gebhart/patrepeval huggingface dataset:
Effect of Reservoir Stress Path on Compressibility and Permeability of Sandstones (1992)

Abstract Matrix permeability and pore volume compressibility are fundamentally important characteristics of hydrocarbon reservoirs because they provide measures of reservoir volume and reservoir producibility. In most laboratories these quantities are measured under hydrostatic (isotropic) loads that do not truly reflect the deviatoric stress state that exists in most reservoirs and do not adequately simulate the evolution of effective stresses in the reservoir as the reservoir is produced. Compression tests on reservoir sandstones show that both the compressibility and matrix permeability vary markedly with stress path (defined as the change in effective horizontal stress/change in effective overburden stress from initial reservoir conditions). Hence, changes in reservoir properties measured under hydrostatic loading conditions may be very misleading if applied to a reservoir that follows a non-hydrostatic stress path. Representative measurements of reservoir properties should be measured in the laboratory under loading paths that duplicate the stress path followed by the reservoir during production. Consequently, optimum reservoir management may require that the reservior stress path be determined by measuring in situ stresses early in the production history of a reservoir and periodically thereafter as the reservoir pore pressure is reduced.
Surgical treatment of glossopharyngeal neuralgia and pain from cancer of the nasopharynx (1984)

The outcome is summarized for 14 cases operated on for glossopharyngeal neuralgia, with both open and percutaneous rhizotomy techniques, between 1960 and 1984. Four patients, all with primary neuralgia, underwent open surgery. Pain disappeared, leaving only a ninth nerve deficit in all but one patient; in that patient, paroxysms of pain recurred after 3 years, mediated by the nervus intermedius. Five other patients with idiopathic neuralgia and five patients with pain secondary to carcinoma underwent percutaneous procedures. Seven patients who had retrogasserian percutaneous rhizotomy for associated trigeminal neuralgia were also pain-free. No mortality or morbidity resulted from either type of procedure.
Three-dimensional spectrally encoded imaging (2003)

A method for three-dimensional surface measurements with phase-sensitive spectrally encoded imaging is demonstrated. Both transverse and depth information is transmitted through a single-mode optical fiber, allowing this scheme to be incorporated into a miniature probe. This approach is demonstrated by measurement of the profile of a lens surface and by three-dimensional imaging of the face of a small doll.
Expression and characterization of human interferon‐β1 in the methylotrophic yeast Pichia pastoris (2003)

We describe the heterologous expression of a human interferon-beta1 in the methylotrophic yeast Pichia pastoris. Biologically active recombinant human interferon-beta1 (rHuIFN-beta1) was secreted from shake-flask-grown P. pastoris cells into the medium using the Saccharomyces cerevisiae alpha-mating factor prepro-leader sequence at the level of (1-3) x 10(5) i.u. (international units)/ml (6-12 mg/litre). An rHuIFN-beta1 with an N-terminal sequence identical with that of native HuIFN-beta1 was purified and the specific activity was determined (2-3 x 10(7) i.u./mg). It was found that the secreted recombinant protein was partially N-glycosylated.
Ligands for murine NKG2D display heterogeneous binding behavior (2002)

NKG2D transmits stimulatory signals to natural killer cells and other hematopoietic cells, leading to enhanced proliferation, cytokine secretion and target killing. Murine and human NKG2D eachrecognize five known class I-related molecules with distinct primary structures. Here, we used surface plasmon resonance to examine the binding of murine NKG2D to its cognate ligands: RAE-1B6 (a newly described C57BL/6J variant of RAE-1), RAE-1δ (common to BALB and C57BL6/J), and H60 (expressed in BALB, but not C57BL/6J). While RAE-1B6 and H60 display relatively high affinities for NKG2D with KD in the 20-30 nM range and koff in the 0.03 s–1 to 0.06 s–1 range (t1/2 approximately 10–20 s); the RAE-1δ variant binds with a lower affinity: KD of approximately 750 nM. Furthermore, RAE-1δ displays biphasic kinetics with dominant koff of approximately 0.2 s–1 (t1/2 approximately 3 s), partially explaining the lower affinity. Thus, H60 and RAE-1B6 bind NKG2D with almost identical kinetics while sharing only 20% amino acid sequence identity; whereas other RAE-1 molecules demonstrate faster dissociationand lower affinities than RAE-1B6 despite sharing 90% sequence identity. C57BL/6J mice, although not expressing the H60 gene product, retain a high-affinity ligand for NKG2D in the form of RAE-1B6.
Characterization of glycopeptide-resistant enterococci from U.S. hospitals (1993)

