gebhart/patrepeval huggingface dataset:
Identification of a positive retroregulator that stabilizes mRNAs in bacteria. (1986)

A positive retroregulator that enhances the expression of an upstream gene(s) has been identified. It resides within a 381-base pair (bp) restriction fragment containing the transcriptional terminator of the crystal protein (cry) gene from Bacillus thuringiensis vs. Kurstaki HD-1. This fragment was fused to the distal ends of either the penicillinase (penP) gene of Bacillus licheniformis or the interleukin 2 cDNA from the human Jurkat cell line. In both cases, the half-lives of the mRNAs derived from the fusion genes were increased from approximately equal to 2 to 6 min in both Escherichia coli and Bacillus subtilis. Synthesis of the corresponding polypeptides in the bacteria carrying the fusion genes was also increased correspondingly. The enhancement of expression of the upstream genes was independent of the insertional orientation of the distal cry terminator fragment. Deletion analysis showed that the locus conferring the enhancing activity coincided with the terminator sequence and was located within a 89-bp fragment that includes an inverted repeat, the 19-bp upstream-, and the 27-bp downstream-flanking sequences. We propose that transcription of the retroregulator sequence leads to the incorporation of the corresponding stem-and-loop structure at the 3' end of the mRNA; the presence of this structure protects the mRNAs from exonucleolytic degradation from the 3' end and, thereby, increases the mRNA half-life and enhances protein synthesis of the target genes.
The tholeiite dikes of the north of England (1929)

The suite of dikes that forms the subject of this paper is bounded on the south from Sleights Moor (south of Whitby) to Dalston (south of Carlisle) by the well-known series of dikes known collectively as the Cleveland-Cockfield-Armathwaite dike, and on the north by the nearly parallel and more continuous Acklington dike which stretchesfrom Bondicarr near Coquet Island across the southern margin of the Cheviots into Scotland.
Structure analysis and expressions of a novel tetratransmembrane protein, lysosoma-associated protein transmembrane 4 β associated with hepatocellular carcinoma (2004)

LAPTM4B gene encoded two isoforms of tetratransmembrane proteins, LAPTM4B-35 and LAPTM4B-24. The expression of LAPTM4B-35 protein is upregulated and associated with poor differentiation in human HCC tissues, and also at high levels in some cancer cell lines. LAPTM4B is an original and conserved protein.
A Linux in unikernel clothing (2020)

Unikernels leverage library OS architectures to run isolated workloads on the cloud. They have garnered attention in part due to their promised performance characteristics such as small image size, fast boot time, low memory footprint and application performance. However, those that aimed at generality fall short of the application compatibility, robustness and, more importantly, community that is available for Linux. In this paper, we describe and evaluate Lupine Linux, a standard Linux system that---through kernel configuration specialization and system call overhead elimination---achieves unikernel-like performance, in fact outperforming at least one reference unikernel in all of the above dimensions. At the same time, Lupine can run any application (since it is Linux) when faced with more general workloads, whereas many unikernels simply crash. We demonstrate a graceful degradation of unikernel-like performance properties.
Molecular profiles of allograft rejection following inhibition of CD40 ligand costimulation differentiated by cluster analysis (2002)

Recent technological advances in biomedical research, such as genome sequences and DNA microarrays, have dramatically increased the size of relevant databases. A major challenge is the extraction of a limited number of parameters from these databases that can differentiate and diagnose complex biological states. In a model of cardiac transplantation investigating immunosuppression by inhibition of CD40 ligand costimulation, we have applied a combination of cluster algorithms and self-organizing maps to analyze a panel of 60 candidate genes. Dendrograms generated by cluster analysis distinguished different molecular bases of rejection. Using self-organizing maps, we identified nine genes (CD4, CCR3, CCR5, LT beta, MIP-1 alpha, MIP-2, CD8 alpha, IP-10, and RANTES), each with a unique profile of transcriptional expression, that reproduce the differentiation of states of rejection in dendrograms. Using histology and immunohistochemistry, we correlated differential regulation of CD4 and CD8 at the levels of mRNA and protein. Our strategy of data reduction successfully decreased the number of genes to nine, which are sufficient to differentiate distinct states of rejection in our experimental protocol.
Molecular cloning of a hemopexin-like cDNA from rainbow trout liver (1996)

Hemopexin is an abundant heme-binding serum protein synthesized in the liver and for which the sequence is determined only for mammals. Little is known about fish heme-binding proteins. We have cloned a rainbow trout complementary DNA that encodes a 445 amino acid polypeptide exhibiting an overall 30% homology with human hemopexin and 69% with the goldfish warm temperature acclimation-related 65-kDa protein. Structural homology, deduced from hydrophobic cluster analysis (HCA), was strong between the trout and human proteins since global HCA scores of 76% were obtained when the N- or C-terminal halves of the two proteins were compared. Moreover, several characteristics of hemopexin were found in the trout protein; finally, the trout hemopexin-like messenger RNA was specifically expressed in the liver. We conclude that the trout protein is a good candidate for a true fish hemopexin.
Deposition of SiOx films by means of atmospheric pressure microplasma jets (2011)

