gebhart/patrepeval huggingface dataset:
Visualization of Aggregation of the Rnq1 Prion Domain and Cross-seeding Interactions with Sup35NM (2006)

Factors triggering the de novo appearance of prions are still poorly understood. In yeast, the appearance of one prion, [PSI(+)], is enhanced by the presence of another prion, [PIN(+)]. The [PSI(+)] and [PIN(+)] prion-forming proteins are, respectively, the translational termination factor Sup35 and the yet poorly characterized Rnq1 protein that is rich in glutamines and asparagines. The prion domain of Rnq1 (RnqPD) polymerizes more readily in vitro than the full-length protein. As is typical for amyloidogenic proteins, the reaction begins with a lag phase, followed by exponential growth. Seeding with pre-formed aggregates significantly shortens the lag. A generic antibody against pre-amyloid oligomer inhibits the unseeded but not the self-seeded reaction. As revealed by electron microscopy, RnqPD polymerizes predominantly into spherical species that eventually agglomerate. We observed infrequent fiber-like structures in samples taken at 4 h of polymerization, but in overnight samples SDS treatment was required to reveal fibers among agglomerates. Polymerization reactions in which RnqPD and the prion domain of Sup35 (Sup35NM) cross-seed each other proceeded with a shortened lag that only depends weakly on the protein concentration. Cross-seeded Sup35NM fibers appear to sprout from globular RnqPD aggregates as seen by electron microscopy. RnqPD spherical aggregates appear to associate with and, later occlude, Sup35NM seed fibers. Our kinetic and morphological analyses suggest that, upon cross-seeding, the aggregate provides the surface on which oligomers of the heterologous protein nucleate their subsequent amyloid formation.
Intraspecific Hybridization as a Method of Breeding Kentucky Bluegrass (Poa pratemis L.) for Turf1 (1971)

Four selections and one cultivar of Kentucky bluegrass were crossed in various combinations. The most vigorous of the resulting hybrids were selected for evaluation of turf performance. After 2 years of observation in turf trials, the 17 most promising turf‐type hybrids were studied in greater detail. Eight hybrids were highly apomictic, and were equal or superior to their parents in a number of characteristics reflecting vegetative and reproductive vigor, disease resistance and turf performance. Many of the most promising hybrids appeared to be triploids resulting from the fertilization of unreduced female gametes.
Automated trajectory generation and airport selection for an emergency landing procedure of a CS23 aircraft (2017)

Aircraft in general aviation usually are operated in single pilot mode. Especially, in case of an incapability of the pilot to control the aircraft, an automated emergency procedure is desirable in order to reduce the risk of fatalities. The finding of a solution for an emergency landing maneuver includes preselecting possible landing sites with regard to the available aircraft capabilities and creation of feasible trajectories to these sites. A search tree in four-dimensional search space with an efficient implementation of a rapidly exploring random tree algorithm (RRT*) is created. The algorithm performance is increased by use of basic geometrical sets to construct the final route as a combination of Dubins path segments. To further reduce the route length, a gradient based local optimization routine is added after completion of the RRT* algorithm. At the moment of creation, terrain avoidance is verified and accordance with legal airspace structure is considered. An emergency procedure is created by combining a selected landing site and a flyable trajectory to this site. Each of these combinations is scored, and the most promising emergency landing procedure is chosen and delivered to flight management system of the aircraft. The flight management system controls a full-authority auto-flight system that is capable of performing en-route flight and auto-land procedures as well.
Transgender Males as Potential Donors for Uterus Transplantation: A Survey (2022)

Uterus transplantation is a new treatment for patients with absolute uterine infertility that is conducted in order to enable them to carry their own pregnancy. One of the limitations for its development is donor availability. Some transgender males undergo a hysterectomy in the gender-affirming surgery process, and might be interested in donating their uterus for transplantation. In this manuscript, we report the results of a survey designed to determine the attitudes of such individuals regarding donation of their uterus for this purpose. Over 32 years (January 1989-January 2021), 348 biological women underwent hysterectomy at our hospital as part of gender-affirming surgery. The survey was sent to 212 of the 348 prospective participants (for 136, we lacked postal or email addresses). Among the 212 surveys sent, we obtained responses from 94 individuals (44%): 83 (88.3%) stated they would agree to donate, of whom 44 would do so for altruism, 23 for the usefulness of the gesture and 16 out of understanding of the desire to have a child; 63 (75.5%) wanted to know the recipient and 45 (54.2%) wanted to know the result of the donation. According to this survey, a high proportion of transgender males surveyed would be interested in donating their uterus for uterus transplantation.
Use of Simulation to Understand the Effects of Task Complexity and Time Away on Clinical Confidence (2013)

