gebhart/patrepeval huggingface dataset:
Antithrombin III in Animal Models of Sepsis and Organ Failure (1998)

Antithrombin III (AT III) is the physiological inhibitor of thrombin and other serine proteases of the clotting cascade. In the development of sepsis, septic shock and organ failure, the plasma levels of AT III decrease considerably, suggesting the concept of a substitution therapy with the inhibitor. A decrease of AT III plasma levels might also be associated with other pathological disorders like trauma, burns, pancreatitis or preclampsia. Activation of coagulation and consumption of AT III is the consequence of a generalized inflammation called SIRS (systemic inflammatory response syndrome). The clotting cascade is also frequently activated after organ transplantation, especially if organs are grafted between different species (xenotransplantation). During the past years AT III has been investigated in numerous corresponding disease models in different animal species which will be reviewed here. The bulk of evidence suggests, that AT III substitution reduces morbidity and mortality in the diseased animals. While gaining more experience with AT III, the concept of substitution therapy to maximal baseline plasma levels (100%) appears to become insufficient. Evidence from clinical and preclinical studies now suggests to adjust the AT III plasma levels to about 200%, i.e., doubling the normal value. During the last few years several authors proposed that AT III might not only be an anti-thrombotic agent, but to have in addition an anti-inflammatory effect.
Addition of Lithiated 9-Deazapurine Derivatives to a Carbohydrate Cyclic Imine:  Convergent Synthesis of the Aza-C-nucleoside Immucillins (2001)

Means have been developed for the synthesis and addition of 9-deaza-9-lithiopurine derivatives to the carbohydrate-derived cyclic imine 6 in facile convergent syntheses of biologically active aza-C-nucleosides.
Defining DNA-Based Operational Taxonomic Units for Microbial-Eukaryote Ecology (2009)

DNA sequence information has increasingly been used in ecological research on microbial eukaryotes. Sequence-based approaches have included studies of the total diversity of selected ecosystems, studies of the autecology of ecologically relevant species, and identification and enumeration of species of interest for human health. It is still uncommon, however, to delineate protistan species based on their genetic signatures. The reluctance to assign species-level designations based on DNA sequences is in part a consequence of the limited amount of sequence information presently available for many free-living microbial eukaryotes and in part a consequence of the problematic nature of and debate surrounding the microbial species concept. Despite the difficulties inherent in assigning species names to DNA sequences, there is a growing need to attach meaning to the burgeoning amount of sequence information entering the literature, and there is a growing desire to apply this information in ecological studies. We describe a computer-based tool that assigns DNA sequences from environmental databases to operational taxonomic units at approximately species-level distinctions. This approach provides a practical method for ecological studies of microbial eukaryotes (primarily protists) by enabling semiautomated analysis of large numbers of samples spanning great taxonomic breadth. Derivation of the algorithm was based on an analysis of complete small-subunit (18S) rRNA gene sequences and partial gene sequences obtained from the GenBank database for morphologically described protistan species. The program was tested using environmental 18S rRNA data sets for two oceanic ecosystems. A total of 388 operational taxonomic units were observed for 2,207 sequences obtained from samples collected in the western North Atlantic and eastern North Pacific oceans.
Enhancement of speech corrupted by acoustic noise (2005)

This paper describes a method for enhancing speech corrupted by broadband noise. The method is based on the spectral noise subtraction method. The original method entails subtracting an estimate of the noise power spectrum from the speech power spectrum, setting negative differences to zero, recombining the new power spectrum with the original phase, and then reconstructing the time waveform. While this method reduces the broadband noise, it also usually introduces an annoying "musical noise". We have devised a method that eliminates this "musical noise" while further reducing the background noise. The method consists in subtracting an overestimate of the noise power spectrum, and preventing the resultant spectral components from going below a preset minimum level (spectral floor). The method can automatically adapt to a wide range of signal-to-noise ratios, as long as a reasonable estimate of the noise spectrum can be obtained. Extensive listening tests were performed to determine the quality and intelligibility of speech enhanced by our method. Listeners unanimously preferred the quality of the processed speech. Also, for an input signal-to-noise ratio of 5 dB, there was no loss of intelligibility associated with the enhancement technique.
A novel RING finger protein interacts with the cytoplasmic domain of CD40. (1994)

