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Topic: Perturbation (biology)

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Northwest Symposium on Systems Biology Yet all these aspects of systems biology have one common thread: the desire to use these strategies to generate models of complex biological systems that predict the behavior of the system in response to perturbation. Some emphasize the computational, data-intensive aspects of systems biology, others emphasize the need for a truly multi-disciplinary, team-based approach to problem solving, while others emphasize the need to study multiple components of complex systems simultaneously to understand their relationships. The annual Northwest Symposium for Systems Biology Toward A Predictive Science was held on Monday, June 20, and Tuesday, June 21, on the Pacific Northwest National Laboratory campus in Richland, Washington. www.pnl.gov /northwestsymposium   (344 words)

Society for Conservation Biology: 2002 Annual Meeting We apply MVA to an endangered species of butterfly, illustrating how the biology of the species and regional level presence/absence data may be combined to assess the viability of the species and to compare possible management alternatives. Patch extinction probability, the proportion of initially occupied patches extinct after 25 years, was highly sensitive to the extent of species occupancy and perturbation within the drainage, longitudinal species distribution, perturbation decay rate and the covariance pattern of stochastic effects on colonisation and extinction probabilities. GAINES, KAREN H. Department of Biology, University of New Mexico at Albuquerque, New Mexico 87131, USA, . www.kent.ac.uk /anthropology/dice/scb2002/abstracts/Monday/metape.html   (1253 words)

Analysis of Fission Yeast Primase Defines the Checkpoint Responses to Aberrant S Phase Initiation -- Tan and Wang 20 (21): 7853 -- Molecular and Cellular Biology phase perturbation and not early S phase perturbation (23). phase by maintaining them in minimal medium lacking a nitrogen source for 18 h at 25°C. The cultures were then released into YES medium at 36°C and collected at the indicated times for analysis. The goal of this study was to determine the checkpoint response(s) to aberrant initiation of S phase. mcb.asm.org /cgi/content/full/20/21/7853   (6733 words)

Mutational Effect of Fission Yeast Polalpha on Cell Cycle Events -- Bhaumik and Wang 9 (8): 2107 -- Molecular Biology of the Cell perturbation but not enough to compromise the growth rate of the for recovery of cells during S phase perturbation. were first arrested in S phase by hydroxyurea at 25°C for 4 h. www.molbiolcell.org /cgi/content/full/9/8/2107   (5389 words)

Compare prices for books ISBN 0126323100 The Vascular Smooth Muscle Cell: Molecular and Biological Responses to the Extracellular Matrix (Biology of Extracellular Matrix) ISBN 0125400500 Progress in Nucleic Acid Research and Molecular Biology (Progress in Nucleic Acid Research and Molecular Biology) ISBN 0125641516 Methods in Plant Cell Biology, Part A (Methods in Cell Biology) www.akabook.com /books/book25.html   (2063 words)

Systems biology - Wikipedia, the free encyclopedia Systems biology begins with the knowledge of parts list of possible genes and proteins in an organism, then, using high-throughput techniques such as microarrays to measure the changes in all mRNAs or proteomics methods using mass spectroscopy, to measure the change in protein concentration in response to a given perturbation. In contrast to much of molecular biology, systems biology does not seek to break down a system into all of its parts and study, one part of the process at a time, with the hope of being able to reassemble all the parts into a whole. The current advances in biology (coming from bioinformatics in the post genomic era) are a direct result of the success of this reductionist approach. en.wikipedia.org /wiki/Systems_biology   (2063 words)

Topics Topics will include: time-dependent perturbation theory, interaction of radiation with matter, electronic and vibrational spectroscopy of polyatomic molecules, normal modes of polyatomic molecules, molecular orbital theory, bonding in biological molecules, electronic absorption, emission, fluorescence, circular dichroism, NMR spectroscopy, X-ray diffraction and other structural techniques, molecular modeling and molecular dynamics and mechanics. There will be a strong emphasis on the time-dependent formulation of quantum mechanics, including wavepacket dynamics, time-dependent perturbation theory, and the interaction of molecules with laser radiation. Section 2 (meet at 9 Lewis) — Quantum mechanics and spectroscopy for biophysical chemistry and structural biology. www.cchem.berkeley.edu /chem120a_nhy/topics.html   (324 words)

