gebhart/patrepeval huggingface dataset:
Toward The Rational Design of Cell Fate Modifiers Notch Signaling as a Target for Novel Biopharmaceuticals (2000)

Recent advances in our understanding of highly conserved mechanisms that control cell fate determination are paving the way towards rationally designed biologics that modulate specific cell fate decisions. Cell fate decisions leading to proliferation, differentiation or apoptosis are crucial elements in the pathogenesis of countless human diseases. Biopharmaceuticals designed to regulate such processes in specific cell types in vivo or ex vivo have vast potential applications in oncology, stem cell technology, immunomodulation and neuropathology. One of the most conserved mechanisms controlling cell fate determination is based upon Notch-ligand interactions and subsequent signaling events. Recent studies have shown that this mechanism regulates cell differentiation, proliferation and apoptosis in a wide variety of cell maturation processes and in neoplastic cells. These observations identify the Notch signaling network as a promising drug target for numerous indications. In this review, we describe: 1) potential drug targets in the Notch signaling network; 2) the Notch agonists and antagonists developed so far, including recombinant proteins, antibody-based agents, synthetic peptides, antisense oligonucleotides and gene therapy approaches, as well as possible strategies to design novel Notch-targeting biopharmaceuticals; 3) the possible clinical applications of such biopharmaceuticals and 4) a model strategy for the selection and developement of a Notch-targeting biopharmaceutical.
Amino Acid 36 in the Human Immunodeficiency Virus Type 1 gp41 Ectodomain Controls Fusogenic Activity: Implications for the Molecular Mechanism of Viral Escape from a Fusion Inhibitor (2005)

We have previously described a human immunodeficiency virus type 1 (HIV-1) proviral clone, pL2, derived from defective viral particles with higher fusogenicity than the prototypic NL4-3 virus. In this study, we attempted to determine the region that confers the enhanced fusion activity by creating envelope recombinants between pL2 and pNL4-3, as well as point mutants based on pNL4-3. The results indicate that amino acid 36 of gp41 is key for the fusogenic activity and infectivity enhancement and that glycine 36 (36G) of gp41 in pL2 is conserved in nearly all HIV-1 isolates except for pNL4-3. The mutation 36G-->D in a primary-isolate-derived Env decreased syncytium-forming activity and infectivity. The assays for cell-cell fusion and viral binding suggested that the enhanced fusion mediated by the 36D-->G mutation is not due to increased binding efficiency but is directly due to actual enhancement of viral fusion activity. Interestingly, this amino acid position is exactly equivalent to that at which the mutation of HIV-1 isolates that have escaped from a fusion inhibitor, enfuvirtide (T-20), has been frequently observed. The correlation between these previous findings and our findings was suggested by structural analysis. Our finding, therefore, has implications for a molecular basis of the viral escape from this drug.
Coordination and Trajectory Prediction for Vehicle Interactions via Bayesian Generative Modeling (2019)

Coordination recognition and subtle pattern prediction of future trajectories play a significant role when modeling interactive behaviors of multiple agents. Due to the essential property of uncertainty in the future evolution, deterministic predictors are not sufficiently safe and robust. In order to tackle the task of probabilistic prediction for multiple, interactive entities, we propose a coordination and trajectory prediction system (CTPS), which has a hierarchical structure including a macro-level coordination recognition module and a micro-level subtle pattern prediction module which solves a probabilistic generation task. We illustrate two types of representation of the coordination variable: categorized and real-valued, and compare their effects and advantages based on empirical studies. We also bring the ideas of Bayesian deep learning into deep generative models to generate diversified prediction hypotheses. The proposed system is tested on multi-ple driving datasets in various traffic scenarios, which achieves better performance than baseline approaches in terms of a set of evaluation metrics. The results also show that using categorized coordination can better capture multi-modality and generate more diversified samples than the real-valued coordination, while the latter can generate prediction hypotheses with smaller errors with a sacrifice of sample diversity. Moreover, employing neural networks with weight uncertainty is able to generate samples with larger variance and diversity.
Evolution of flowering in response to day length: Flipping the CONSTANS switch (2003)

