Resource Type

Regulon inference without arbitrary thresholds: three levels of sensitivity

Reconstruction of transcriptional regulatory networks is one of the major challenges facing the bioinformatics community in view of constantly growing number of complete genomes. The comparative genomics approach has been successfully used for the analysis of the transcriptional regulation of many metabolic systems in various bacteria taxa. The key step in this approach is given a position weight matrix, find an optimal threshold for the search of potential binding sites in genomes. In our previous work we proposed an approach for automatic selection of TFBS score threshold coupled with inference of regulon content. In this study we developed two modifications of this approach providing two additional levels of sensitivity.
Date: November 15, 2010
Creator: Dubchak, Pavel Novichkov, Elena Stavrovskaya, Dmitry Rodionov, Andrey Mironov, Inna; Rodionov, Dmitry; Mironov, Andrey; Dubchak, Inna & Novichkov, P.S.
System: The UNT Digital Library

Fireside Corrosion in Oxyfuel Combustion Environments,”

Oxy-fired or low-nitrogen combustion is a technology that will facilitate CO2 capture while also reducing NOx formation and which offers the opportunity for near-zero emissions coal combustion via either the retrofit of existing power plants, or the design of new power plants. Because of the opportunity to improve the environmental performance of the existing coal fired fleet (currently approximately 800 GW of capacity in the US alone) and the potential for converting these plants from air-blown to oxy-fired burners, NETL’s Office of Research & Development is focusing its attention on the impact of retrofitting existing plants on the service life of the materials of construction
Date: March 1, 2009
Creator: Holcomb, G. R.; Matthes, S. A.; Rawers, J. C. & Covino, B. S., Jr.
System: The UNT Digital Library

Effect of Increasing Nitrogen Deposition on Soil Microbial Communities

Increasing nitrogen deposition, increasing atmospheric CO2, and decreasing biodiversity are three main environmental changes occurring on a global scale. The BioCON (Biodiversity, CO2, and Nitrogen) ecological experiment site at the University of Minnesota's Cedar Creek Ecosystem Science Reserve started in 1997, to better understand how these changes would affect soil systems. To understand how increasing nitrogen deposition affects the microbial community diversity, heterogeneity, and functional structure impact soil microbial communities, 12 samples were collected from the BioCON plots in which nitrogenous fertilizer was added to simulate the effect of increasing nitrogen deposition and 12 samples from without added fertilizer. DNA from the 24 samples was extracted using a freeze-grind protocol, amplified, labeled with a fluorescent dye, and then hybridized to GeoChip, a functional gene array containing probes for genes involved in N, S and C cycling, metal resistance and organic contaminant degradation. Detrended correspondence analysis (DCA) of all genes detected was performed to analyze microbial community patterns. The first two axes accounted for 23.5percent of the total variation. The samples fell into two major groups: fertilized and non-fertilized, suggesting that nitrogenous fertilizer had a significant impact on soil microbial community structure and diversity. The functional gene numbers detected in fertilized …
Date: May 17, 2010
Creator: Xiao, Shengmu; Xue, Kai; He, Zhili; VanNostrand, Joy D.; Liu, Jianshe; Hobbie, Sarah E. et al.
System: The UNT Digital Library

Reference set of regulons in Desulfovibrionales inferred by comparative genomics approach

in this study, we carried out large-scale comparative genomics analysis of regulatory interactions in Desulfovibrio vulgaris and 12 related genomes from Desulfovibrionales order using our recently developed web server RegPredict (http://regpredict.lbl.gov). An overall reference collection of 26 Desulfovibrionales regulogs can be accessed through RegPrecise database (http://regpredict.lbl.gov).
Date: November 15, 2010
Creator: Kazakov, Alexey E.; Rodionov, Dmitry A.; Price, Morgan N.; Arkin, Adam P.; Dubchak, Inna & Novichkov, Pavel S.
System: The UNT Digital Library

In silico discovery of the dormancy regulons in a number of Actinobacteria genomes

Mycobacterium tuberculosis is a dangerous Actinobacteria infecting nearly one third of the human population. It becomes dormant and phenotypically drug resistant in response to stresses. An important feature of the M. tuberculosis pathogenesis is the prevalence of latent infection without disease, making understanding of the mechanisms used by the bacteria to exist in this state and to switch to metabolically active infectious form a vital problem to consider. M. tuberculosis dormancy is regulated by the three-component regulatory system of two kinases (DosT and DevS) and transcriprional regulator (DevR). DevR activates transcription of a set of genes, which allow the bacteria to survive long periods of anaerobiosis, and may be important for long-term survival within the host during latent infection. The DevR-regulon is studied experimentally in M. tuberculosis and few other phylogenetically close Mycobacteria spp. As many other two-component systems, the devRS operon is autoregulated. However, the mechanism of the dormancy is not completely clear even for these bacteria and there is no data describing the dormancy regulons in other species.
Date: November 16, 2010
Creator: Gerasimova, Anna; Dubchak, Inna; Arkin, Adam & Gelfand, Mikhail
System: The UNT Digital Library