In prior studies, mannequin-based simulation training has been used to help decrease student anxiety toward intimate clinical examinations. Using time away as an independent variable, the aim of this study was to assess decay of clinical confidence for four procedural tasks that vary in procedural complexity. Clinical confidence with intimate examinations, after a standardized mannequin-based simulation curriculum, decays over time. This decay is noted after two months of time away. Longer periods of time away did not show increased differences.
Large-scale joint rate and power allocation algorithm combined with admission control in cognitive radio networks (2009)

In this paper, we investigate a dynamic spectrum sharing problem for the centralized uplink cognitive radio networks using orthogonal frequency division multiple access. We formulate a large-scale joint rate and power allocation as an optimization problem under quality of service constraint for secondary users and interference constraint for primary users. We also suggest admission control to find a feasible solution to the optimization problem. To implement the resource allocation on a large-scale, we introduce a notion of using the conservative factors α and β depending on the outage and violation probabilities. Since estimating instantaneous channel gains is costly and requires high complexity, the proposed algorithm pursues a practical and implementation-friendly resource allocation. Simulation results demonstrate that the large-scale joint rate and power allocation incurs a slight loss in system throughput over the instantaneous one, but it achieves lower complexity with less sensitivity to variations in shadowing statistics.
Human p53 oncogene contains one promoter upstream of exon 1 and a second, stronger promoter within intron 1. (1988)

To gain insight into how transcription of the human p53 oncogene is controlled, we characterized the regulatory regions of the gene. A 3.8-kilobase-pair (kbp) EcoRI restriction fragment encompassing the 5' end of the human p53 gene, as well as subfragments generated by restriction digests, was cloned upstream of the Escherichia coli chloramphenicol acetyltransferase (CAT) gene and CAT activity was assayed in extracts of transfected cells. Two types of CAT vectors were used: Epstein-Barr virus oriP-derived constructs that were stably introduced into the human cell lines K562, Raji, and HL-60, and pSV0-CAT-derived constructs that were transiently introduced into the monkey cell line COS. By this approach we have identified two promoters for the human p53 gene. One promoter, p53P1, is located 100-250 bp upstream of the 218-bp noncoding first exon; a second, stronger promoter, p53P2, maps within the first intron. CAT activity and expression of CAT RNA indicate that p53P2 functions up to 50-fold more efficiently than p53P1. We conclude that the expression of the human p53 gene may be controlled by two promoters and that differential regulation of these promoters may play an important role in the altered expression of the gene in both normal and transformed cells.
JUVENILE CRIME IN WASHINGTON, D.C. (2003)

ublic officials in Washington, D.C. are debating new juvenile justice policies. A number of high-profile crimes in 2003 prompted city leaders to reconsider the District of Columbia’s approach to dealing with youth violence. In early October of 2003, a Washington bus driver was hit by a stray bullet during a daylight gun battle between rival youth gangs on a busy street in a residential area. Later that month, a 16-year-old bystander was shot fatally as he was leaving a high school dance. The 15-year-old shooter was aiming at members of a rival gang or “crew.”
Development of a rapid method for detecting bacterial cells in situ using 16S rRNA-targeted probes. (1992)

A rapid method for the identification of bacterial cells using 16S rRNA-directed, fluorescently tagged oligonucleotide probes has been developed. The parameters evaluated for their effect on labeling intensity included storage time, type of fixative, time of fixation, treatment time with methanol:formaldehyde and treatment time with borohydride. The results of tests using a variety of microorganisms, both Gram-positive and Gram-negative, are presented. Using this method, cells are spotted onto slides and stored desiccated until hybridized. This method may be especially applicable to environmental samples, which comprise diverse cell types and frequently require storage prior to examination.
LibGuides: Hantering av forskningsdata / Research Data Management: Home (2015)

