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FINDING REGULATORY ELEMENTS USING JOINT LIKELIHOODS FOR SEQUENCE AND EXPRESSION PROFILE DATA.

Description: A recent, popular method of finding promoter sequences is to look for conserved motifs up-stream of genes clustered on the basis of expression data. This method presupposes that the clustering is correct. Theoretically, one should be better able to find promoter sequences and create more relevant gene clusters by taking a unified approach to these two problems. We present a likelihood function for a sequence-expression model giving a joint likelihood for a promoter sequence and its corresponding expression levels. An algorithm to estimate sequence-expression model parameters using Gibbs sampling and Expectation/Maximization is described. A program, called kimono, that implements this algorithm has been developed and the source code is freely available over the internet.
Date: August 20, 2000
Creator: IAN HOLMES, UC BERKELEY, CA, WILLIAM J. BRUNO, LANL
Partner: UNT Libraries Government Documents Department

Tritium stripping in a nitrogen glove box using palladium/zeolite and SAES St 198{trademark}

Description: Glove box clean-up experiments were conducted in a nitrogen glove box using palladium deposited on zeolite (Pd/z) and a SAES St 198{trademark} getter as tritium stripping materials. Protium/deuterium samples spiked with tritium were released into a 620 liter glove box to simulate tritium releases in a 10,500 liter glove box. The Pd/z and the SAES St 198{trademark} stripper beds produced a reduction in tritium activity of approximately two to three orders of magnitude and glove box clean-up was limited by a persistent background tritium activity level. Attempts to significantly reduce the glove box activity to lower levels without purging were unsuccessful.
Date: January 1, 1995
Creator: Klien, J.E. & Wermer, J.R.
Partner: UNT Libraries Government Documents Department

Rhenium Radioisotopes for Therapeutic Radiopharmaceutical Development

Description: The availability of therapeutic radioisotopes at reasonable costs is important for applications in nuclear medicine, oncology and interventional cardiology, Rhenium-186 (Re-186) and rhenium-1 88 (Re-188) are two reactor-produced radioisotope which are attractive for a variety of therapeutic applications, Rhenium-186 has a half-life of 90 hours and decays with emission of a &particle with a maximum energy of 1.08 MeV and a 135 keV (9Yo) gamma which permits imaging. In contrast, Re- 188 has a much shorter half-life of 16.9 hours and emits a p-particle with a much higher energy of 2.12 MeV (Em=) and a 155 keV gamma photon (15Yo) for imaging. While Re-186 is unavailable from a generator system and must be directly produced in a nuclear reactor, Re-188 can also be directly produced in a reactor with high specific activity, but is more conveniently and cost-effectively available as carrier-free sodium perrhenate by saline elution of the alumina-based tungsten-188 (W1 88)/Re-l 88 generator system [1-2]. Since a comprehensive overviewofRe-186 and Re-188 therapeutic agents is beyond the scope of this &tended Abstrac4 the goal is to provide key examples of various agents currently in clinical use and those which are being developed for important clinical applications.
Date: January 18, 1999
Creator: Beets, A.L.; Knapp, F.F., Jr.; Kropp, J.; Lin, W.-Y.; Pinkert, J. & Wang, S.-Y.
Partner: UNT Libraries Government Documents Department

Taxonomic and developmental aspects of radiosensitivity

Description: Considerable information is available on the effects of radioactivity on adult and early life stages of organisms. The preponderance of data is on mortality after a single irradiation with relatively high doses. Unfortunately, because experiments were carried out under different conditions and for different time periods, the validity of comparing the results from different laxonomic groups is questionable. In general, the conclusions are that there is a relationship (1) between radioresistance to high doses of acute radiation and taxonomy of the organism, primitive forms being more radioresistant than complex vertebrates and (2) between radiosensitivity and developmental stage, early life stages being more sensitive than later stages. The first conclusion may be related to the capability of the organism to repopulate cells and to differentiate and redifferentiate them; the second to the rate of cellular division and to the degree of differentiation. In question, however, is the relevance of the responses from high levels of acute radiation to that of the responses to long-term exposure to low levels of radiation, which are ecologically of more interest. Data from studies of the effects of acute and chronic exposure on development of gametes and zygotes indicate that, for some fishes and invertebrates, responses at the cellular and molecular levels show effect levels comparable to those observed in some mammals. Acute doses between 0,05 and 0.5Cy and dose rates between 0.02 to 0.2mCy/h appear to define critical ranges in which detrimental effects on fertility are first observed in a variety of radiosensitive organisms. To better understand inherent radiosensitivity, we need more information on the ability of cells to repopulate and differentiate and to prevent or repair damage to biological critical molecules, such as DNA, because these factors may alter significantly organisms` responses to radiation.
Date: November 1, 1996
Creator: Harrison, F.L. & Anderson, S.L.
Partner: UNT Libraries Government Documents Department