Investigation of the carbon dioxide sorption capacity and structural deformation of coal

Due to increasing atmospheric CO2 concentrations causing the global energy and environmental crises, geological sequestration of carbon dioxide is now being actively considered as an attractive option to mitigate greenhouse gas emissions. One of the important strategies is to use deep unminable coal seams, for those generally contain significant quantities of coal bed methane that can be recovered by CO2 injection through enhanced coal bed natural gas production, as a method to safely store CO2. It has been well known that the adsorbing CO2 molecules introduce structural deformation, such as distortion, shrinkage, or swelling, of the adsorbent of coal organic matrix. The accurate investigations of CO2 sorption capacity as well as of adsorption behavior need to be performed under the conditions that coals deform. The U.S. Department of Energy-National Energy Technology Laboratory and Regional University Alliance are conducting carbon dioxide sorption isotherm experiments by using manometric analysis method for estimation of CO2 sorption capacity of various coal samples and are constructing a gravimetric apparatus which has a visual window cell. The gravimetric apparatus improves the accuracy of carbon dioxide sorption capacity and provides feasibility for the observation of structural deformation of coal sample while carbon dioxide molecules interact with coal …
Date: January 1, 2010
Creator: Hur, Tae-Bong; Fazio, James; Romanov, Vyacheslav & Harbert, William
System: The UNT Digital Library

2011 DOE Occupational Radiation Exposure Summary poster

This poster graphically presents data pertaining to occupational radiation exposure in terms of total effective dose (TED), primarily, but also collective dose and average measureable dose.
Date: December 12, 2012
Creator: Oak Ridge Associated Universities
System: The UNT Digital Library

Analysis of a US Department of Energy Emergent Technologies Cohort

As a major user of engineered nanoparticles, the U.S. Department of Energy (DOE) uses various methods to monitor the health of emergent technologies workers (ETW) who handle or could potentially be exposed to unbound engineered nanoparticles (UNP). Using data from DOE’s Illness and Injury Surveillance Program (IISP), Oak Ridge Associated Universities (ORAU) created a registry of ETWs. IISP currently tracks 125,000 workers at 14 DOE facilities. Workers in IISP, who were classified as ETWs, were placed in a separate database using Microsoft Access. Using SAS (Version 9.2; Cary, NC), the health status of this cohort was analyzed by a variety of different variables such as age, gender, occupation, years of employment, number of years classified as an ETW, and site.
Date: December 12, 2012
Creator: Strader, Cliff; Ellis, Elizabeth; Barrie, Martin D; Tankersley, William & Wallace, Phil
System: The UNT Digital Library

Rapid Field Measurement of Dissolved Inorganic Carbon Based on CO{sub 2} Analysis

Dissolved inorganic carbon (DIC) is commonly measured in water and is an important parameter for understanding carbonate equilibrium, carbon cycling, and water-rock interaction. While accurate measurements can be made in the analytical laboratory, we have developed a rapid, portable technique that can be used to obtain accurate and precise data in the field as well.
Date: January 1, 2012
Creator: VESPER, DJ, Edenborn, Harry
System: The UNT Digital Library

Hydrogel Tracer Beads: The Development, Modification, and Testing of an Innovative Tracer for Better Understanding LNAPL Transport in Karst Aquifers

The goal of this specific research task is to develop proxy tracers that mimic contaminant movement to better understand and predict contaminant fate and transport in karst aquifers. Hydrogel tracer beads are transported as a separate phase than water and can used as a proxy tracer to mimic the transport of non-aqueous phase liquids (NAPL). They can be constructed with different densities, sizes & chemical attributes. This poster describes the creation and optimization of the beads and the field testing of buoyant beads, including sampling, tracer analysis, and quantitative analysis. The buoyant beads are transported ahead of the dissolved solutes, suggesting that light NAPL (LNAPL) transport in karst may occur faster than predicted from traditional tracing techniques. The hydrogel beads were successful in illustrating this enhanced transport.
Date: January 1, 2012
Creator: Amanda Laskoskie, Harry M. Edenborn, and Dorothy J. Vesper
System: The UNT Digital Library

The Modernized Metric System: the International System of Units (SI) and its Relationship to U.S. Customary Units