CD40 is a member of the tumor necrosis factor receptor family and, like other members, it appears to possess no intrinsic signaling capacity (e.g. kinase activity), suggesting that signal transduction is likely mediated by associating molecules. To identify such molecules, we have utilized the yeast two-hybrid system to clone cDNAs encoding proteins that bind the CD40 cytoplasmic domain. One such interacting protein, designated CD40-binding protein, has a N-terminal RING finger motif that is found in a number of DNA-binding proteins, including the V(D)J recombination activating gene RAG1. In addition, it contains a prominent central coiled-coil segment that may allow homo- or hetero-oligomerization. The C terminus possesses substantial homology to the tumor necrosis factor receptor-associated factor (TRAF) domain that is found in two proteins (TRAF1 and TRAF2) that associate with the cytoplasmic domain of the related 75-kDa tumor necrosis factor receptor. This is the first identification of a molecule that interacts with CD40 and whose sequence suggests a potential role in signaling.
Chemokine receptors and their role in inflammation and infectious diseases (2000)

Chemokines are small peptides that are potent activators and chemoattractants for leukocyte subpopulations and some nonhemopoietic cells. Their actions are mediated by a family of 7-transmembrane G-protein-coupled receptors, the size of which has grown considerably in recent years and now includes 18 members. Chemokine receptor expression on different cell types and their binding and response to specific chemokines are highly variable. Significant advances have been made in understanding the regulation of chemokine receptor expression and the intracellular signaling mechanisms used in bringing about cell activation. Chemokine receptors have also recently been implicated in several disease states including allergy, psoriasis, atherosclerosis, and malaria. However, most fascinating has been the observation that some of these receptors are used by human immunodeficiency virus type 1 in gaining entry into permissive cells. This review will discuss structural and functional aspects of chemokine receptor biology and will consider the roles these receptors play in inflammation and in infectious diseases.
Sutureless microvascular anastomosis using the THC:YAG laser: A preliminary report (1989)

Laser anastomosis of the rat carotid artery was performed using a new mid-infrared laser, the pulsed thulium-holmium-chromium: YAG (THC:YAG) laser (2.15 microns). Solid silicone stents made stay sutures unnecessary for coaptation of vessel edges during laser bonding. Grossly, the laser anastomoses displayed minimal thermal distortion of the vessel contour and no tissue carbonization. Of the 30 anastomoses performed, 27 were patent and 3 had separation of the weld shortly after the approximator clamp was released. Mean anastomotic time was 4 min 48 sec. Mean bursting pressure for the 9 vessels tested was 400 mm Hg. Thrombosis did not occur at any time during our examination of these anastomoses. Fusion of collagen fibers in the media was confirmed histologically. Unlike the CO2 laser, the THC:YAG is transmissible through flexible silica fibers, which greatly facilitates delivery of the laser in a microsurgical operative field. The THC:YAG provides shallower absorption depth than Nd:YAG and argon lasers but somewhat deeper tissue penetration than CO2. For microvessels, this intermediate absorption results in full-thickness fusion of the media, with minimal thermal damage to vascular tissue adjacent to the anastomosis.
Infliximab for psoriasis and psoriatic arthritis. (2003)

