gel filtration chromatography.Purified bacteriocin was used to check its antimicrobial activity against food borne bacteria.Effect and stability of bacteriocin was determined with the respect to temperature, pH, enzymes, organic solvents and chemicals.Bacteriocin was also subjected toSDSPAGE analysis to determine its molecular weight.In addition, functional groups exist in the bacteriocin was determined byFTIR analysis.Results:B. cereus was identified by16S rRNA sequence analysis.Bacteriocin showed increased activity against all the bacteria used and its activity unit was found to be51,200AU/mL.It was stable to high temperature(100 ℃) and wide range of pH(3-10), sensitive to proteolytic enzymes and resistant to nonproteolytic enzymes.It was low molecular weight(3.5 -6KDa) protein andFTIR study revealed the presence of amide group andNH stretching.Conclusions:Bacteriocin produced in this study possesses the highest antimicrobial activity against both gram positive and gram negative bacteria thereby it has immense application as biopreservative agent.FTIR proved its peptide nature.

  19. The Fe removal in pyrophyllite by physical method

    Science.gov (United States)

    Cho, Kanghee; Jo, Jiyu; Bak, GeonYeong; Choi, NagChoul; Park*, CheonYoung

    2015-04-01

    The presence of Fe in ingredient material such as limestone, borax and pyrophyllite can prevent their use mainly in the glass fiber manufacturing industry. The red to yellow pigmentation in pyrophyllite is mainly due to the associated oxides and sulfides of Fe such as hematite, pyrite, etc. The removal of Fe in the pyrophyllite was investigated using high frequency treatment and magnetic separation under various alumina grades in pyrophyllite. The hematite and pyrite were observed in the pyrophyllite from photomicrograph and XRD analysis results. On the decrease of Al2O3 content in pyrophyllite was showed that SiO2, Fe2O3 and TiO2 content were increased by XRF analysis. The high frequency treatment experiment for the pyrophyllite showed that the (1) pyrite phase was transformed hematite and magnetite, (2) mass loss of the sample by volatilization of included sulfur(S) in pyrite. The results of magnetic separation for treated sample by high frequency were identified that Fe removal percent were in the range of 97.6~98.8%. This study demonstrated that physical method (high frequency treatment and magnetic separation) was effective for the removal of Fe in pyrophyllite. This subject is supported by Korea Ministry of Environment(MOE) as "Advanced Technology Program for Environmental Industry".

  20. Evolution of accelerometer methods for physical activity research.

    Science.gov (United States)

    Troiano, Richard P; McClain, James J; Brychta, Robert J; Chen, Kong Y

    2014-07-01

    The technology and application of current accelerometer-based devices in physical activity (PA) research allow the capture and storage or transmission of large volumes of raw acceleration signal data. These rich data not only provide opportunities to improve PA characterisation, but also bring logistical and analytic challenges. We discuss how researchers and developers from multiple disciplines are responding to the analytic challenges and how advances in data storage, transmission and big data computing will minimise logistical challenges. These new approaches also bring the need for several paradigm shifts for PA researchers, including a shift from count-based approaches and regression calibrations for PA energy expenditure (PAEE) estimation to activity characterisation and EE estimation based on features extracted from raw acceleration signals. Furthermore, a collaborative approach towards analytic methods is proposed to facilitate PA research, which requires a shift away from multiple independent calibration studies. Finally, we make the case for a distinction between PA represented by accelerometer-based devices and PA assessed by self-report.

  1. A new assimilation method with physical mechanism to estimate evapotranspiration

    Science.gov (United States)