Day length provides an important environmental cue by signalling conditions favourable for flowering. While Arabidopsis promotes flowering in response to long days, rice promotes flowering in response to short days. Despite this difference, a recent paper reveals that the network controlling this response is highly conserved in these distantly related plants, only the activity of one component is reversed. This reveals how an important developmental process can be diversified for adaptation by using the same set of genes, but regulating them differently.
Fabrication of Ni Nanocrystal Flash Memories Using a Polymeric Self-Assembly Approach (2007)

Fabrication of nickel nanocrystal flash memories using a polymeric approach is presented. Heat treatment of the poly (styrene-b-methyl methacrylate) block copolymer with a molecular weight of 67 000 g/mol followed by PMMA removal in an organic solvent created a porous PS film with 20-nm-diameter pores and a total pore density of ~6 times 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">10</sup> cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-2</sup> . A trilayer pattern-transfer approach was employed in order to solve the metal lift-off issue intertwined with the low aspect ratio block copolymer patterns. As a result, a highly uniform self- assembled array of nickel nanocrystals was attained and utilized for flash memory fabrication. The memory devices demonstrated an unchanged memory window for up to 2 times 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">5</sup> stressing cycles.
Increased expression of M-CSF and IL-13 in vitreous of patients with proliferative diabetic retinopathy: implications for M2 macrophage-involving fibrovascular membrane formation (2014)

These findings indicate that the M2 polarisation of macrophages is induced by M-CSF and IL-13 in diabetic retinas. The presence of M-CSF and IL-13 would then promote FVM formation by periostin production.
<title>Optical and surface properties of oxyfluoride glass</title> (2000)

Using conventional materials like fused silica and sapphire for critical window components in a high-power laser system can lead to intolerable thermal distortions and optical path difference effects. A new oxyfluoride glass is being developed which has the unique property of possessing a negative thermo-optic coefficient (dn/dT) in the near- and mid-wave infrared. Specifically, the refractive index (n) of oxyfluoride glass decreases as the temperature increases. The distortions caused by thermal expansion of the glass during laser irradiation are partly offset by the negative dn/dT. This paper specifically addresses optical properties and surface finishing of oxyfluoride glass compared to fused silica. Normarski micrographs and surface profiles were measured to inspect the surface quality since smooth surfaces are essential for suppressing surface scattering and absorption. The refractive index and thermo-optic coefficient were measured using null polarimetry near the Brewster angle. Low dn/dT is required for laser windows. Transmittance spectra were measured to deduce the extinction coefficient by comparing with the transmittance calculated from the refractive index and to screen for unwanted absorption from contaminants including hydrocarbon oils, polishing residue, and water or -OH groups. Total integrated scattering was measured for both surface and bulk scattering. All measurements were done on 1.0- and 1.5-inch-diameter witness samples.
The core of the pseudostem of musa in the treatment of urinary stones. (1995)

Ayurveda recommends many simple herbs in the treatment of urological afflictions like urolithiasis. Seventyone patients diagnosed to be suffering from urolithiasis were treated with juice of the core of the pseudostem of Musa Paradisiaca and Musa sapientum. A significant segment of them passed out calculi of varying size after consuming the drug for two weeks. Recurrence of stone formation was also prevented by the treatment, The author concludes that the plant material is quite effective in curing urolithiasis, especially of the calcium oxalate variety.
Similarities and Differences in the Glycosylation Mechanisms in Prokaryotes and Eukaryotes (2010)