Tumor Necrosis Factor alpha (TNF) as proinflammatory cytokine plays in the pathogenesis of many diseases an important role. In psoriasis and in psoriatic arthritis TNF is up-regulated in the skin lesion and in the synovitis. Recent trials showed that the blockade of TNF with the chimeric antibody infliximab is able to improve both, the skin lesions and the synovitis of the joints. In psoriasis in 82% of patients treated with infliximab achieved an over 75% response in the PASI index. In Psoriatic arthritis the skin improvement was correlating with the reduction of synovitis and in a small MRI controlled study all patients achieved an ACR 20 response within 10 weeks. Patients with psoriatic arthritis, who have been included in spondylarthopathy trials showed similar improvement rates. In all trials unexpected safety problems have not been reported, but the trials have been small in population and short in duration. Infliximab was used between 5 and 10 mg/kg at week 0, 2, 6 and every 8 week. It some trials the retreatment periods varied. In contrast to the treatment of rheumatoid arthritis with infliximab methotrexate was not always used as comedication. In some cases infliximab has been used in combination with other DMARDs but no trial did evaluate the combination treatment vs. the monotherapy.
Fat Injection to Correct Contour Deformities in the Reconstructed Breast (2005)

Although fat injection in and around the reconstructed breast has limitations, such as fat necrosis and need for repeated injections, our experience indicates that overall it is a very safe technique that can improve or correct significant contour deformities that otherwise would require more complicated, riskier procedures to improve.
Large System Analysis of Sum Capacity in the Gaussian MIMO Broadcast Channel (2013)

We analyze the achievable sum rate of the Gaussian MIMO broadcast channel. We first consider Multiple-Input Single-Output (MISO) channels and derive the large system limit of the sum capacity as the number of users and transmit antennas go to infinity with a fixed ratio. We then consider Multiple-Input Multiple-Output (MIMO) broadcast channels and fix the number of users and let the number of transmit and receive antennas tend to infinity with fixed ratio. As in this case an asymptotic expression for sum capacity is hard to obtain, we evaluate the large system sum rate corresponding to successive zero-forcing beamforming with Dirty-Paper Coding. The analysis gives a lower bound on the large system sum capacity, which is numerically observed to be quite close. In addition, large system analysis is applied to estimate the relatively small performance losses with respect to sum capacity of successive zero-forcing beamforming with and without Dirty-Paper Coding in finite MISO systems.
Identification of Cardiac-Specific Myosin Light Chain Kinase (2008)

Two myosin light chain (MLC) kinase (MLCK) proteins, smooth muscle (encoded by mylk1 gene) and skeletal (encoded by mylk2 gene) MLCK, have been shown to be expressed in mammals. Even though phosphorylation of its putative substrate, MLC2, is recognized as a key regulator of cardiac contraction, a MLCK that is preferentially expressed in cardiac muscle has not yet been identified. In this study, we characterized a new kinase encoded by a gene homologous to mylk1 and -2, named cardiac MLCK, which is specifically expressed in the heart in both atrium and ventricle. In fact, expression of cardiac MLCK is highly regulated by the cardiac homeobox protein Nkx2-5 in neonatal cardiomyocytes. The overall structure of cardiac MLCK protein is conserved with skeletal and smooth muscle MLCK; however, the amino terminus is quite unique, without significant homology to other known proteins, and its catalytic activity does not appear to be regulated by Ca(2+)/calmodulin in vitro. Cardiac MLCK is phosphorylated and the level of phosphorylation is increased by phenylephrine stimulation accompanied by increased level of MLC2v phosphorylation. Both overexpression and knockdown of cardiac MLCK in cultured cardiomyocytes revealed that cardiac MLCK is likely a new regulator of MLC2 phosphorylation, sarcomere organization, and cardiomyocyte contraction.
Imaging Transgene Expression with Radionuclide Imaging Technologies (2000)

A variety of imaging technologies are being investigated as tools for studying gene expression in living subjects. Noninvasive, repetitive and quantitative imaging of gene expression will help both to facilitate human gene therapy trials and to allow for the study of animal models of molecular and cellular therapy. Radionuclide approaches using single photon emission computed tomography (SPECT) and positron emission tomography (PET) are the most mature of the current imaging technologies and offer many advantages for imaging gene expression compared to optical and magnetic resonance imaging (MRI)-based approaches. These advantages include relatively high sensitivity, full quantitative capability (for PET), and the ability to extend small animal assays directly into clinical human applications. We describe a PET scanner (microPET) designed specifically for studies of small animals. We review "marker/reporter gene" imaging approaches using the herpes simplex type 1 virus thymidine kinase (HSV1-tk) and the dopamine type 2 receptor (D2R) genes. We describe and contrast several radiolabeled probes that can be used with the HSV1-tk reporter gene both for SPECT and for PET imaging. We also describe the advantages/disadvantages of each of the assays developed and discuss future animal and human applications.
Identification of genes controlled by quorum sensing in Pseudomonas aeruginosa (1999)