    Ye, Wen; Xu, Xinyi

    2016-04-01

    The accurate estimation of regional evapotranspiration has been a research hotspot in the field of hydrology and water resources both in domestic and abroad. A new assimilation method with physical mechanism was proposed to estimate evapotranspiration, which was easier to apply. Based on the evapotranspiration (ET) calculating method with soil moisture recurrence relations in the Distributed Time Variant Gain Model (DTVGM) and Ensemble Kalman Filter (EnKF), it constructed an assimilation system for recursive calculation of evapotranspiration in combination with "observation value" by the retrieval data of evapotranspiration through the Two-Layer Remote Sensing Model. By updating the filter in the model with assimilated evapotranspiration, synchronization correction to the model estimation was achieved and more accurate time continuous series values of evapotranspiration were obtained. Through the verification of observations in Xiaotangshan Observatory and hydrological stations in the basin, the correlation coefficient of remote sensing inversion evapotranspiration and actual evapotranspiration reaches as high as 0.97, and the NS efficiency coefficient of DTVGM model was 0.80. By using the typical daily evapotranspiration from Remote Sensing and the data from DTVGM Model, we assimilated the hydrological simulation processes with DTVGM Model in Shahe Basin in Beijing to obtain continuous evapotranspiration time series. The results showed that the average relative error between the remote sensing values and DTVGM simulations is about 12.3%, and for the value between remote sensing retrieval data and assimilation values is 4.5%, which proved that the assimilation results of Ensemble Kalman Filter (EnKF) were closer to the "real" data, and was better than the evapotranspiration simulated by DTVGM without any improvement. Keyword Evapotranspiration assimilation Ensemble Kalman Filter Distributed hydrological model Two-Layer Remote Sensing Model

  2. Physical method for in-vivo evaluation of heavy and other toxicological metals

    International Nuclear Information System (INIS)

    Physical methods, which include x-ray fluorescence (XRF) and fast neutron activation, are rapidly becoming established as powerful tools in the study of body composition. Particular foci of attention are the monitoring of heavy metal exposure, either in the living environment or occupationally, biological processes, organ dysfunction and the efficacy of therapeutic regimes including chelation. The relative simplicity of the facilities which are required have allowed increasing interest to be shown in the development of portable in-vivo systems. This talk will attempt to review some of the important developments which have occurred. Efforts to enhance the ratio of measurement sensitivity to radiation dose will be highlighted. Examples will include monitoring of occupational Pb exposure and possibilities for the monitoring of iron overload which sometimes occurs in association with the treatment of thalassemia. (author)

  3. Methods to Measure Physical Activity Behaviors in Health Education Research

    Science.gov (United States)

    Fitzhugh, Eugene C.

    2015-01-01

    Regular physical activity (PA) is an important concept to measure in health education research. The health education researcher might need to measure physical activity because it is the primary measure of interest, or PA might be a confounding measure that needs to be controlled for in statistical analysis. The purpose of this commentary is to…

  4. ASSESSMENT OF THE INFLUENCE OF 5E LEARNING METHOD AND COOPERATIVE LEARNING METHOD ON BIOLOGY ATTITUDE IN TERMS OF GENDER

    Directory of Open Access Journals (Sweden)

    Murat AKTAŞ

    2013-06-01

    Full Text Available The aim of this study is toassessment of the influence of cooperative learning method and cooperative learning method on biology attitude in terms of gender. In 2010-2011 school year 93 students who were in 3nd grade science field at Ankara Çankaya Milli Piyango Anadolu High School constituted the work group of the study. “Heredity, Genetic Engineering and Biotechnology” unit were worked by 5E learning model at 1th experimenta group, by cooperative learning at 2th experimental group and by traditional teaching method at control group.Data were collected by applying biology attitude scale at the beginning and the end of the investigation.The following results were obtained from this study: No differences in the students’ attitudes towards the biology lessons has been observed according to student’s gender.

  5. Rapid Detection of Biological and Chemical Threat Agents Using Physical Chemistry, Active Detection, and Computational Analysis

    Energy Technology Data Exchange (ETDEWEB)

    Chung, Myung; Dong, Li; Fu, Rong; Liotta, Lance; Narayanan, Aarthi; Petricoin, Emanuel; Ross, Mark; Russo, Paul; Zhou, Weidong; Luchini, Alessandra; Manes, Nathan; Chertow, Jessica; Han, Suhua; Kidd, Jessica; Senina, Svetlana; Groves, Stephanie