Atmospheric pressure plasma jet sources are currently in the focus of many researchers for their promising applications in medical industry (e.g. treatment of living tissues), surface modification or material etching or synthesis. Here we report on the study of fundamental principles of deposition of SiOx films from microplasma jets with admixture of hexamethyldisiloxane [(CH3)3SiOSi(CH3)3, HMDSO] molecules and oxygen. The properties of the deposited films, the composition of the plasma as measured by molecular beam mass spectrometry and the effect of additional treatment of grown film by oxygen or hydrogen atoms will be presented.
The gene <i>NCE103</i> (<i>YNL036w</i>) from <i>Saccharomyces cerevisiae</i> encodes a functional carbonic anhydrase and its transcription is regulated by the concentration of inorganic carbon in the medium (2005)

Carbonic anhydrase (CA) catalyses the rapid interconversion between CO(2) and HCO(3) (-). Despite its wide distribution among living organisms, the presence of CA in fungi has been controversially discussed. Using mass spectrometric analysis of (18)O exchange from doubly labelled CO(2), we were able to measure CA activity in intact cells of Saccharomyces cerevisiae. Intracellular CA activity was lacking in the Deltance103 mutant, indicating that NCE103 encodes a functional CA. This was proven by overexpressing and purification of the NCE103 gene product showing a specific activity of around 6900 units per mg protein. Interestingly, the in vivo CA activity was 10-20 times higher in cells grown on low inorganic carbon (Ci; air containing 0.035% CO(2)) than in high-Ci cells (grown on 5% CO(2)). The enhanced CA activity of low-Ci cells was inducible after transferring high-Ci cells to air. Northern blot analysis revealed that that expression of NCE103 is transcriptionally regulated by low Ci which was also demonstrated by fusing the NCE103 promoter to beta-galactosidase as a reporter gene. Inactivation of NCE103 results in a high CO(2) requiring mutant indicating that a functional CA is an important prerequisite for S. cerevisiae to grow under low-Ci conditions.
Intradermal vaccination using the novel microneedle device MicronJet600: Past, present, and future (2015)

Intradermal immunization has become a forefront of vaccine improvement, both scientifically and commercially. Newer technologies are being developed to address the need to reduce the dose required for vaccination and to improve the reliability and ease of injection, which have been major hurdles in expanding the number of approved vaccines using this route of administration. In this review, 7 y of clinical experience with a novel intradermal delivery device, the MicronJet600, which is a registered hollow microneedle that simplifies the delivery of liquid vaccines, are summarized. This device has demonstrated both significant dose-sparing and superior immunogenicity in various vaccine categories, as well as in diverse subject populations and age groups. These studies have shown that intradermal delivery using this device is safe, effective, and preferred by the subjects. Comparison with other intradermal devices and potential new applications for intradermal delivery that could be pursued in the future are also discussed.
Comparative Analysis of [Au(en)2] 3+ and [Pt(en)2] 2+ non Covalent Binding to Calf Thymus DNA (2000)

Reactions of the complexes bisethylendiammine gold(III) and bisethylendiammine platinum(II) with calfthymus DNA were comparatively analysed. Both complexes bind DNA non-covalently most probably on the basis of electrostatic interactions. Binding of either complex at low ratios results into modest modifications of B-type DNA conformations, as detected by CD. Far larger CD alterations are observed at high ratios. The gold(III) chromophore is scarcely perturbed by DNA addition Binding of [Au(en)(2)]Cl(3) to calf thymus DNA is reversed by sodium cyanide. By analogy with the case of [Pt(en)(2)]Cl(2) it is suggested that Auen acts as a minor groove binder.
Electron spin resonance oxygen broadening (1975)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTElectron spin resonance oxygen broadeningM. J. PovichCite this: J. Phys. Chem. 1975, 79, 11, 1106–1109Publication Date (Print):May 1, 1975Publication History Published online1 May 2002Published inissue 1 May 1975https://pubs.acs.org/doi/10.1021/j100578a015https://doi.org/10.1021/j100578a015research-articleACS PublicationsRequest reuse permissionsArticle Views125Altmetric-Citations28LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access options Get e-Alerts
Atypical Disease after <i>Bordetella pertussis</i> Respiratory Infection of Mice with Targeted Disruptions of Interferon-γ Receptor or Immunoglobulin μ Chain Genes (1997)