Recent years have witnessed a rapid growth in the number and diversity of prokaryotic proteins shown to carry N- and/or O-glycans, with protein glycosylation now considered as fundamental to the biology of these organisms as it is in eukaryotic systems. This article overviews the major glycosylation pathways that are known to exist in eukarya, bacteria and archaea. These are (i) oligosaccharyltransferase (OST)-mediated N-glycosylation which is abundant in eukarya and archaea, but is restricted to a limited range of bacteria; (ii) stepwise cytoplasmic N-glycosylation that has so far only been confirmed in the bacterial domain; (iii) OST-mediated O-glycosylation which appears to be characteristic of bacteria; and (iv) stepwise O-glycosylation which is common in eukarya and bacteria. A key aim of the review is to integrate information from the three domains of life in order to highlight commonalities in glycosylation processes. We show how the OST-mediated N- and O-glycosylation pathways share cytoplasmic assembly of lipid-linked oligosaccharides, flipping across the ER/periplasmic/cytoplasmic membranes, and transferring "en bloc" to the protein acceptor. Moreover these hallmarks are mirrored in lipopolysaccharide biosynthesis. Like in eukaryotes, stepwise O-glycosylation occurs on diverse bacterial proteins including flagellins, adhesins, autotransporters and lipoproteins, with O-glycosylation chain extension often coupled with secretory mechanisms.
AlAs/n-GaAs superlattice and its application to high-quality two- dimensional electron gas systems (1986)

A novel AlAs/n-GaAs superlattice structure, in which the GaAs midlayers are selectively doped with Si, has been designed as an electron supplying layer for two-dimensional electron gas (2DEG) systems to obtain a high sheet carrier concentration, using a simple Kronig–Penney model calculation. The optimized structure is a very short period superlattice (∼40 Å), in which minibands are formed. This design realizes the elimination of DX centers and obtains a shallow donor level, in contrast with alloyed n-AlxGa1−xAs (x≂0.3), which has the same band gap as the superlattice. A 2DEG existence at the undoped GaAs and the AlAs/n-GaAs superlattice heterointerface is confirmed by Shubnikov–de Haas measurements for normal and inverted structures. High sheet carrier concentrations (8×1011 cm−2) were obtained for both structures with a one period undoped AlAs/GaAs spacer layer. Namely, total spacer layer thickness is about 60 Å. The 2DEG concentrations showed no variation with decrease in temperature from 300 to 4.2 K and with room light illumination at 4.2 K. Electron mobilities at 4.2 K are as high as 190 000 and 110 000 cm2/V s for the normal structure and the inverted structure, respectively.
Overview of the MPEG-7 standard (2001)

MPEG-7, formally known as the Multimedia Content Description Interface, includes standardized tools (descriptors, description schemes, and language) enabling structural, detailed descriptions of audio-visual information at different granularity levels (region, image, video segment, collection) and in different areas (content description, management, organization, navigation, and user interaction). It aims to support and facilitate a wide range of applications, such as media portals, content broadcasting, and ubiquitous multimedia. We present a high-level overview of the MPEG-7 standard. We first discuss the scope, basic terminology, and potential applications. Next, we discuss the constituent components. Then, we compare the relationship with other standards to highlight its capabilities.
Triaxial magnetic field gradient system for microcoil magnetic resonance imaging (2000)

There is a great advantage in signal to noise ratio (S/N) that can be obtained in nuclear magnetic resonance (NMR) experiments on very small samples (having spatial dimensions ∼100 μm or less) if one employs NMR “micro” receiver coils, “microcoils,” which are of similarly small dimensions. The gains in S/N could enable magnetic resonance imaging (MRI) microscopy with spatial resolution of ∼1–2 μm, much better than currently available. Such MRI microscopy however requires very strong (&amp;gt;10 T/m), rapidly switchable triaxial magnetic field gradients. Here, we report the design and construction of such a triaxial gradient system, producing gradients substantially greater than 15 T/m in all three directions, x, y, and z (and as high as 50 T/m for the x direction). The gradients are switchable within time ∼10 μs and adequately uniform (within 5% over a volume of [600μm3] for microcoil MRI of small samples.
Immuno-PET of human colon xenograft- bearing BALB/c nude mice using 124I-CDR-grafted humanized A33 monoclonal antibody. (2001)

In clinical trials using PET, huA33 labeled with 124I has potential for imaging and staging colon tumors and quantifying antibody uptake in colon tumors in vivo.
Frequent Mutation of the PIK3CA Gene in Ovarian and Breast Cancers (2005)

These data indicate that mutations of PIK3CA play an oncogenic role in substantial fractions of ovarian and breast carcinomas, and in consideration of mutation of other components of the PI3K-AKT pathway in both tumor types, confirm the major oncogenic role of this pathway in ovarian and breast carcinomas.
\nEULAR recommendations for the management of rheumatoid arthritis with synthetic and biological disease-modifying antirheumatic drugs. (2010)