    2007-01-01

    Basic technologies have been successfully developed within this project: rapid collection of aerosols and a rapid ultra-sensitive immunoassay technique. Water-soluble, humidity-resistant polyacrylamide nano-filters were shown to (1) capture aerosol particles as small as 20 nm, (2) work in humid air and (3) completely liberate their captured particles in an aqueous solution compatible with the immunoassay technique. The immunoassay technology developed within this project combines electrophoretic capture with magnetic bead detection. It allows detection of as few as 150-600 analyte molecules or viruses in only three minutes, something no other known method can duplicate. The technology can be used in a variety of applications where speed of analysis and/or extremely low detection limits are of great importance: in rapid analysis of donor blood for hepatitis, HIV and other blood-borne infections in emergency blood transfusions, in trace analysis of pollutants, or in search of biomarkers in biological fluids. Combined in a single device, the water-soluble filter and ultra-sensitive immunoassay technique may solve the problem of early warning type detection of aerosolized pathogens. These two technologies are protected with five patent applications and are ready for commercialization.

  6. PROTEIN QUALITY EVALUATION OF NAKED OAT (AVENA NUDA L. AND BUCKWHEAT (FAGOPYRUM ESCULENTUM MOENCH BY BIOLOGICAL METHODS AND PDCAAS METHOD

    Directory of Open Access Journals (Sweden)

    Martina Vršková

    2013-02-01

    Full Text Available The aim of this paper was to determine the protein quality of naked oat (Avena nuda L. and buckwheat (Fagopyrum esculentum Moench by traditional biological methods [Protein Efficiency Ratio (PER, Net Protein Utilization (NPU, Biological value] and the protein digestibility-corrected amino acid score (PDCAAS. As an animal model we used growing rats at the age of 21 days and at average body weight 83 g. The tested feeds represented the only nitrogen source in the experimental diets, and the tested nitrogen substances were 10 % of the feed ration in dry matter. We found higher values achieved in growth, feed conversion and crude protein intake in the group fed buckwheat. Buckwheat achieved higher biological value. Oat achieved a higher digestibility, which was also influenced by higher PDCAAS. Buckwheat achieved higher biological protein value. Isoleucine was the limiting amino acid in both tested feeds. Other parameters of the evaluation of protein quality (PER, NPU had minimal differences.

  7. Method And System For Examining Biological Materials Using Low Power Cw Excitation Raman Spectroscopy.

    Energy Technology Data Exchange (ETDEWEB)

    Alfano, Robert R. (Bronx, NY); Wang, Wubao (Flushing, NY)

    2003-05-06

    A method and system for examining biological materials using low-power cw excitation Raman spectroscopy. A low-power continuous wave (cw) pump laser beam and a low-power cw Stokes (or anti-Stokes) probe laser beam simultaneously illuminate a biological material and traverse the biological material in collinearity. The pump beam, whose frequency is varied, is used to induce Raman emission from the biological material. The intensity of the probe beam, whose frequency is kept constant, is monitored as it leaves the biological material. When the difference between the pump and probe excitation frequencies is equal to a Raman vibrational mode frequency of the biological material, the weak probe signal becomes amplified by one or more orders of magnitude (typically up to about 10.sup.4 -10.sup.6) due to the Raman emission from the pump beam. In this manner, by monitoring the intensity of the probe beam emitted from the biological material as the pump beam is varied in frequency, one can obtain an excitation Raman spectrum for the biological material tested. The present invention may be applied to in the in vivo and/or in vitro diagnosis of diabetes, heart disease, hepatitis, cancers and other diseases by measuring the characteristic excitation Raman lines of blood glucose, cholesterol, serum glutamic oxalacetic transaminase (SGOT)/serum glutamic pyruvic transaminase (SGPT), tissues and other corresponding Raman-active body constituents, respectively.

  8. Biological and physical influences on soil 14CO2 seasonal dynamics in a temperate hardwood forest

    Directory of Open Access Journals (Sweden)