Application of Ultrasonic Techniques for Brain Injury Diagnosis

Description: In this work, we evaluate methods for detecting brain injury using ultrasound. We have used simulations of ultrasonic fields in the head to model the phase distortion of the skull. In addition we present experimental data from the crania of large animals. The experimental data help us understand and evaluate the performance of different transducers in acquiring the backscatter data from the brain through the skull. Both the simulations and acquired data illustrate the superiority of lower-frequency (<= 1 MHz) ultrasonic fields for transcranial acquisition of signals from inside the brain. Additionally, the experimental work shows that the higher-frequency (5 MHz) ultrasound can also be useful in acquiring clean nearfield data to help detect the position of the inner boundary of the skull.
Date: September 19, 1999
Creator: Kasili, P. M.; Mobley, J.; Norton, S. J. & Vo-Dinh, T.
Partner: UNT Libraries Government Documents Department

Data Evaluation for 56Co epsilon + beta+ Decay

Description: Recommended values for nuclear and atomic data pertaining to the {var_epsilon} + {beta}{sup +} decay of {sup 56}Co are provided here, followed by comments on evaluation procedures and a summary of all available experimental data. {sup 56}Co is a radionuclide which is potentially very useful for Ge detector efficiency calibration because it is readily produced via the {sup 56}Fe(p,n) reaction, its half-life of 77.24 days is conveniently long, and it provides a number of relatively strong {gamma} rays with energies up to {approx}3500 keV. The transition intensities recommended here for the strongest lines will be included in the forthcoming International Atomic Energy Agency Coordinated Research Programme document ''Update of X- and Gamma-ray Decay Data Standards for Detector Calibration and Other Applications'', and the analysis for all transitions along with relevant atomic data have been provided to the Decay Data Evaluation Project.
Date: February 28, 2005
Creator: Baglin, Coral M. & MacMahon, T. Desmond
Partner: UNT Libraries Government Documents Department

Environmental analysis of endocrine disrupting effects from hydrocarbon contaminants in the ecosystem. 1998 annual progress report

Description: 'The objective of this project is to determine how environmental contaminants, namely hydrocarbons, can act as hormones or anti-hormones (i.e., environmental hormones) in different species present in aquatic ecosystems. Species of particular focus are those which can serve as sentinel species (e.g., amphibians) and, thus, provide early warning signals for more widespread impacts on an ecosystem and its wildlife and human inhabitants. This reports the progress of 1.5 years of a three-year grant awarded to the Tulane/Xavier Center for Bioenvironmental Research (CBR). A growing body of evidence suggests that chemicals in the environment can disrupt the endocrine system of animals (i.e., wildlife and humans) and adversely impact the development of these species. Because of the multitude of known endocrine-disrupting chemicals and the numerous industrial and government sectors producing these chemicals, almost every federal agency has initiated research on the endocrine effects of chemicals relevant to their operations. This study represents the Department of Energy (DOE) Basic Energy Sciences'' only research on the impacts of endocrine-disrupting chemicals. The activities employed by this project to determine these impacts include development of biotechnology screens (in vitro), animal screens (in vivo), and other analyses of aquatic ecosystem biomarkers of exposure. The results from this study can elucidate how chemicals in the environment, including those from DOE activities, can signal (and alter) the development of a number of species in aquatic ecosystems. These signals can have detrimental impacts not only on an organismal level, but also on community, population, and entire ecosystem levels, including humans.'
Date: June 1, 1998
Creator: McLachlan, J.
Partner: UNT Libraries Government Documents Department