\n Contains fulltext :\n 88773.pdf (Publisher’s version ) (Closed access)\n
Podocyte Bridges between the Tuft and Bowman's Capsule (2001)

Although experimental crescentic glomerulonephritis starts with an endocapillary inflammation, the crescents themselves seem to originate from the proliferation of parietal epithelial cells (PEC). In this study, an attempt was made to disclose a link between the two processes by a morphologic analysis of early stages of the disease. Mice were immunized with rabbit IgG in complete Freund's adjuvant on day -6. At day 0, they received an intravenous injection of a rabbit antiglomerular basement membrane serum. On days 3, 6, and 10, the kidneys were fixed by vascular perfusion for examination by light and electron microscopy. On day 3, morphologic alterations affected mainly the endocapillary compartment; most podocytes appeared to be intact. On day 6, alterations of podocytes were widespread, including foot process effacement and prominent microvillous transformation, and some crescents were found. On day 10, crescents were found in 40% of glomeruli. The most surprising finding was podocytes that adhered to both the glomerular basement membrane and the parietal basement membrane, thus forming bridges between the tuft and Bowman's capsule. Those podocyte bridges were sparse on day 3 but were regularly encountered on days 6 and 10 in glomeruli without crescents and also as a component of crescents. They were interposed between PEC and later between the cells of a crescent without formation of junctional connection with these cells. It is proposed that the spreading of podocytes on the parietal basement membrane represents a lesion of the parietal epithelium and that this process initiates the proliferation of PEC to form a crescent.
Inhibition of nuclear factor-kappa B differentially affects thyroid cancer cell growth, apoptosis, and invasion (2010)

These data indicate that selective inhibition of NF-kappaB represents an attractive therapeutic target for the treatment of advanced thyroid. However, it is apparent that global regulation of thyroid cancer cell growth and invasion is not achieved by NF-kappaB signaling alone. Instead, our findings suggest that other important molecular processes play a critical role in defining the extent of NF-kappaB function within cancer cells.
Biodegradable Polymeric Stents. (2001)

To overcome several problems of conventional metallic stents, there have been many attempts to manufacture stents made of biodegradable materials. Although some studies have noted various degrees of inflammatory responses after biodegradable stent implantation, stents made of poly-l-lactic acid (PLLA) showed high biocompatibility with minimal inflammatory response and neointimal formation in porcine coronary arteries. Therefore, PLLA materials are more likely to cover the specific need for human coronary arteries in terms of biodegradation period and scaffolding ability over 6 months. A clinical study of PLLA self-expanding stent implantation is underway in Japan. The initial and 6-month results are favorable and suggest the feasibility, safety, and efficacy of the PLLA biodegradable stent in humans. However, long-term follow-up with larger numbers of patients will be required to validate the long-term efficacy of PLLA stents.
[Expression of CAS in hepatocellular carcinoma tissues and its relationship with HBV infection]. (2012)

Higher expression of CAS protein is found in HCC tissues,and the intensity of CAS protein expression is related closely to tumor differentiation. We suggested that CAS protein might serve as a marker for HCC diagnosis and differentiation estimation, and deduced that CAS might play an important role in the initiation of HBV infection associated HCC through upregulating expression of CAS.
DNA vaccination with HIV-1 expressing constructs elicits immune responses in humans (1998)

Humoral and cellular immune responses have been produced by intramuscular vaccination with DNA plasmids expressing HIV-1 genes, suggesting possible immunotherapeutic and prophylactic value for these constructs. Vaccination with these constructs has decreased HIV-1 viral load in HIV-1-infected chimpanzees. In addition, naive (i.e. non-HIV-1-infected) chimpanzees were protected against a heterologous challenge with HIV-1. Ongoing phase I clinical trials show that therapeutic vaccinations indeed boost anti-HIV-I immune responses in humans. A therapeutic phase I trial on humans with these constructs induced a good safety profile and also demonstrated an immunological potentiation. These findings indicate that further studies with these constructs in humans are warranted.
Performance and the i860 microprocessor (1991)