We examined 105 clinical isolates of glycopeptide-resistant enterococci collected from 31 U.S. hospitals in 14 states during May 1988 to July 1992. The isolates included 82 Enterococcus faecium, 8 E. faecalis, 6 Enterococcus spp., 5 E. gallinarum, 3 E. casseliflavus, and 1 E. raffinosus. The isolates were categorized into the following four phenotypes of glycopeptide resistance on the basis of their MIC patterns: (i) 70 VanA (vancomycin [Vm] MIC, > or = 64 micrograms/ml; teicoplanin [Tei] MIC, 16 to > or = 128 micrograms/ml), (ii) 26 VanB (Vm MIC, 16 to 1,024 micrograms/ml; Tei MIC, < or = 2 micrograms/ml), (iii) 5 VanC (Vm MIC, 4 to 16 micrograms/ml; Tei MIC, < or = 2 micrograms/ml) in E. gallinarum, and (iv) 3 E. casseliflavus and 1 E. raffinosus isolates for which Vm MICs were 4 to 16 micrograms/ml and Tei MICs were < or = 1 micrograms/ml were called unclassified. Of the 101 isolates with the VanA, VanB, and VanC phenotypes, 99 were confirmed by production of a specific 1,030-, 433-, or 796-bp polymerase chain reaction product, respectively, and hybridization with the respective gene probe. The vanA gene was also detected in the E. raffinosus isolate for which the Vm MIC was 16 micrograms/ml and the Tei MIC was 1 microgram/ml. The vanA gene was located on either a 34- or a 60-kb plasmid in all of the U.S. isolates examined. Pulsed-field gel electrophoresis demonstrated both intrahospital and interhospital diversity among Vmr enterococci in the United States and was more useful than plasmid analysis for epidemiologic studies.
Gelfoam paste in experimental laminectomy and cranial trephination (1981)

The hemostatic properties and effect on osteogenesis of gelatin foam paste and bone wax were compared on surgical bone lesions in experimental animals. Thirty rabbits each received four trephine craniotomies and four lumbar laminectomies. Alternate bone incisions in each animal were treated with either gelatin foam paste or bone wax. Blood loss was measured by absorbing the blood into dry surgical cottonoids weighed before and after use. Bone healing sites of three rabbits were examined histologically to assess the effect of each agent on osteogenesis. The trephination sites of eight rabbits were subjected to fracture force testing at 6 weeks postoperatively to compare the effect ot the two agents on bone healing. No significant difference was found between gelatin foam paste and bone wax in either effectiveness of hemostasis or effect on osteogenesis.
Wavelength-multiplexing system for single-mode image transmission (1997)

The expanding use of optical communication by means of optical fibers and the situation of drastically increasing amounts of data to be transmitted urge the exploration of novel systems permitting the transmission of large amounts of spatial information by fiber with smaller spatial resolution. An optical encoding and decoding system is suggested for transmitting one- or two-dimensional images by means of a single-mode fiber. The superresolving system is based on wavelength multiplexing of the input spatial information, which is achieved with diffractive optical elements. Preliminary experimental results demonstrate the capabilities of the suggested method for the one- and two-dimensional cases.
Genetic Heterogeneity of the Epidermal Growth Factor Receptor in Non–Small Cell Lung Cancer Cell Lines Revealed by a Rapid and Sensitive Detection System, the Peptide Nucleic Acid-Locked Nucleic Acid PCR Clamp (2005)

Lung cancer is one of the leading causes of the cancer death worldwide. Gefitinib is an inhibitor of the tyrosine kinase activity of the epidermal growth factor receptor (EGFR) and has been introduced in the treatment of advanced lung cancers. The responsiveness to gefitinib has been linked to the presence of EGFR mutations. Clinical samples contain many normal cells in addition to cancer cells. A method capable of detecting EGFR mutations in a large background of wild-type EGFR genes could provide a superior clinical test. We developed a rapid and sensitive detection system for EGFR mutations named the peptide nucleic acid-locked nucleic acid (PNA-LNA) PCR clamp that can detect EGFR mutations in the presence of 100-to 1,000-fold background of wild-type EGFR. We used this method to screen 30 non-small cell lung cancer cell lines established from Japanese patients. In addition to 11 cell lines that have mutations, we found 12 cell lines in which specific mutations are observed only in the subpopulation(s) of the cells. Genetic heterogeneity of EGFR suggests that the EGFR gene is unstable in established cancers and the heterogeneity may explain variable clinical responses of lung cancers to gefitinib.
New MBE buffer used to eliminate backgating in GaAs MESFETs (1988)