Guide for projektet Hantering av forskningsdata, Vetenskaplig kommunikation, Universitetsbiblioteket. Projektet pagar under 2015, kontakta Maria Johnsson for mer information.
High speed, low-complexity image coding for IP-transport with JPEG XS (2016)

The JPEG committee (formally, ISO/IEC SC 29 WG 01) is currently investigating a new work item on near lossless low complexity coding for IP streaming of moving images. This article discusses the requirements and use cases of this work item, gives some insight into the anchors that are used for the purpose of standardization, and provides a short update on the current proposals that reached the committee.
Isolation, characterization, and biosynthesis of a phosphorylated glycoprotein from rat bone. (1987)

A phosphorylated glycoprotein was purified from the mixture of proteins extracted by demineralization of rat bone with 0.5 M EDTA in 4 M guanidinium chloride. A high level of purity for the preparation was indicated by a single band on sodium dodecyl sulfate (SDS)-gradient gel electrophoresis, sedimentation equilibrium ultracentrifugal data, and by automated Edman degradation results. The molecular weight of the phosphoprotein was shown to be about 44,000 by sedimentation equilibrium analyses in 4 M guanidinium chloride, even though an Mr of 75,000 was obtained by 5-15% SDS-polyacrylamide gel electrophoresis. Subsequent analysis by 15% SDS-polyacrylamide gel electrophoresis gave an Mr of 45,000. Analytical data showed that the protein contained 16.6% carbohydrate, possibly including 1 N-linked oligosaccharide and 5-6 O-linked oligosaccharides. The aspartic acid- and glutamic acid-rich protein contained about 300 amino acid residues including 1 phosphothreonine and 12 phosphoserine residues. Alkaline beta-elimination/NaBH4 reduction data showed that the phosphate obtained by complete acid hydrolysis prior to amino acid analysis was equivalent to the phosphate subject to alkaline beta-elimination. In this experiment, the losses of serine plus threonine exceeded the amount of phosphate liberated by 5-6 residues/protein. These serine and threonine residues probably represent O-linked oligosaccharides, since the protein contained about this number of N-acetyl-galactosamine residues. That the phosphoprotein is synthesized and secreted by osteoblast-like cells was shown with cultures of clonal rat osteosarcoma cells. After pulsing with 32PO4 the proteins secreted into the medium were precipitated with trichloroacetic acid and the radiolabeled proteins were immunoadsorbed. A protein migrating in the same position, on 5-15% SDS-polyacrylamide gel electrophoresis (i.e. with an Mr = 75,000) and on 15% gels (Mr = 45,000), as the phosphoprotein obtained from bone could be specifically immunoprecipitated.
Structure of 4-Chlorobenzoyl Coenzyme A Dehalogenase Determined to 1.8 Å Resolution:  An Enzyme Catalyst Generated via Adaptive Mutation, (1996)

Here we describe the three-dimensional structure of 4-chlorobenzoyl-CoA dehalogenase from Pseudomonas sp. strain CBS-3. This enzyme catalyzes the hydrolysis of 4-chlorobenzoyl-CoA to 4-hydroxybenzoyl-CoA. The molecular structure of the enzyme/4-hydroxybenzoyl-CoA complex was solved by the techniques of multiple isomorphous replacement, solvent flattening, and molecular averaging. Least-squares refinement of the protein model reduced the crystallographic R factor to 18.8% for all measured X-ray data from 30 to 1.8 A resolution. The crystallographic investigation of this dehalogenase revealed that the enzyme is a trimer. Each subunit of the trimer folds into two distinct motifs. The larger, N-terminal domain is characterized by 10 strands of beta-pleated sheet that form two distinct layers which lie nearly perpendicular to one another. These layers of beta-sheet are flanked on either side by alpha-helices. The C-terminal domain extends away from the body of the molecule and is composed of three amphiphilic alpha-helices. This smaller domain is primarily involved in trimerization. The two domains of the subunit are linked together by a cation, most likely a calcium ion. The 4-hydroxybenzoyl-CoA molecule adopts a curved conformation within the active site such that the 4-hydroxybenzoyl and the adenosine moieties are buried while the pantothenate and pyrophosphate groups of the coenzyme are more solvent exposed. From the three-dimensional structure it is clear that Asp 145 provides the side-chain carboxylate group that adds to form the Meisenheimer intermediate and His 90 serves as the general base in the subsequent hydrolysis step. Many of the structural principles derived from this investigation may be directly applicable to other related enzymes such as crotonase.
Genetic Screening (2011)