CHI presents Genomics On Target 2003 target discovery method, which combines gene perturbation of animal disease with pathway analysis, selectively and rapidly identifies those novel targets, operating in complex biological processes, which are activated as disease pathology expands or contracts. Unlike other target ID and validation strategies, the chemical biology approach uncovers only those targets that are both validated in a cell-based disease model and amenable to modulation by small molecules. A new approach, Systems Biology, involves the integration of information derived from RNA, protein, and metabolite expression profiles in order to recreate the intermolecular connections that lead to each system's behavior. www.genomicsontarget.com /chg.asp   (3592 words)

Malone College: Christopher Carmichael M.S. Biology, Central Michigan  University, Mt. Pleasant, Michigan (Thesis: Feeding Ecology of the Tuatara, Sphenodon punctatus, a comparative study between two populations on Stephens Island, New Zealand)/Advisor: Dr. James C. Gillingham (Gillingham's Home Page) Carmichael, C. Gillingham, and S. Kaell.  The feeding ecology of the tuatara ( Sphenodon punctatus) in two different ecological zones on Stephens Island, New Zealand: a model study for demonstrating ecological impacts following human perturbation. Carmichael, C. Kaell, and J. Gillingham.  The feeding ecology of a newly described tuatara ( Sphenodon guntheri) on Brothers Island, New Zealand. www.malone.edu /2476   (3592 words)

Amazon.com: Essays on Life Itself: Books: Robert Rosen impredicative loops, enough entailment, nonadmissible environment, morphogenetic networks, inferential entailments, excitable networks, local state transition, relational biology, causal entailments, entailment structures, gravitational aspects, rote operations, purely predicative, structuring mind, given material system, generic perturbation, constructible universe, closed causal loops, chimera formation, adopted shell, order from order, forced behavior, pure syntax, biggest model, optimality problem More than once he mentiones Goedel Theorem, as well as various paradoxes, encountered by science over the centuries, emphasizing the fact, that they all are directly related to the impossibility to draw definite border between an observer and her subject (not just in quantum physics). Rosen builds his case against Church Thesis, arguing that contemporary mathematical and, more generally, scientific rigor, which bans impredicative loops from scientific discource, would not allow us to build what he calls "new science", which is needed to account for life and consciousness. www.amazon.com /exec/obidos/tg/detail/-/0231105118?v=glance   (3783 words)

Arciero - EVOLUTIONARY EPISTEMOLOGY AND SCIENTIFIC PSYCHOLOGY It is evident as in line with evolutionary biology, this vision shifts the evolutionary explanation to the internal dynamics of every animal group and to the history of structural trans- formation of the lineage related to an environmental perturbation. Adaptation, hence, becomes the invariant which must be maintained in order to exist. EVOLUTIONARY EPISTEMOLOGY AND SCIENTIFIC PSYCHOLOGY: FROM EPISTEMOLOGY TO ONTOLOGY www.ipra.it /art20a.htm   (3783 words)

Predictive Metabolic Engineering: A Goal for Systems Biology -- Sweetlove et al. 132 (2): 420 -- PLANT PHYSIOLOGY Predictive Metabolic Engineering: A Goal for Systems Biology -- Sweetlove et al. Although this process of refinement never ends, the model becomes valuable as soon as it accurately predicts the behavior of the system in response to perturbation. A major goal of modeling metabolic responses is to predict which components exert greatest control over regulation of flux through the pathway and to hypothesize the results of altering these constituents. www.plantphysiol.org /cgi/content/full/132/2/420   (3783 words)