    C. L. Phillips

    2013-07-01

    Full Text Available While radiocarbon (14C abundance in standing stocks of soil carbon has been used to evaluate rates of soil carbon turnover on timescales of several years to centuries, soil-respired 14CO2 measurements are an important tool for identifying more immediate responses to disturbance and climate change. Soil 14CO2 data are often temporally sparse, however, and could be interpreted better with more context for typical seasonal ranges and trends. We report on a semi-high-frequency sampling campaign to distinguish physical and biological drivers of soil 14CO2 at a temperate forest site in Northern Wisconsin, USA. We sampled 14CO2 profiles every three weeks during snow-free months through 2012, in three intact plots and one trenched plot that excluded roots. Respired 14CO2 declined through the summer in intact plots, shifting from an older C composition that contained more bomb 14C, to a younger composition more closely resembling present 14C levels in the atmosphere. In the trenched plot respired 14C was variable but remained comparatively higher than in intact plots, reflecting older bomb-enriched 14C sources. Although respired 14CO2 from intact plots correlated with soil moisture, related analyses did not support a clear cause-and-effect relationship with moisture. The initial decrease in 14CO2 from spring to midsummer could be explained by increases in 14C-deplete root respiration; however, 14CO2 continued to decline in late summer after root activity decreased. We also investigated whether soil moisture impacted vertical partitioning of CO2 production, but found this had little effect on respired 14CO2 because CO2 contained modern bomb-C at depth, even in the trenched plot. This surprising result contrasted with decades to centuries-old pre-bomb CO2 produced in lab incubations of the same soils. Our results suggest that root-derived C and other recent C sources had dominant impacts on 14CO2 in situ, even at depth. We propose that 14CO2 may have

  9. Secondary Physics, Chemistry, and Biology (PCB) Teachers’ Views about In-service Training Related to Curricular Change

    OpenAIRE

    Fatih Çağlayan Mercan

    2015-01-01

    In Turkey the Physics, Chemistry and Biology (PCB) curricula were renewed in 2008. However, little in-service training for teachers has been conducted to disseminate the ideas in the new curricula. The purpose of this study was to investigate PCB teachers’ views on in-service training, which may serve as the base knowledge of educational change in Turkey that can be used in further curricular development. In Istanbul 99 teachers voluntarily participated in this qualitative case study. Data we...

  10. Parallel optical sorting of biological cells using the generalized phase contrast method

    DEFF Research Database (Denmark)

    Rindorf, Lars; Bu, Minqiang; Glückstad, Jesper

    2014-01-01

    Optical forces are used to fixate biological cells with optical tweezers where numerous biological parameters and phenomena can be studied. Optical beams carry a small momentum which generates a weak optical force, but on a cellular level this force is strong enough to allow for manipulation...... of biological cells in microfluidic systems exclusively using light. We demonstrate an optical cell sorter that uses simultaneous manipulation by multiple laser beams using the Generalized Phase Contrast method (GPC). The basic principle in an optical sorter is that the radiation force of the optical beam can...

  11. Physics transforming the life sciences.

    Science.gov (United States)

    Onuchic, José N

    2014-10-08

    Biological physics is clearly becoming one of the leading sciences of the 21st century. This field involves the cross-fertilization of ideas and methods from biology and biochemistry on the one hand and the physics of complex and far from equilibrium systems on the other. Here I want to discuss how biological physics is a new area of physics and not simply applications of known physics to biological problems. I will focus in particular on the new advances in theoretical physics that are already flourishing today. They will become central pieces in the creation of this new frontier of science.

  12. Quantum chemical methods for the investigation of photoinitiated processes in biological systems: theory and applications.

    Science.gov (United States)

    Dreuw, Andreas

    2006-11-13

    With the advent of modern computers and advances in the development of efficient quantum chemical computer codes, the meaningful computation of large molecular systems at a quantum mechanical level became feasible. Recent experimental effort to understand photoinitiated processes in biological systems, for instance photosynthesis or vision, at a molecular level also triggered theoretical investigations in this field. In this Minireview, standard quantum chemical methods are presented that are applicable and recently used for the calculation of excited states of photoinitiated processes in biological molecular systems. These methods comprise configuration interaction singles, the complete active space self-consistent field method, and time-dependent density functional theory and its variants. Semiempirical approaches are also covered. Their basic theoretical concepts and mathematical equations are briefly outlined, and their properties and limitations are discussed. Recent successful applications of the methods to photoinitiated processes in biological systems are described and theoretical tools for the analysis of excited states are presented. PMID:17009357

  13. Analytical methods for vancomycin determination in biological fluids and in pharmaceuticals

    Directory of Open Access Journals (Sweden)

    Marta Maria Duarte Carvalho Vila

    2007-04-01

    Full Text Available Vancomycin is a glycopeptide antibiotic employed in the treatment of infections caused by certain methicillin-resistant staphylococci. It is indicated also for patients allergic to penicillin or when there is no response to penicillins or cephalosporins. The adequate vancomycin concentration levels in blood serum lies between 5 and 10 mg/L. Higher values are toxic, causing mainly nephrotoxicity and ototoxicity. Various analytical methods are described in the literature: spectrophotometric, immunologic, biologic and chromatographic methods. This paper reviews the main analytical methods for vancomycin determination in biological fluids and in pharmaceutical preparations.