Plutonium storage phenomenology

Description: Plutonium has been produced, handled, and stored at Department of Energy (DOE) facilities since the 1940s. Many changes have occurred during the last 40 years in the sources, production demands, and end uses of plutonium. These have resulted in corresponding changes in the isotopic composition as well as the chemical and physical forms of the processed and stored plutonium. Thousands of ordinary food pack tin cans have been used successfully for many years to handle and store plutonium. Other containers have been used with equal success. This paper addressees the exceptions to this satisfactory experience. To aid in understanding the challenges of handling plutonium for storage or immobilization the lessons learned from past storage experience and the necessary countermeasures to improve storage performance are discussed.
Date: December 1, 1995
Creator: Szempruch, R.
Partner: UNT Libraries Government Documents Department

A mathematical approach to optimal selection of dose values in the additive dose method of ERP dosimetry

Description: Additive dose methods commonly used in electron paramagnetic resonance (EPR) dosimetry are time consuming and labor intensive. We have developed a mathematical approach for determining optimal spacing of applied doses and the number of spectra which should be taken at each dose level. Expected uncertainitites in the data points are assumed to be normally distributed with a fixed standard deviation and linearity of dose response is also assumed. The optimum spacing and number of points necessary for the minimal error can be estimated, as can the likely error in the resulting estimate. When low doses are being estimated for tooth enamel samples the optimal spacing is shown to be a concentration of points near the zero dose value with fewer spectra taken at a single high dose value within the range of known linearity. Optimization of the analytical process results in increased accuracy and sample throughput.
Date: January 1, 1996
Creator: Hayes, R.B.; Haskell, E.H. & Kenner, G.H.
Partner: UNT Libraries Government Documents Department

The use of microdosimetric techniques in radiation protection measurements

Description: A major objective of radiation protection is to determine the dose equivalent for routine radiation protection applications. As microdosimetry has developed over approximately three decades, its most important application has been in measuring radiation quality, especially in radiation fields of unknown or inadequately known energy spectra. In these radiation fields, determination of dose equivalent is not straightforward; however, the use of microdosimetric principles and techniques could solve this problem. In this paper, the authors discuss the measurement of lineal energy, a microscopic analog to linear energy transfer, and demonstrate the development and implementation of the variance-covariance method, a novel method in experimental microdosimetry. This method permits the determination of dose mean lineal energy, an essential parameter of radiation quality, in a radiation field of unknown spectrum, time-varying dose rate, and high dose rate. Real-time monitoring of changes in radiation quality can also be achieved by using microdosimetric techniques.
Date: January 1, 1997
Creator: Chen, J.; Hsu, H.H.; Casson, W.H. & Vasilik, D.G.
Partner: UNT Libraries Government Documents Department

Post-accident inhalation exposure and experience with plutonium

Description: This paper addresses the issue of inhalation exposure immediately afterward and for a long time following a nuclear accident. For the cases where either a nuclear weapon burns or explodes prior to nuclear fission, or at locations close to a nuclear reactor accident containing fission products, a major concern is the inhalation of aerosolized plutonium (Pu) particles producing alpha-radiation. We have conducted field studies of Pu- contaminated real and simulated accident sites at Bikini, Johnston Atoll, Tonopah (Nevada), Palomares (Spain), Chernobyl, and Maralinga (Australia).
Date: June 1, 1998
Creator: Shinn, J
Partner: UNT Libraries Government Documents Department

Radiation risk management at DOE accelerator facilities

Description: The DOE accelerator contractors have been discussing among themselves and with the Department how to improve radiation safety risk management. This activity-how to assure prevention of unplanned high exposures-is separate from normal exposure management, which historically has been quite successful. The ad-hoc Committee on the Accelerator Safety Order and Guidance [CASOG], formed by the Accelerator Section of the HPS, has proposed a risk- based approach, which will be discussed. Concepts involved are risk quantification and comparison (including with non-radiation risk), passive and active (reacting) protection systems, and probabilistic analysis. Different models of risk management will be presented, and the changing regulatory environment will also be discussed..
Date: January 1, 1997
Creator: Dyck, O.B. van
Partner: UNT Libraries Government Documents Department