Spirochete Research Community It now includes updated information from the attendees of the 1998 Gordon Research Conference on the Biology of Spirochetes. Paul.Cullen@med.monash.edu.au Research interests: OMPs in Leptospira and Brachyspira, bacterial pathogenesis of spirochetes, immunity to spirochete infection (99/04/28) Sally J. Cutler Charing Cross Hospital Dept of Medical Microbiology Fulham Palace Road, London W6 8RF UK Phone: 44-1818467570 Fax: 44-1818467261 Internet: richard.ellen@utoronto.ca Research Interests: Cytopathogenicity in periodontitis; cytoskeletal perturbation by oral spirochetes. mmg.uth.tmc.edu /treponema/docs/address.htm   (7071 words)

Self Consistent Field Theory: Quantum Chemistry Semiclassical self-consistent-field perturbation theory for the hydrogen atom in a magnetic field. Home > Links > Chemistry and Biology > Theoretical Chemistry > Quantum Chemistry > Self Consistent Field Theory Self Consistent Field Theory - Potential Energy Surface and the Hamiltonian, Electron Density, Orbital Equation, Energy Expression, Basis sets and the Self Consistent Equations, Density Functional Theory. www.infochembio.ethz.ch /links/en/theochem_qc_scf.html   (142 words)

Self Consistent Field Theory: Quantum Chemistry Semiclassical self-consistent-field perturbation theory for the hydrogen atom in a magnetic field. Home > Links > Chemistry and Biology > Theoretical Chemistry > Quantum Chemistry > Self Consistent Field Theory Self Consistent Field Theory - Potential Energy Surface and the Hamiltonian, Electron Density, Orbital Equation, Energy Expression, Basis sets and the Self Consistent Equations, Density Functional Theory. www.infochembio.ethz.ch /links/en/theochem_qc_scf.html   (142 words)

Intracellular convection, homeostasis and metabolic regulation -- Hochachka 206 (12): 2001 -- Journal of Experimental Biology in intracellular conditions, the degree of perturbation being preparations almost exclusively relied upon near infrared spectroscopy. kinetics and operate under near-equilibrium conditions (at equilibrium, jeb.biologists.org /cgi/content/full/206/12/2001   (142 words)

PtdIns-specific MPR Pathway Association of a Novel WD40 Repeat Protein, WIPI49 -- Jeffries et al. 15 (6): 2652 -- Molecular Biology of the Cell The PtdIns binding ability of WIPI49 is required for perturbation of the MPR pathway. Davidson, H.W. (1998) Worthannin causes mistargeting of procathepsin D: evidence for the involvement of a P13K in vesicular transport to lysomes, J. Cell Biol., 130, 797-805. MPR trafficking pathway in WIPI49 overexpressors, we examined www.molbiolcell.org /cgi/content/full/15/6/2652   (142 words)

CHI presents Genomics On Target 2003 target discovery method, which combines gene perturbation of animal disease with pathway analysis, selectively and rapidly identifies those novel targets, operating in complex biological processes, which are activated as disease pathology expands or contracts. Unlike other target ID and validation strategies, the chemical biology approach uncovers only those targets that are both validated in a cell-based disease model and amenable to modulation by small molecules. The target family-directed masterkey concept is based on the attempt to encode protein familywide structural and functional commonalities into low-molecular-weight compounds that, upon specific derivatization, allow the synthesis of target family-biased compound arrays comprising active and selective compounds suitable for further hit-to-lead and lead-to-candidate progression. www.genomicsontarget.com /chg.asp   (3592 words)