  14. The phaseness of human biological development assesse with the use of selected physicochemical methods

    OpenAIRE

    Czapla, Zbigniew

    2000-01-01

    The principal idea of the work was to show a new, original method of description of the phenomena of human biological development with the use of nonstandard research methods so far unused in the ontogenetic studies in regard to the stable and involutional phases of ontogenesis. The main purpose of the work was to assess with selected methods individual reactions of a human organism in ontogenesis against the development of the population. Two research methods were selec...

  15. Mathematical Methods For Students of Physics and Related Fields

    CERN Document Server

    Hassani, Sadri

    2009-01-01

    Intended to follow the usual introductory physics courses, this book has the unique feature of addressing the mathematical needs of sophomores and juniors in physics, engineering and other related fields. Many original, lucid, and relevant examples from the physical sciences, problems at the ends of chapters, and boxes to emphasize important concepts help guide the student through the material. Beginning with reviews of vector algebra and differential and integral calculus, the book continues with infinite series, vector analysis, complex algebra and analysis, ordinary and partial differential equations. Discussions of numerical analysis, nonlinear dynamics and chaos, and the Dirac delta function provide an introduction to modern topics in mathematical physics. This new edition has been made more user-friendly through organization into convenient, shorter chapters. Also, it includes an entirely new section on Probability and plenty of new material on tensors and integral transforms. Some praise for the previo...

  16. Mathematical methods for students of physics and related fields

    CERN Document Server

    Hassani, Sadri

    2000-01-01

    Intended to follow the usual introductory physics courses, this book has the unique feature of addressing the mathematical needs of sophomores and juniors in physics, engineering and other related fields Many original, lucid, and relevant examples from the physical sciences, problems at the ends of chapters, and boxes to emphasize important concepts help guide the student through the material Beginning with reviews of vector algebra and differential and integral calculus, the book continues with infinite series, vector analysis, complex algebra and analysis, ordinary and partial differential equations Discussions of numerical analysis, nonlinear dynamics and chaos, and the Dirac delta function provide an introduction to modern topics in mathematical physics This new edition has been made more user-friendly through organization into convenient, shorter chapters Also, it includes an entirely new section on Probability and plenty of new material on tensors and integral transforms Some praise for the previous edi...

  17. 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.

  18. A Synthetic Approach to the Transfer Matrix Method in Classical and Quantum Physics

    Science.gov (United States)

    Pujol, O.; Perez, J. P.

    2007-01-01

    The aim of this paper is to propose a synthetic approach to the transfer matrix method in classical and quantum physics. This method is an efficient tool to deal with complicated physical systems of practical importance in geometrical light or charged particle optics, classical electronics, mechanics, electromagnetics and quantum physics. Teaching…

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

    Directory of Open Access Journals (Sweden)

    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.

  20. Scale-free flow of life: on the biology, economics, and physics of the cell

    Directory of Open Access Journals (Sweden)

    Kurakin Alexei

    2009-05-01

    Full Text Available Abstract The present work is intended to demonstrate that most of the paradoxes, controversies, and contradictions accumulated in molecular and cell biology over many years of research can be readily resolved if the cell and living systems in general are re-interpreted within an alternative paradigm of biological organization that is based on the concepts and empirical laws of nonequilibrium thermodynamics. In addition to resolving paradoxes and controversies, the proposed re-conceptualization of the cell and biological organization reveals hitherto unappreciated connections among many seemingly disparate phenomena and observations, and provides new and powerful insights into the universal principles governing the emergence and organizational dynamics of living systems on each and every scale of biological organizational hierarchy, from proteins and cells to economies and ecologies.