Current approaches to genetic screening include newborn screening to identify infants who would benefit from early treatment, reproductive genetic screening to assist reproductive decision making, and family history assessment to identify individuals who would benefit from additional prevention measures. Although the traditional goal of screening is to identify early disease or risk in order to implement preventive therapy, genetic screening has always included an atypical element-information relevant to reproductive decisions. New technologies offer increasingly comprehensive identification of genetic conditions and susceptibilities. Tests based on these technologies are generating a different approach to screening that seeks to inform individuals about all of their genetic traits and susceptibilities for purposes that incorporate rapid diagnosis, family planning, and expediting of research, as well as the traditional screening goal of improving prevention. Use of these tests in population screening will increase the challenges already encountered in genetic screening programs, including false-positive and ambiguous test results, overdiagnosis, and incidental findings. Whether this approach is desirable requires further empiric research, but it also requires careful deliberation on the part of all concerned, including genomic researchers, clinicians, public health officials, health care payers, and especially those who will be the recipients of this novel screening approach.
Selective Oxidations of Alcohols by Bromine in Combination with Nickel(II) Benzoate (1980)

Abstract The combination of nickel(II) bromide with benzoyl peroxide serves as an effective reagent for the conversion of secondary alcohols to ketones and, when nickel(II) bromide is employed as an alcohol template, for the oxidation of primary alcohols to aldehydes.1 The unique steric selectivity of the Bz2O2/NiBr2 combination has recently been demonstrated in oxidations of 2,2-disubstituted-1, 4-butanediols to the corresponding β,β-disubstituted-γ-butyrolactones.2 In the course of our investigation of this novel oxidative method, we have discovered that molecular bromine in combination with commercially available nickel(II) benzoate is a mild, effective, and selective oxidant for the conver-
Preparation and Characterization of Micro/Nano-emulsions Containing Functional Food Components (2015)

Emulsions are dispersions of at least two immiscible liquids, one of which is dispersed as droplets in the other liquid, and stabilized by an emulsifier, such as oil and water. Different types of emulsions can be formulated according to different applications. Emulsions are categorized as simple or multiple type. Oil-in-water (O/W) and water-in-oil (W/O) are the simple emulsions, while water-in-oil-in-water (W/O/W), and oil-in-water-in-oil (O/W/O) emulsions are known as multiple emulsions. Droplets of different sizes and the size distribution patterns formed based on different emulsification processes can affect their physicochemical properties. Hence, the droplet size and its distribution may determine the shelf-life stability, rheological properties, color and taste of food emulsions. Micro/nano-emulsions have been increasingly utilized in the food industry as delivery system carriers that can encapsulate, protect, and deliver lipophilic functional food components, such as bioactive lipids, oil-soluble flavors, vitamins, and nutraceuticals. The application of micro/nano-emulsions has potential advantages in increasing the bioavailability of lipophilic functional food components, modulating the product texture and improving the stability of droplets against aggregation. This article provides an overview of the current status of micro/nano-emulsion containing functional food components, preparations and characterizations, and presents the applications of micro/nano-emulsions in food industry.
Micrographic Acceptance Criteria for SSC Testing (2020)