Bacteria communicate with each other to coordinate expression of specific genes in a cell density-dependent fashion, a phenomenon called quorum sensing and response. Although we know that quorum sensing via acyl-homoserine lactone (HSL) signals controls expression of several virulence genes in the human pathogen Pseudomonas aeruginosa, the number and types of genes controlled by quorum sensing have not been studied systematically. We have constructed a library of random insertions in the chromosome of a P. aeruginosa acyl-HSL synthesis mutant by using a transposon containing a promoterless lacZ. This library was screened for acyl-HSL induction of lacZ. Thirty-nine quorum sensing-regulated genes were identified. The genes were organized into classes depending on the pattern of regulation. About half of the genes appear to be in seven operons, some seem organized in large patches on the genome. Many of the quorum sensing-regulated genes code for putative virulence factors or production of secondary metabolites. Many of the genes identified showed a high level of induction by acyl-HSL signaling.
Solar Power Wires Based on Organic Photovoltaic Materials (2009)

Organic photovoltaics in a flexible wire format has potential advantages that are described in this paper. A wire format requires long-distance transport of current that can be achieved only with conventional metals, thus eliminating the use of transparent oxide semiconductors. A phase-separated, photovoltaic layer, comprising a conducting polymer and a fullerene derivative, is coated onto a thin metal wire. A second wire, coated with a silver film, serving as the counter electrode, is wrapped around the first wire. Both wires are encased in a transparent polymer cladding. Incident light is focused by the cladding onto to the photovoltaic layer even when it is completely shadowed by the counter electrode. Efficiency values of the wires range from 2.79% to 3.27%.
Inhibiting platelet-derived growth factor beta reduces Ewing's sarcoma growth and metastasis in a novel orthotopic human xenograft model. (2010)

Preclinical therapeutically relevant findings such as these may ultimately lead to new treatment initiatives in ES.
Cyberspace: First Steps (1991)

Cyberspace has been defined as an infinite artificial world where humans navigate in information-based space and as ultimate computer-human interface. These original contributions take up the philosophical basis for cyberspace in virtual realities, basic communications principles, ramifications of cyberspace for future workplaces, and more.
Genomic organization and expression of the rat TRPM-2 (clusterin) gene, a gene implicated in apoptosis. (1993)

We describe the genomic structure of the rat TRPM-2 gene. This gene is induced de novo during the regression of the prostate and other hormone-dependent tissues after hormone ablation and plays an important role in apoptosis, or active cell death. TRPM-2 is a single copy gene, organized into nine exons, ranging in size from 47 base pairs (exon I) to 412 base pairs (exon IV), spanning a region of 13,750 base pairs. Comparison with sequences registered in the data bases shows that it has extensive homology to SGP-2, a gene that is expressed constitutively in the testis, although the sequences diverge dramatically in the 5'-untranslated region of the mRNA (coded for by exon I in TRPM-2), raising the possibility of alternative exon I usage in SGP-2. Primer extension, S1 nuclease protection, and extensive polymerase chain reaction analysis suggest that the TRPM-2 transcript from the prostate and the SGP-2 transcript from the testis are in fact identical and only contain the exon I sequence identified in the TRPM-2 genomic clone. Analysis of the promoter region of the TRPM-2 gene demonstrates that the putative control region contains several potential regulatory elements that may regulate the complex tissue-specific control of a gene which must be constitutively expressed in some tissues but repressed in others until induced during active cell death.
MOTHER GETS 6 YEARS FOR DRUGS IN BREAST MILK (1994)