Radiation dose estimates for radiopharmaceuticals

Description: Tables of radiation dose estimates based on the Cristy-Eckerman adult male phantom are provided for a number of radiopharmaceuticals commonly used in nuclear medicine. Radiation dose estimates are listed for all major source organs, and several other organs of interest. The dose estimates were calculated using the MIRD Technique as implemented in the MIRDOSE3 computer code, developed by the Oak Ridge Institute for Science and Education, Radiation Internal Dose Information Center. In this code, residence times for source organs are used with decay data from the MIRD Radionuclide Data and Decay Schemes to produce estimates of radiation dose to organs of standardized phantoms representing individuals of different ages. The adult male phantom of the Cristy-Eckerman phantom series is different from the MIRD 5, or Reference Man phantom in several aspects, the most important of which is the difference in the masses and absorbed fractions for the active (red) marrow. The absorbed fractions for flow energy photons striking the marrow are also different. Other minor differences exist, but are not likely to significantly affect dose estimates calculated with the two phantoms. Assumptions which support each of the dose estimates appears at the bottom of the table of estimates for a given radiopharmaceutical. In most cases, the model kinetics or organ residence times are explicitly given. The results presented here can easily be extended to include other radiopharmaceuticals or phantoms.
Date: April 1996
Creator: Stabin, M. G.; Stubbs, J. B. & Toohey, R. E.
Partner: UNT Libraries Government Documents Department

Experimental assessment of absorbed dose to mineralized bone tissue from internal emitters: An electron paramagnetic resonance study

Description: EPR resonances attributable to radiation-induced centers in hydroxyapatite were not detectable in bone samples supplied by the USTUR. These centers are the basis for imaging and dose assessment. Presumable, the short range of the alpha particles emitted precluded the formation of appreciable amounts of hydroxyapatite centers. However, one bone sample did offer a suggestion of hydroxyapatite centers and newly-developed methods to extract this information will be pursued.
Date: December 31, 1994
Creator: Desrosiers, M.F.
Partner: UNT Libraries Government Documents Department

Environmental assessment for amendments to 10 CFR Part 835

Description: This proposed amendment will modify the scope of 10 CFR 835 to explicitly exclude the transportation of radioactive material conducted in conformance with the Department of Transportation regulations, certain activities conducted on foreign soil, add standards for area posting and sealed radioactive source control, and add a removable surface radioactivity value for tritium.
Date: February 1, 1997
Partner: UNT Libraries Government Documents Department

Applied ALARA techniques

Description: The presentation focuses on some of the time-proven and new technologies being used to accomplish radiological work. These techniques can be applied at nuclear facilities to reduce radiation doses and protect the environment. The last reactor plants and processing facilities were shutdown and Hanford was given a new mission to put the facilities in a safe condition, decontaminate, and prepare them for decommissioning. The skills that were necessary to operate these facilities were different than the skills needed today to clean up Hanford. Workers were not familiar with many of the tools, equipment, and materials needed to accomplish:the new mission, which includes clean up of contaminated areas in and around all the facilities, recovery of reactor fuel from spent fuel pools, and the removal of millions of gallons of highly radioactive waste from 177 underground tanks. In addition, this work has to be done with a reduced number of workers and a smaller budget. At Hanford, facilities contain a myriad of radioactive isotopes that are 2048 located inside plant systems, underground tanks, and the soil. As cleanup work at Hanford began, it became obvious early that in order to get workers to apply ALARA and use hew tools and equipment to accomplish the radiological work it was necessary to plan the work in advance and get radiological control and/or ALARA committee personnel involved early in the planning process. Emphasis was placed on applying,ALARA techniques to reduce dose, limit contamination spread and minimize the amount of radioactive waste generated. Progress on the cleanup has,b6en steady and Hanford workers have learned to use different types of engineered controls and ALARA techniques to perform radiological work. The purpose of this presentation is to share the lessons learned on how Hanford is accomplishing radiological work.
Date: February 5, 1998
Creator: Waggoner, L.O.
Partner: UNT Libraries Government Documents Department

Alpha characterization of concrete surfaces at Decontamination & Decommissioning (D&D) sites