Using a murine respiratory challenge model we have previously demonstrated a role for Th1 cells in natural immunity against Bordetella pertussis, but could not rule out a role for antibody. Here we have demonstrated that B. pertussis respiratory infection of mice with targeted disruptions of the genes for the IFN-gamma receptor resulted in an atypical disseminated disease which was lethal in a proportion of animals, and was characterized by pyogranulomatous inflammation and postnecrotic scarring in the livers, mesenteric lymph nodes and kidneys. Viable virulent bacteria were detected in the blood and livers of diseased animals. An examination of the course of infection in the lung of IFN-gamma receptor-deficient, IL-4-deficient and wild-type mice demonstrated that lack of functional IFN-gamma or IL-4, cytokines that are considered to play major roles in regulating the development of Th1 and Th2 cells, respectively, did not affect the kinetics of bacterial elimination from the lung. In contrast, B cell-deficient mice developed a persistent infection and failed to clear the bacteria after aerosol inoculation. These findings demonstrate an absolute requirement for B cells or their products in the resolution of a primary infection with B. pertussis, but also define a critical role for IFN-gamma in containing bacteria to the mucosal site of infection.
Trip Synopsis: 60km in 60sec (2016)

Abstract Computerized route planning tools are widely used today by travelers all around the globe, while 3D terrain and urban models are becoming increasingly elaborate and abundant. This makes it feasible to generate a virtual 3D flyby along a planned route. Such a flyby may be useful, either as a preview of the trip, or as an after‐the‐fact visual summary. However, a naively generated preview is likely to contain many boring portions, while skipping too quickly over areas worthy of attention. In this paper, we introduce 3D trip synopsis: a continuous visual summary of a trip that attempts to maximize the total amount of visual interest seen by the camera. The main challenge is to generate a synopsis of a prescribed short duration, while ensuring a visually smooth camera motion. Using an application‐specific visual interest metric, we measure the visual interest at a set of viewpoints along an initial camera path, and maximize the amount of visual interest seen in the synopsis by varying the speed along the route. A new camera path is then computed using optimization to simultaneously satisfy requirements, such as smoothness, focus and distance to the route. The process is repeated until convergence. The main technical contribution of this work is a new camera control method, which iteratively adjusts the camera trajectory and determines all of the camera trajectory parameters, including the camera position, altitude, heading, and tilt. Our results demonstrate the effectiveness of our trip synopses, compared to a number of alternatives.
Scar Contracture: Cellular and Connective Tissue Aspects in Peyronie's Disease (1997)

Peyronie's disease plaques are rigid structures due to the organization of the deposited collagen fibers. Those fibers are independent in their connective tissue organization, which makes the plaque incompatable with adjacent structures.
Citrate Anticoagulation and Divalent Cations in Hemodialysis (1994)

Anticoagulation with citrate in combination with a calcium-free, magnesium-containing dialysate (Ca-Mg+) and intravenous supplementation of calcium is a safe procedure in renal failure patients at high risk of bleeding. Since magnesium may antagonize the anticoagulant effect of citrate by forming complexes with citrate, we studied the in vitro and in vivo interactions of calcium and magnesium on citrate anticoagulation. In the in vitro studies the activated partial thromboplastin time (APTT) was 88 s, both after addition of 3.0 mumol magnesium and after addition of 1.0 mumol calcium. The combination of 2.4 mumol magnesium and 1.0 mumol calcium achieved similar APTT values of about 35 s as 3.5 mumol calcium alone. Moreover, in a Lee-White blood clotting time, the anticoagulant effect of 7 mumol citrate was neutralized by either 10.5 mumol of a mixture of the two cations or 10.5 mumol calcium chloride alone. In 6 chronic hemodialysis patients the in vivo interactions of calcium and magnesium on citrate were measured. At the dialyzer outlet, the whole blood activated clotting time (ACT) was significantly (p < 0.05) shorter during dialysis with a Ca-Mg+ dialysate than during dialysis with a calcium- and magnesium-free dialysate (Ca-Mg-). With the Ca-Mg- dialysate the ACT at the dialyzer outlet was still significantly longer than the ACT in the arterial line before citrate infusion. We also compared the serum concentrations of calcium and magnesium during the Ca-Mg- dialysate which was used in combination with intravenous calcium and magnesium supplementation - 0.18 and 0.08 mmol/min respectively--and during a conventional calcium- and magnesium-containing dialysate (Ca+Mg+).(ABSTRACT TRUNCATED AT 250 WORDS)
Semi-Preparative HPLC Separations of <i>E</i> and <i>Z</i> Isomers of New Aromatic Retinoids (1984)

Abstract Semi-preparative scale HPLC separations of E and Z isomers of new aromatic retinoids with α ⋍1 are reported. Clean separations with quantitative yields were achieved in less than 1 hour by normal phase HPLC using an analytical instrument.
Promoter Elements Determining Weak Expression of the <i>GAL4</i> Regulatory Gene of <i>Saccharomyces cerevisiae</i> (1993)