C&EN: COVERSTORY - THE SMALL-MOLECULE APPROACH TO BIOLOGY Here, of course, the wild-type protein is used; it is the binding of a small molecule to the protein that results in a perturbation of function, either inhibition or activation. Using protein-binding screens, scientists at Pfizer identified a small molecule that stabilizes the folding of mutant forms of DNA-binding p53; these probes are illuminating the role of oncogenic mutations in cancer and the possibility of reversing their consequences through bio- physical means. In the sections of this perspective, I describe the use of small molecules that have illuminated life processes, the shortcomings of this type of research as a general approach, efforts to overcome these shortcomings, and an assessment of where we stand today. pubs.acs.org /cen/coverstory/8109/8109genomics.html   (6169 words)

C&EN: COVERSTORY - THE SMALL-MOLECULE APPROACH TO BIOLOGY Here, of course, the wild-type protein is used; it is the binding of a small molecule to the protein that results in a perturbation of function, either inhibition or activation. However, insights into their functional role in signaling were gained in early 2003 when a new apoptotic signaling oncoprotein was discovered as the target of a small-molecule modulator, which was brilliantly uncovered using another chemical genetic screen. Using protein-binding screens, scientists at Pfizer identified a small molecule that stabilizes the folding of mutant forms of DNA-binding p53; these probes are illuminating the role of oncogenic mutations in cancer and the possibility of reversing their consequences through bio- physical means. pubs.acs.org /cen/coverstory/8109/8109genomics.html   (6169 words)

C&EN: COVERSTORY - THE SMALL-MOLECULE APPROACH TO BIOLOGY Here, of course, the wild-type protein is used; it is the binding of a small molecule to the protein that results in a perturbation of function, either inhibition or activation. Using protein-binding screens, scientists at Pfizer identified a small molecule that stabilizes the folding of mutant forms of DNA-binding p53; these probes are illuminating the role of oncogenic mutations in cancer and the possibility of reversing their consequences through bio- physical means. These include the development of methods to profile biological states with small molecules; to identify the protein target of a small-molecule modulator identified in a phenotypic screen; and to understand the relationship between chemical and biological descriptors and, ultimately, chemical space and biological space. pubs.acs.org /cen/coverstory/8109/8109genomics.html   (6169 words)

Perturbation of the Nucleus: A Novel Hog1p-independent, Pkc1p-dependent Consequence of Hypertonic Shock in Yeast -- Nanduri and Tartakoff 12 (6): 1835 -- Molecular Biology of the Cell Fpr3p was localized 0 and 10 min after hypertonic shock in YPH500 cells carrying either the control plasmid pRS314 or a high-copy plasmid (pPS1739) for expression of Hog1p. Hypertonic shock quickly causes water efflux across the plasma membrane and corresponding fluxes across intracellular membranes. The Pkc1p pathway is not known to be stimulated by hypertonic shock in yeast, but it is stimulated by hypotonic shock. www.molbiolcell.org /cgi/content/full/12/6/1835   (3969 words)

Complex system - Wikipedia, the free encyclopedia Complex systems is therefore often used as a broad term encompassing a research approach to problems in many diverse disciplines including neuroscience, meteorology, physics, computer science, artificial life, evolutionary computation, economics, earthquake prediction, heart cell synchronisation, immune systems, reaction-diffusion systems, molecular biology, epilepsy and enquiries into the nature of living cells themselves. In practical terms, this means a small perturbation may cause a large effect (see butterfly effect), a proportional effect, or even no effect at all. In dynamical systems terminology, such a qualitative change is known as a bifurcation and non-linearity is required for a system to exhibit it. en.wikipedia.org /wiki/Complex_system   (1336 words)

CBofN - Glossary - E Evolutionary Stable Strategy (ESS) In game theory and biology, a strategy that, when possessed by an entire population, results in an equilibrium such that mutation of the strategy can never result in an improvement for an individual. Equilibrium A state of a system that, if not subjected to perturbation, will remain unchanged. Ergodic The property of a dynamical system such that all regions of a state space are visited with similar frequency and that all regions will be revisited (within a small proximity) if given enough time. mitpress.mit.edu /books/FLAOH/cbnhtml/glossary-E.html   (1336 words)