The buffer is grown by molecular beam epitaxy (MBE) at low substrate temperatures (150-300 degrees C) using Ga and As/sub 4/ beam fluxes. It is highly resistive, optically inactive, and crystalline, and high-quality GaAs active layers can be grown on top of the buffer. MESFETs fabricated in active layers grown on top of this new buffer show improved output resistance and breakdown voltages; the DC and RF characteristics are otherwise comparable to MESFETs fabricated by alternative means and with other buffer layers.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
The carboxy‐terminal lysine of αB‐crystallin is an amine‐donor substrate for tissue transglutaminase (1992)

A hexapeptide, corresponding to the sequence around the glutamine in beta A3-crystallin that functions as amine-acceptor for transglutaminase, was synthesized. This peptide was biotinylated and used as a probe to identify amine-donor substrates for transglutaminase among lens proteins. It was found that Ca(2+)-activated transglutaminase linked this peptide not only to several beta-crystallins but, unexpectedly, also to alpha B-crystallin. The C-terminal lysine residue of alpha B-crystalline could be identified as the site of linkage. This strengthens the notion that, at least in crystallins, all transglutaminase substrate residues are located in terminal extensions of the polypeptides. It was shown that in lens homogenate, alpha B-crystallin can be covalently crosslinked to beta-crystallins by transglutaminase. The transglutaminase-mediated crosslinking of alpha B-crystallin may have implications for its involvement in normal and pathological processes in lens and other tissues.
Sequence ofegVand Properties of EgV, aRuminococcus albusEndoglucanase Containing a Dockerin Domain (2000)

The Ruminococcus albus F-40 egV gene, encoding endoglucanase V (EGV), consists of an open reading frame of 1,833 nucleotides and encodes 611 amino acids with a deduced molecular weight of 67,103. The deduced EGV is a modular enzyme composed of a catalytic domain of family 5 of glycosyl hydrolases, a domain of unknown function, and a dockerin domain responsible for cellulosome assembly, suggesting that R. albus F-40 produces a cellulosome, and EGV is a component of the cellulosome. A truncated form of EGV with an apparent molecular weight of 42,000 was purified from a recombinant Escherichia coli and characterized since EGV suffered from partial proteolysis by E. coli protease(s). The truncated EGV was active toward carboxylmethyl cellulose, xylan, lichenan, and acid-swollen cellulose. The pH and temperature optima of the enzyme were 7.0 and 40 degrees C, respectively. By Western blot analysis using the antiserum raised against the truncated enzyme, EGV was detected in the whole cells but not in the culture supernatant of R. alubus F-40, suggesting that EGV was located on the cell surface.
Next-generation content representation, creation, and searching for new-media applications in education (1998)

Content creation, editing, and searching are extremely time-consuming tasks that often require substantial training and experience, especially when high-quality audio and video are involved. New media represents a new paradigm for multimedia information representation and processing, in which the emphasis is placed on the actual content. It thus brings the tasks of content creation and searching much closer to actual users and enables them to be active producers of audio-visual information rather than passive recipients. We discuss the state of the art and present next-generation techniques for content representation, searching, creation and editing. We discuss our experiences in developing a Web-based distributed compressed video editing and searching system (WebClip), a media-representation language (Flavor) and an object-based video authoring system (Zest) based on it, and a large image/video search engine for the World Wide Web (WebSEEk). We also present a case study of new media applications based on specific planned multimedia education experiments with the above systems in several K-12 schools in Manhattan, NY.
The smell of burnt toast: a case report. (2000)