The GAL4 gene of Saccharomyces cerevisiae (encoding the activator of transcription of the GAL genes) is poorly expressed and is repressed during growth on glucose. To determine the basis for its weak expression and to identify DNA sequences recognized by proteins that activate transcription of a gene that itself encodes an activator of transcription, we have analyzed GAL4 promoter structure. We show that the GAL4 promoter is about 90-fold weaker than the strong GAL1 promoter and at least 7-fold weaker than the feeble URA3 promoter and that this low level of GAL4 expression is primarily due to a weak promoter. By deletion mapping, the GAL4 promoter can be divided into three functional regions. Two of these regions contain positive elements; a distal region termed the UASGAL4 (upstream activation sequence) contains redundant elements that increase promoter function, and a central region termed the UESGAL4 (upstream essential sequence) is essential for even basal levels of GAL4 expression. The third element, an upstream repression sequence, mediates glucose repression of GAL4 expression and is located between the UES and the transcriptional start site. The UASGAL4 is unusual because it is not interchangable with UAS elements in other yeast promoters; it does not function as a UAS element when inserted in a CYC1 promoter, and a normally strong UAS functions poorly in place of UASGAL4 in the GAL4 promoter. Similarly, the UES element of GAL4 does not function as a TATA element in a test promoter, and consensus TATA elements do not function in place of UES elements in the GAL4 promoter. These results suggest that GAL4 contains a weak TATA-less promoter and that the proteins regulating expression of this regulatory gene may be novel and context specific.
Robustness of 20 Gbit/s 63 km span 6 Mm sliding-filtercontrolled solitontranmission (1995)

20 Gbit/s time/polarisation multiplexed solitons have been transmitted over 10 Mm in a recirculating loop with a 63 km amplification span using the sliding-frequency guiding filter soliton control technique. The soliton energy, sliding rate, filter bandwidth and wavelength margins for a BER of 10-9 have been measured at 6 Mm.
An Evaluation of Generic Bulk Loading Techniques (2001)

Bulk loading refers to the process of creating an index from scratch for a given data set. This problem is well understood for B-trees, but so far, non-traditional index structures received modest attention. We are particularly interested in fast generic bulk loading techniques whose implementations only employ a small interface that is satisfied by a broad class of index structures. Generic techniques are very attractive to extensible database systems since different user-implemented index structures implementing that small interface can be bulk-loaded without any modification of the generic code. The main contribution of the paper is the proposal of two new generic and conceptually simple bulk loading algorithms. These algorithms recursively partition the input by using a main-memory index of the same type as the target index to be build. In contrast to previous generic bulk loading algorithms, the implementation of our new algorithms turns out to be much easier. Another advantage is that our new algorithms possess fewer parameters whose settings have to be taken into consideration. An experimental performance comparison is presented where different bulk loading algorithms are investigated in a system-like scenario. Our experiments are unique in the sense that we examine the same code for different index structures (R-tree and Slim-tree). The results consistently indicate that our new algorithms outperform asymptotically worst-case optimal competitors. Moreover, the search quality of the target index will be better when our new bulk loading algorithms are used. *This work has been supported by grant no. SE 553/2-1 from DFG.
Modeling Flux Noise in SQUIDs due to Hyperfine Interactions (2012)

Recent experiments implicate spins on the surface of metals as the source of flux noise in superconducting quantum interference devices and indicate that these spins are able to relax without conserving total magnetization. We present a model of 1/f flux noise in which electron spins on the surface of metals can relax via hyperfine interactions. Our results indicate that flux noise would be significantly reduced in superconducting materials where the most abundant isotopes do not have nuclear moments, such as zinc and lead.
Self-Assembled Monolayers Derived from Calix[4]resorcinarenes Exhibiting Excellent Desorption-Resistance and Their Applicability to Surface Energy Photocontrol (1999)

Abstract Self-assembled monolayers exhibiting excellent desorption-resistance was readily available by the adsorption of crown conformers of O-carboxymethylated calix[4]resorcinarenes on aminated silica substrates through multi-point adsorption.
Australian Sugar Technology - a Leader in the Development of Process Industries (1983)

An indication is given of the presence of the sugar industry along with chemical and other industries from the earliest stages of the colony and the first developments of educational courses in chemical engineering. The formation of technical groups in the sugar industry and the readiness of that industry to support research and development is indicated. Some specific technological developments are described which are indicative of the contributions made to chemical engineering technology by the Australian sugar industry. The structure of the sugar industry's mills and organisations is such as to encourage full interchange of technology among researchers, technical officers and mill operating staff and provide good opportunity for involvement of interested parties from CSIRO, universities, colleges and industry. This is the formula which has created the successful billion dollar sugar industry.