Abstract The oil and gas industry has increasingly been pursuing development of resources containing high concentrations of H2S. While the negative effects of severe sour environments on pipeline steels and girth welds can be mitigated through modern metallurgical designs, some gaps in understanding still remain. In particular, environments of low pH and moderate amounts of H2S within Region 3 of the NACE Diagram can lead to challenges in materials selection via conventional approaches to evaluate sulfide stress cracking susceptibility. In these environments, pitting corrosion and cracking driven by hydrogen embrittlement can simultaneously damage the surface of the steel test coupon. Subsequent coupon analysis and a pass/fail determination can be problematic if the surface damage features have characteristics of both pits and cracks. Misidentification of these surface damage features, sometimes referred to in the literature as stress grooves, could lead to inappropriate materials selection (or welding procedures) and thus significant risks to safety and environment. The NACE TM0316 standard provides little guidance on classification of crack-like features that develop only partially through the test coupon. The work presented in this article is intended to provide a more objective criteria that can be used instead of engineering judgment. A variety of base metal and weld metal coupons were tested in NACE Region 3 sour environments and then analyzed from both cross-sectional and surface perspectives. Precise dimensional measurements of surface damage features were gathered in order to support quantitative criteria where possible. For more qualitative judgments, the authors have proposed a micrograph library to facilitate engineering judgment. The resulting acceptance criteria flowchart encourages a more detailed analysis, thus optimizing materials selection and welding practices for sour service pipelines.
Synthesis of Hollow Silver Spheres using Spherical Vaterite‐type Calcium Carbonate as Template (2016)

In this work, we describe the synthesis of hollow silver spheres using vaterite‐type CaCO 3 as template. The spherical vaterite‐type CaCO 3 was selectively precipitated during the reaction of aqueous CaCl 2 and Na 2 CO 3 in the presence of the polyelectrolyte poly(4‐styrenesulfonate). Aqueous AgNO 3 solution containing  NH 2 ‐functionalized CaCO 3 particles was treated with reducing agents such as ascorbic acid, NaBH 4 , and acetaldehyde, and the reduced silver particles were deposited on the surface of CaCO 3 particles to form uniform silver shells. The CaCO 3 used as template was removed from the CaCO 3 /Ag composite by treatment with acid. Finally, the hollow silver sphere was obtained. The morphologies of product were investigated using electron microscopy, the chemical composition of the composite was analyzed using energy‐dispersive X‐ray spectroscopy, the vibration modes of the carbonate ion were investigated by Fourier transform infrared spectroscopy, the thermal mass change was measured using the thermogravimetric analysis, and the solid phases were confirmed by powder X‐ray diffraction.
Arterial Spin Labeling MRI Quantifies the Recovery of Myocardial Perfusion During Infarct Healing in Mice (2009)

Abstract #253 Moriel H Vandsburger, Robert L Janiczek, Yaqin Xu, Brent A French, Craig H Meyer, Christopher M Kramer, Frederick H Epstein, Univ of Virginia, Charlottesville, VA Moriel H Vandsburger, 2009 Finalist and Presenting Author
The molecular pathology of lymphomas. (1986)

Article Tools Article Tools OPTIONS & TOOLS Export Citation Track Citation Add To Favorites Rights & Permissions COMPANION ARTICLES No companion articles ARTICLE CITATION DOI: 10.1200/JCO.1986.4.3.271 Journal of Clinical Oncology - published online before print September 22, 2016 PMID: 3950671 The molecular pathology of lymphomas. I R KirschxI R KirschSearch for articles by this author , S BroderxS BroderSearch for articles by this author https://doi.org/10.1200/JCO.1986.4.3.271 First Page PDF © 1986 by American Society of Clinical Oncology
Body composition after allogeneic haematopoietic cell transplantation/total body irradiation in children and young people: a restricted systematic review (2020)

Body composition changes in patients after HSCT + TBI are apparent by early adult life and link with the risk of excess cardiometabolic morbidity seen in adult survivors. Interventions to improve muscle and/or adipose function, perhaps utilizing nutritional manipulation and/or targeted activity, should be investigated.
Second-harmonic and third-harmonic generation in a three-component fibonacci optical superlattice (2000)

Harmonic generation in a three-component Fibonacci optical superlattice (3CFOS) is analysed theoretically. The Fourier spectrum of the structural function of the 3CFOS is numerically calculated. The positions of reciprocal vectors are in good agreement with the theoretical prediction. The intensities of the second harmonic (SH) and third-harmonic (TH) are calculated relative to the depletion of the fundamental. The dependence of the SH and TH intensity on structural parameters is discussed. Numerical calculation shows that, compared with two-component Fibonacci optical superlattice (2CFOS), there are more plentiful harmonic spectrum and adjustable structure parameters in 3CFOS. By chosen the reciprocal vectors and adjusted the structure parameters, the higher transform efficiency of THG is obtained.