A 71-year-old woman awoke one morning to find that she perceived all aromas, odors, and fragrances as smelling like burnt toast. Over the next three years, numerous studies and therapeutic trials failed to elicit the cause of her dysosmia or to provide relief. Finally, the demonstration of small infarcts as seen on a brain MRI suggested that an infarct near the olfactory pathway was responsible for the sudden onset and the 11 year persistence of her unique paromia.
Systematic Functionalization of a Metal−Organic Framework via a Postsynthetic Modification Approach (2008)

The pendant amino groups in isoreticular metal-organic framework-3 (IRMOF-3) were subjected to postsynthetic modification with 10 linear alkyl anhydrides (O(CO(CH2)nCH3)2 (where n = 1 to 18) and the extent of conversion, thermal and structural stability, and Brunauer-Emmett-Teller (BET) surface areas of the resulting materials were probed. (1)H NMR of digested samples showed that longer alkyl chain anhydrides resulted in lower conversions of IRMOF-3 to the corresponding amide framework (designated as IRMOF-3-AM2 to IRMOF-3-AM19). Percent conversions ranged from essentially quantitative (approximately 99%, -AM2) to approximately 7% (-AM19) with IRMOF-3 samples. Modified samples were thermally stable up to approximately 430 degrees C and remained crystalline based on powder X-ray diffraction (PXRD) measurements. Under specific reaction conditions, significant conversions were obtained with complete retention of crystallinity, as verified by single-crystal X-ray diffraction experiments. Single crystals of modified IRMOF-3 samples all showed that the F-centered cubic framework was preserved. All single crystals used for X-ray diffraction were analyzed by electrospray ionization mass spectrometry (ESI-MS) to confirm that these frameworks contained the modified 1,4-benzenedicarboxylate ligand. Single crystals of each modified IRMOF-3 were further characterized by measuring the dinitrogen gas sorption of each framework to determine the effects of modification on the porosity of the MOF. BET surface areas (m(2)/g) confirmed that all modified IRMOF-3 samples maintained microporosity regardless of the extent of modification. The surface area of modified MOFs was found to correlate to the size and number of substituents added to the framework.
A new form of rapid binocular plasticity in adult with amblyopia (2013)

Amblyopia is a neurological disorder of binocular vision affecting up to 3% of the population resulting from a disrupted period of early visual development. Recently, it has been shown that vision can be partially restored by intensive monocular or dichoptic training (4-6 weeks). This can occur even in adults owing to a residual degree of brain plasticity initiated by repetitive and successive sensory stimulation. Here we show that the binocular imbalance that characterizes amblyopia can be reduced by occluding the amblyopic eye with a translucent patch for as little as 2.5 hours, suggesting a degree of rapid binocular plasticity in adults resulting from a lack of sensory stimulation. The integrated binocular benefit is larger in our amblyopic group than in our normal control group. We propose that this rapid improvement in function, as a result of reduced sensory stimulation, represents a new form of plasticity operating at a binocular site.
Role of Cardiac Stem Cells in Cardiac Pathophysiology: A Paradigm Shift in Human Myocardial Biology (2011)

For nearly a century, the human heart has been viewed as a terminally differentiated postmitotic organ in which the number of cardiomyocytes is established at birth, and these cells persist throughout the lifespan of the organ and organism. However, the discovery that cardiac stem cells live in the heart and differentiate into the various cardiac cell lineages has changed profoundly our understanding of myocardial biology. Cardiac stem cells regulate myocyte turnover and condition myocardial recovery after injury. This novel information imposes a reconsideration of the mechanisms involved in myocardial aging and the progression of cardiac hypertrophy to heart failure. Similarly, the processes implicated in the adaptation of the infarcted heart have to be dissected in terms of the critical role that cardiac stem cells and myocyte regeneration play in the restoration of myocardial mass and ventricular function. Several categories of cardiac progenitors have been described but, thus far, the c-kit-positive cell is the only class of resident cells with the biological and functional properties of tissue specific adult stem cells.
Abatement technologies for high concentrations of NOxand SO2removal from exhaust gases: A review (2015)

Nitrogen oxides (NOx) and sulfur dioxide (SO2) are the main air pollutants. Both of them are mostly formed during the process of fossil fuels combustion, while some processes generate very high concentrations of NOx and SO2. In this review the authors describe and summarize the currently used methods and the new techniques that are under investigation. They also give a detailed description of the regulations and sources of SO2 and NOx emissions, as well as their impact on human health and the environment. The authors focus primarily on the environmental protection technologies used in power plants, vehicles, ships, and the chemical industry.
Discovery and Optimization of Pyrrolopyrimidine Inhibitors of Interleukin-1 Receptor Associated Kinase 4 (IRAK4) for the Treatment of Mutant MYD88L265P Diffuse Large B-Cell Lymphoma (2017)