Chart of the six base units of the modernized metric system, including length, time, mass, temperature, electric current, and luminous intensity.
Date: 1968
Creator: United States. National Bureau of Standards.
System: The UNT Digital Library

The Modernized Metric System: the International System of Units-SI

Revised wall chart of the seven base units of the modernized metric system, including length, mass, time, electric current, temperature, amount of substance, luminous intensity, and plane angle.
Date: August 1981
Creator: United States. National Bureau of Standards.
System: The UNT Digital Library

A Dad...Teaches, Supports, Plays, Listens, Loves

Bilingual poster depicting a father hugging a child and reading "A Dad...Teaches, Supports, Plays, Listens, Loves," and "Thank you to the unsung heroes of children's lives...loving supportive parents." One side is in English and the other side is in Spanish.
Date: [2002..2015]
Creator: Texas. Department of Health.
System: The Portal to Texas History

Piensa en ROSA cuando compres estos alimentos especificos

Flyer advertising WIC approved items. The left side of the flyer shows a grocery store shelf with pink WIC tags next to the prices of the items shown.
Date: January 2015
Creator: Texas WIC
System: The Portal to Texas History

La Alimentacion de Su Bebe Prematuro, Paso a Paso

Brief guide on feeding for premature babies. Guide is broken into age months with acceptable foods to try sorted according to eating and developmental milestones.
Date: May 2011
Creator: Texas. Department of State Health Services.
System: The Portal to Texas History

I'm a Proud Dad: Breastmilk Keeps My Baby Strong

Bilingual poster promoting breastmilk feeding in infants and showing happy fathers interacting with their children. On the top is English and the bottom is Spanish.
Date: 2015
Creator: Texas. Bureau of WIC Nutrition.
System: The Portal to Texas History

WIC Helps You Make Amazing Kids

Bilingual poster advertising Texas WIC website. On the top is English and on the bottom is Spanish.
Date: 2015
Creator: Texas. Bureau of WIC Nutrition.
System: The Portal to Texas History

Get Smart!

Poster announcing replacement of Century Link and IDL with Adobe Connect learning management system.
Date: 2014
Creator: Texas. Bureau of WIC Nutrition.
System: The Portal to Texas History

Enfoquese en los Habitos Saludables, Evite los Problemas, y Dele a Su Bebe Una Dieta Saludable

Flyer with information about keeping babies healthy.
Date: unknown
Creator: unknown
System: The Portal to Texas History

Think PINK when shopping for these specific foods

Flyer advertising WIC approved items with the text, "Think Pink when shopping for these specific foods." The left side of the flyer shows a grocery store shelf with pink WIC tags next to the prices of the items shown.
Date: 2015
Creator: Texas. Bureau of WIC Nutrition.
System: The Portal to Texas History

Anisotropic Flow in the Forward Directions

The STAR Forward TPCs (FTPCs) extend the STAR acceptance for charged particles into the region 2.5 < |eta| < 4.0. We see the first signal of directed flow (v{sub 1}) at RHIC energies. While v{sub 1} is consistent with zero in the central rapidity region it rises up to 2 percent at pseudorapidities of +-4. With this signal we can verify that elliptic flow (v{sub 2}) is in-plane. The measurement of v{sub 2} in the FTPCs confirms the falloff by a factor of about 2 compared to mid-rapidity previously seen by PHOBOS [1]. In addition we look for higher harmonics (v{sub n}, n>2) where in the case of v{sub 4} a signal is seen in the STAR TPC. With the available statistics for the FTPCs we give an upper limit for these harmonics, since the results agree with zero within the errors. However, the falloff of v{sub 4} from mid-rapidity to forward-rapidities appears to be faster than for v{sub 2}.[1] B.B. Back. Phys. Rev. Lett. 89, 222301 (2002)
Date: March 9, 2004
Creator: Oldenburg, Markus D. & Putschke, Jorn
System: The UNT Digital Library

"And Justice For All"

Poster reading "And Justice for All" in large print above an image of the Statue of Liberty on a background of a crowd. There is text in English and Spanish at the bottom of the poster, stating that the United States Department of Agriculture is prohibited from discriminating on the basis of race, gender, color, national origin, age, or disability.
Date: July 2011
Creator: Texas. Department of State Health Services.
System: The Portal to Texas History

Double Handwash: Single Handwash...Steps 1-4, Repeat For Double Handwash

A poster telling employees of restaurants and other businesses handling food they must wash their before returning to work and illustrating how to double hand wash.
Date: April 2011
Creator: Texas. Department of State Health Services.
System: The Portal to Texas History