Person's Resume The results of the study clearly reveals that bottom trawling causes heavy perturbation on the marine ecosystem by chanting the physico chemical parameters, disturbing the sediment structure besides killing and damaging the benthic organisms. Taking classes for the Masters degree students of Industrial fisheries in the Cochin University of Science and Technology on the subjects Fish Biology, Fisheries ecology, Aquaculture and fishing craft and gear technology both theory and practical. Guest Lecture in Fisheries at the School of Industrial Fisheries, Cochin University of Science and Technology, Kerala. aquanic.org /resume/resinfo.asp?resid=1794   (1781 words)

Chloroplast DNA methylation and inheritance in Chlamydomonas -- Umen and Goodenough 15 (19): 2585 -- Genes and Development Wurtz, E.A., Boynton, J.E., and Gillham, N.W. Perturbation of chloroplast DNA amounts and chloroplast DNA gene transmission in Chlamydomonas reinhardtii by 5-fluorodeoxyuridine. Ahmad, I. and Rao, D.N. Chemistry and biology of DNA methyltransferases. A chloroplast-resident DNA methyltransferase is responsible for hypermethylation of chloroplast genes in Chlamydomonas maternal gametes www.genesdev.org /cgi/content/full/15/19/2585   (1781 words)

Effects of Perturbation of Cell Polarity on Molecular Markers of Sperm-Egg Binding Sites on Mouse Eggs -- Evans et al. 62 (1): 76 -- Biology of Reproduction Articles by Evans, J. Articles by Schultz, R. Biology of Reproduction 62, 76-84 (2000) Correspondence: Janice P. Evans, Division of Reproductive Biology, Articles by Evans, J. Articles by Schultz, R. Articles citing this Article www.biolreprod.org /cgi/content/abstract/62/1/76   (573 words)

Scientific Discovery through Advanced Computing (SciDAC) -- Biology and Environment Project Algorithms and software will be developed for several correlation schemes including MP perturbation theory, coupled cluster theory, and Brueckner theory. This will allow extremely high accuracy to be achieved while dramatically reducing the number of basis functions needed to describe the electron–electron correlation cusp and, thus, dramatically reducing the computational costs, which typically depend on the number of basis functions to the fifth or higher power. Efficient methods will be developed for incorporating dynamical electron correlation effects into molecular quantum mechanics by using basis sets that depend explicitly on the inter-electronic distance (R12). www.osti.gov /scidac/bes/projects/schaefer.html   (166 words)

Derangement of microtubule arrays in interphase and mitotic PtK2 cells treated with deuterium oxide (heavy water) -- Lamprecht et al. 98 (4): 463 -- Journal of Cell Science deuterium oxide and suggest that, apart from perturbation of MT polymerization, it could also encompass disturbances in MT reorganization, German Cancer Research Center, Institute of Cell and Tumor Biology, Heidelberg, Germany. Derangement of microtubule arrays in interphase and mitotic PtK2 cells treated with deuterium oxide (heavy water)-- Lamprecht et al. jcs.biologists.org /cgi/content/abstract/98/4/463   (166 words)

Advances in the Philosophy of Technology Deterministic chaos in the sense of exponential instability of dynamical systems is a quantitatively severe limitation of the long-time predictability of deterministic systems, because any sort of error, deviation, or perturbation is amplified exponentially, see Eq. The notion of deterministic chaos is frequently used in an increasing number of scientific as well as non-scientific contexts, ranging from mathematics and the physics of dynamical systems to all sorts of complicated time evolutions, e.g., in chemistry, biology, physiology, economics, sociology, and even psychology. Deterministic equations of bounded motion with few degrees of freedom give rise to complicated solution trajectories, (i) which do not exhibit any quasi-periodicities without any external disturbances, and (ii) which are extremely, i.e., exponentially, sensitive to small deviations in the initial conditions. scholar.lib.vt.edu /ejournals/SPT/v4n2/LEIBER.html   (166 words)

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