Herein we report the optimization of a series of pyrrolopyrimidine inhibitors of interleukin-1 receptor associated kinase 4 (IRAK4) using X-ray crystal structures and structure based design to identify and optimize our scaffold. Compound 28 demonstrated a favorable physicochemical and kinase selectivity profile and was identified as a promising in vivo tool with which to explore the role of IRAK4 inhibition in the treatment of mutant MYD88<sup>L265P</sup> diffuse large B-cell lymphoma (DLBCL). Compound 28 was shown to be capable of demonstrating inhibition of NF-κB activation and growth of the ABC subtype of DLBCL cell lines in vitro at high concentrations but showed greater effects in combination with a BTK inhibitor at lower concentrations. In vivo, the combination of compound 28 and ibrutinib led to tumor regression in an ABC-DLBCL mouse model.
Microbiota transplantation restores normal fecal bile acid composition in recurrentClostridium difficileinfection (2013)

Fecal microbiota transplantation (FMT) has emerged as a highly effective therapy for refractory, recurrent Clostridium difficile infection (CDI), which develops following antibiotic treatments. Intestinal microbiota play a critical role in the metabolism of bile acids in the colon, which in turn have major effects on the lifecycle of C. difficile bacteria. We hypothesized that fecal bile acid composition is altered in patients with recurrent CDI and that FMT results in its normalization. General metabolomics and targeted bile acid analyses were performed on fecal extracts from patients with recurrent CDI treated with FMT and their donors. In addition, 16S rRNA gene sequencing was used to determine the bacterial composition of pre- and post-FMT fecal samples. Taxonomic bacterial composition of fecal samples from FMT recipients showed rapid change and became similar to the donor after the procedure. Pre-FMT fecal samples contained high concentrations of primary bile acids and bile salts, while secondary bile acids were nearly undetectable. In contrast, post-FMT fecal samples contained mostly secondary bile acids, as did non-CDI donor samples. Therefore, our analysis showed that FMT resulted in normalization of fecal bacterial community structure and metabolic composition. Importantly, metabolism of bile salts and primary bile acids to secondary bile acids is disrupted in patients with recurrent CDI, and FMT corrects this abnormality. Since individual bile salts and bile acids have pro-germinant and inhibitory activities, the changes suggest that correction of bile acid metabolism is likely a major mechanism by which FMT results in a cure and prevents recurrence of CDI.
Newcastle Disease Virus (NDV)-Based Assay Demonstrates Interferon-Antagonist Activity for the NDV V Protein and the Nipah Virus V, W, and C Proteins (2002)

We have generated a recombinant Newcastle disease virus (NDV) that expresses the green fluorescence protein (GFP) in infected chicken embryo fibroblasts (CEFs). This virus is interferon (IFN) sensitive, and pretreatment of cells with chicken alpha/beta IFN (IFN-alpha/beta) completely blocks viral GFP expression. Prior transfection of plasmid DNA induces an IFN response in CEFs and blocks NDV-GFP replication. However, transfection of known inhibitors of the IFN-alpha/beta system, including the influenza A virus NS1 protein and the Ebola virus VP35 protein, restores NDV-GFP replication. We therefore conclude that the NDV-GFP virus could be used to screen proteins expressed from plasmids for the ability to counteract the host cell IFN response. Using this system, we show that expression of the NDV V protein or the Nipah virus V, W, or C proteins rescues NDV-GFP replication in the face of the transfection-induced IFN response. The V and W proteins of Nipah virus, a highly lethal pathogen in humans, also block activation of an IFN-inducible promoter in primate cells. Interestingly, the amino-terminal region of the Nipah virus V protein, which is identical to the amino terminus of Nipah virus W, is sufficient to exert the IFN-antagonist activity. In contrast, the anti-IFN activity of the NDV V protein appears to be located in the carboxy-terminal region of the protein, a region implicated in the IFN-antagonist activity exhibited by the V proteins of mumps virus and human parainfluenza virus type 2.