The internal design of the i860 CPU, which exploits pipelining and parallelism more than previous microprocessors, is described. The i860 uses RISC concepts and memory-performance optimizations in several novel ways. Other innovations include simultaneous floating-point operations similar to digital signal processing, a two-instruction-per-clock mode, fast floating-point pipelines graphics instructions, and high-bandwidth registers and caches on-chip. These features make it one of the fastest single-chip processors available.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
New Variant of Human Tissue Plasminogen Activator (TPA) With Enhanced Efficacy and Lower Incidence of Bleeding Compared With Recombinant Human TPA (1995)

From these data, we conclude that TNK-TPA, given as a bolus, produces faster and more complete recanalization of occluded arteries in a rabbit experimental model compared with TPA, without increasing systemic plasmin generation or peripheral bleeding. In addition, we observed that TNK-TPA, unlike TPA, did not potentiate collagen-induced aggregation of platelets obtained from human plasma. This lack of effect on platelet aggregation by TNK-TPA potentially could be associated with a decreased risk of reocclusion after successful thrombolysis.
Interaction of heterozygous βo‐thalassemia with single functional α‐globin gene (1988)

In this study, we analyzed the phenotypic manifestations resulting from the interaction of heterozygous beta zero-thalassemia(beta zero-39 nonsense mutation) with the functional loss of three alpha-globin structural genes in six subjects, of whom four had the [-alpha/--]alpha-globin genotype and two the [--/alpha Th alpha] alpha-globin genotype. The beta-thalassemia defect was in all cases the nonsense mutation at codon 39. The nondeletion alpha-thalassemia alpha th was the initiation codon mutation (AUG----GUG) of the alpha-2 gene. In all these subjects hypochromia and microcytosis were more marked than in beta zero-thalassemia heterozygotes with a full complement of four alpha-globin genes. All but one had moderate anemia. The alpha:beta globin chain synthesis ratios were consistently decreased. No cases had Hb H on electrophoresis. Subjects with [--/alpha Th alpha] alpha-globin genotype had more severe thalassemia-like manifestations than those with [--/-alpha] alpha-globin genotype.
Distribution and pharmacokinetics of methotrexate in localized chemotherapy of solid Gardner's lymphosarcoma. (1978)

Pharmacokinetics and organe distribution of Methotrexate (MTX) in Gardner lymphosarcoma bearing C3H mice was investigated following two ways of drug administration: 1. intraperitoneal injection, 2. intratumoral implantation of 2-hydroxyethylmethacrylate gel with sorbed Methotrexate (localized chemotherapy). The highest level of MTX in blood appeared 2 hours after intrperitoneal injection but 7 hr after localized intratumorous application. Following intraperitoneal application the drug level in tumor reached its maximum two hours after injection; after 7 hr the drug could not be detected any longer. The localized chemotherapy led to six times higher concentration of the drug in the tumors as compared with the intraperitoneal application. This high level persisted for 17 hr and decreased moderately for 48 hr. MTX was accumulated in liver after both modes of administration with a half life 6.1 hr after intraperitoneal injection and 12.4 hr after the localized chemotherpay, respectively.
KrCl laser oscillation at 222 nm (1976)

Laser oscillation has been observed on the 2Σ+ 1/2-2Σ+ 1/2 band of KrCl at 222 nm in an electron-beam-excited mixture of argon, krypton, and chlorine. The laser performance and spectral features of KrCl and KrF are compared.
Blazed binary subwavelength gratings with efficiencies larger than those of conventional échelette gratings (1998)

We introduce a new structural cutoff beyond which subwavelength gratings cease to behave as homogeneous media and discuss its effects on the proper selection of the sampling periods of subwavelength diffractive elements. According to this analysis, a 3lambda-period blazed binary grating composed of square pillars is designed for He-Ne operation and is fabricated by etching of a TiO>(2) layer deposited upon a glass substrate. Its first-order measured diffraction efficiency is 12% larger than the theoretical efficiency of an ideal blazed échelette grating in glass with the same period.