CORONA, Calif., Oct. 27 (AP)—In a case that appears to broaden the prosecution of women who pass drugs to their infants through their bodies, a woman was sentenced here Monday to six years in prison because her breast milk, tainted with methamphetamine, had killed her baby daughter. In recent years, 160 women in 24 states have been charged with delivering drugs to their babies either during pregnancy or, through the umbilical cord, immediately after childbirth. But the case here in this town 40 miles southeast of Los Angeles is apparently the first in the nation based on the passing of drugs through breast milk.
Fading correlation and its effect on the capacity of multielement antenna systems (2000)

We investigate the effects of fading correlations in multielement antenna (MEA) communication systems. Pioneering studies showed that if the fades connecting pairs of transmit and receive antenna elements are independently, identically distributed, MEAs offer a large increase in capacity compared to single-antenna systems. An MEA system can be described in terms of spatial eigenmodes, which are single-input single-output subchannels. The channel capacity of an MEA is the sum of capacities of these subchannels. We show that the fading correlation affects the MEA capacity by modifying the distributions of the gains of these subchannels. The fading correlation depends on the physical parameters of MEA and the scatterer characteristics. In this paper, to characterize the fading correlation, we employ an abstract model, which is appropriate for modeling narrow-band Rayleigh fading in fixed wireless systems.
Rotavirus neutralizing protein VP7: antigenic determinants investigated by sequence analysis and peptide synthesis (1985)

The rotavirus neutralizing antigen, VP7, is a 37,000-molecular-weight glycoprotein which is a major component of the outer shell of the virion. The amino acid sequence of VP7 for strain S2 (human serotype 2) and Nebraska calf diarrhea virus (bovine serotype) has been inferred from the nucleic acid sequence of cloned copies of genomic segment nine. Comparison of the amino acid sequences of these two VP7 proteins with those already determined for other rotavirus strains reveals extensive sequence conservation between serotypes with clusters of amino acid differences sited predominantly in hydrophilic domains of the protein. Six peptides have been synthesized that span the hydrophilic regions of the molecule. Antisera to these peptides both recognize the respective homologous peptides in a solid-phase radioimmunoassay and bind to denatured VP7 in a Western blot. However, none of the antisera either recognize virus or exhibit significant neutralizing activity, indicating that these peptide sequences are not available on the surface of the virus.
Systematic meta-review of depot antipsychotic drugs for people with schizophrenia (2001)

Depot antipsychotics are safe and effective. They may confer a small benefit over oral drugs on global outcome. Those for whom depots are most indicated may not be represented. Large studies are required to discern differences in relapse rates and long-term adverse effects, and data on satisfaction, quality of life and economics.
<title>Smooth low-stress sputtered tantalum and tantalum alloy films for the absorber material of reflective-type EUVL</title> (2000)

Tantalum (Ta) and Ta-alloy films were evaluated for use as the absorber material of masks for extreme ultraviolet lithography (EUVL). It was found that Ta film with a stress below 100 MPa, a surface roughness of less than 1 nm rms, a film density of over 14 g/cm<SUP>3</SUP>, and a deposition rate of more than 50 nm/min could be obtained by DC sputtering with Ar gas. Experiments on delineating mask patterns in this film by using dry etching revealed that 250-nm line-and-space patterns could be formed. The alloys evaluated were TaGe and TaN. These films were found to have some better properties than Ta film, for example, less stress, a smaller change in stress, and a smoother surface. This is confirmed to be due to the fact that the alloy films are amorphous. Of particular note is that TaN film has a lower deep ultraviolet (DUV) reflectivity than either Ta or TaGe, thus providing higher contrast between the underlying multilayer and the absorber patterns of an EUVL mask during DUV inspection. However, TaN has a lower density than the other two films. So, our current results indicate that using Ta or TaGe for the bulk absorber material and covering that with a thin layer of TaN is a promising way to obtain the film properties required for EUVL mask patterns, including film density and DUV inspection capability.