Description: Waste minimization and worker protection at D&D sites requires continual and extensive characterization for radioactive contamination. Contamination detectors that are sensitive, rugged, fast, and capable of covering large areas are needed. The concrete surface monitor (CSM) developed at LANL supports both characterization and waste minimization efforts at D&D sites containing large concrete surfaces and structures of different forms and shapes. This report describes the CSM design and the results of several field experiments.
Date: February 1, 1995
Creator: Vu, T.Q.; Rawool-Sullivan, M.W.; Koster, J.; Stout, D. & Beasinger, A.
Partner: UNT Libraries Government Documents Department

Laser welding and collagen crosslinks

Description: Strength and stability of laser-welded tissue may be influenced, in part, by effects of laser exposure on collagen crosslinking. We therefore studied effects of diode laser exposure (805 nm, 1-8 watts, 30 seconds) + indocyanine green dye (ICG) on calf tail tendon collagen crosslinks. Effect of ICG dye alone on crosslink content prior to laser exposure was investigated; unexpectedly, we found that ICG-treated tissue had significantly increased DHLNL and OHP, but not HLNL. Laser exposure after ICG application reduced elevated DHLNL and OHP crosslink content down to their native levels. The monohydroxylated crosslink HLNL was inversely correlated with laser output (p<0.01 by linear regression analysis). DHLNL content was highly correlated with content of its maturational product, OHP, suggesting that precursor-product relations are maintained. We conclude that: (1)ICG alone induces DHLNL and OHP crosslink formation; (2)subsequent laser exposure reduces the ICG-induced crosslinks down to native levels; (3)excessive diode laser exposure destroys normally occurring HLNL crosslinks.
Date: February 20, 1997
Creator: Reiser, K.M.; Last, J.A.; Small, W. IV; Maitland, D.J.; Heredia, N.J.; Da Silva, L.B. et al.
Partner: UNT Libraries Government Documents Department

Improved Evolutionary Hybrids for Flexible Ligand Docking in Autodock

Description: In this paper we evaluate the design of the hybrid evolutionary algorithms (EAs) that are currently used to perform flexible ligand binding in the Autodock docking software. Hybrid EAs incorporate specialized operators that exploit domain-specific features to accelerate an EA's search. We consider hybrid EAs that use an integrated local search operator to reline individuals within each iteration of the search. We evaluate several factors that impact the efficacy of a hybrid EA, and we propose new hybrid EAs that provide more robust convergence to low-energy docking configurations than the methods currently available in Autodock.
Date: January 27, 1999
Creator: Belew, R.K.; Hart, W.E.; Morris, G.M. & Rosin, C.
Partner: UNT Libraries Government Documents Department

Radiation protection in space

Description: The challenge for planning radiation protection in space is to estimate the risk of events of low probability after low levels of irradiation. This work has revealed many gaps in the present state of knowledge that require further study. Despite investigations of several irradiated populations, the atomic-bomb survivors remain the primary basis for estimating the risk of ionizing radiation. Compared to previous estimates, two new independent evaluations of available information indicate a significantly greater risk of stochastic effects of radiation (cancer and genetic effects) by about a factor of three for radiation workers. This paper presents a brief historical perspective of the international effort to assure radiation protection in space.
Date: February 1, 1995
Creator: Blakely, E. A. & Fry, R. J. M.
Partner: UNT Libraries Government Documents Department

Human radiation studies: Remembering the early years. Oral history of Julie Langham Grilly, February 3, 1995

Description: Julie Langham Grilly was interviewed by representatives of the US DOE Office of Human Radiation Experiments (OHRE) being the widow of Dr. Wright Langham, an investigator of principal interest of the committee. Her extensive experience with research at LANL was also of interest to the committee. Following a brief biographical sketch, Ms. Grilly relates her early postwar experience and her knowledge of Wright Langham`s involvement in animal research at Los Alamos, radiolanthanum tests on monkeys, Eniwetok tissue examinations, research on tritium uptake in humans, plutonium injections, tritium injections, EDTA, and etc. In addition to illuminating her former husband as a researcher and as an individual, she also relates her remembrances of Louis Hempelman, Enrico Fermi, Oppenheimer, Edward Teller, and many others.
Date: September 1, 1995
Partner: UNT Libraries Government Documents Department