gebhart/patrepeval huggingface dataset:
HER2 overexpression and amplification is present in a subset of ovarian mucinous carcinomas and can be targeted with trastuzumab therapy (2009)

The response rate of ovarian mucinous carcinomas to paclitaxel/carboplatin is low, prompting interest in targeted molecular therapies. We investigated HER2 expression and amplification, and the potential for trastuzumab therapy in this histologic subtype of ovarian cancer. HER2 status was tested in 33 mucinous carcinomas and 16 mucinous borderline ovarian tumors (BOT)). Five cases with documented recurrence and with tissue from the recurrence available for testing were analyzed to determine whether HER2 amplification status changed over time. Three prospectively identified recurrent mucinous ovarian carcinomas were assessed for HER2 amplification and patients received trastuzumab therapy with conventional chemotherapy. Amplification of HER2 was observed in 6/33 (18.2%) mucinous carcinomas and 3/16 (18.8%) BOT. HER2 amplification in primary mucinous carcinomas was not associated with an increased likelihood of recurrence. The prospectively identified recurrent mucinous carcinomas showed overexpression and amplification of HER2; one patient's tumor responded dramatically to trastuzumab in combination with conventional chemotherapy, while another patient experienced an isolated central nervous system recurrence after trastuzumab therapy. HER2 amplification is relatively common in ovarian mucinous carcinomas (6/33, 18.2%), although not of prognostic significance. Trastuzumab therapy is a treatment option for patients with mucinous carcinoma when the tumor has HER2 amplification and overexpression.
Up regulation of the Epstein-Barr virus (EBV)-encoded membrane protein LMP in the Burkitt's lymphoma line Daudi after exposure to n-butyrate and after EBV superinfection (1990)

The Burkitt's lymphoma line Daudi carries a nontransforming Epstein-Barr virus (EBV) strain that has a deletion in the BamHI WYH region of the genome coding for the EBV nuclear antigen 2 (EBNA-2). Daudi cells fail to express the EBV-encoded latent membrane protein (LMP) (D. Ghosh and E. Kieff, J. Virol. 64:1855-1858, 1990). We show that LMP expression can be up regulated by exposure to n-butyrate and by superinfection with the B95-8 (B virus)- and P3HR1 (P virus)-derived EBV strains. Two LMP polypeptides of 60 and 48 kilodaltons (kDa) were detected in immunoblots of Daudi cells that had been exposed to 3 mM n-butyrate for 24 h. The intensity of the 48-kDa LMP increased during 72 h, in parallel with the appearance of early antigen-positive cells. The 60-kDa LMP was expressed at a low level and remained constant. Superinfection of Daudi cells with B and P virus induced the 60-kDa LMP within 3 h. In addition, P virus induced the 48-kDa LMP at a low level. The B virus-encoded EBNA-2 and EBNA-5 were detected 12 h after superinfection. The B virus-encoded 63-kDa LMP was coexpressed with the endogenous LMP after 48 h. Inactivation of the virus by UV illumination abolished the expression of the B virus-encoded antigens but did not affect the induction of the endogenous LMP. The B-cell activation marker CD23 was up regulated by B virus superinfection but not by n-butyrate exposure. CD23 was also expressed at a higher level in a stable B virus-converted subline, E95A-Daudi, that was EBNA-2 positive and coexpressed the Daudi virus- and B virus-encoded LMP. The results suggest that LMP expression is regulated by the interaction of cellular and viral factors. Binding of the virus to its membrane receptor might be involved in the triggering of cellular control mechanisms. Viral gene products are not directly involved in this function but may contribute to create a permissive cellular environment for LMP expression.
La Euro-Región Atlántica: una estrategia de desarrollo para el País Vasco (1989)

El nuevo escenario económico que se está forjando en Europa obliga a diseñar estrategias de desarrollo que desbordan el ámbíto regional para adentrarse en el de la cooperación multirregional. Una estrategia de este tipo es la que se propone para la Euro-región Atlántica, como vía para la recuperación del dinamismo económico de las regiones que la integran.
Recognition and management of exercise-induced bronchospasm. (2003)

Exercise-induced bronchospasm is an obstruction of transient airflow that usually occurs five to 15 minutes after physical exertion. Although this condition is highly preventable, it is still underrecognized and affects aerobic fitness and quality of life. Diagnosis is based on the results of a detailed history, including assessment of asthma triggers, symptoms suggestive of exercise-induced bronchoconstriction, and a normal forced expiratory volume at one second at rest. A trial of therapy with an inhaled beta agonist may be instituted, with the subsequent addition of inhaled anti-inflammatory agents or ipratropium bromide. Nonpharmacologic measures, such as increased physical conditioning, warm-up exercises, and covering the mouth and nose, should be instituted. If symptoms persist, pulmonary function testing is warranted to rule out underlying lung disease.
Articular cartilage cultured with catabolin (pig interleukin 1) synthesizes a decreased number of normal proteoglycan molecules (1985)

A homogeneous preparation of catabolin from pig leucocytes caused a reversible dose-dependent (0.01-1 nM) decrease in the synthesis of proteoglycan in slices of pig articular cartilage cultured in serum-free medium. The monomers that were synthesized and secreted in the presence of catabolin had the same average hydrodynamic size and ability to aggregate as the controls, and the core protein was substituted with the same number of glycosaminoglycan chains. The chains were the same average length and charge as normal and were sulphated to the same extent as the controls. Newly synthesized extracellular proteoglycan was not preferentially degraded. A 2-3-fold increase in glycosaminoglycan synthesis occurred in control and catabolin-treated cartilage in the presence of beta-D-xyloside (1 mM), more than 80% being secreted into the medium as free chains. Decreased incorporation of sulphate was not reversed in the presence of lysosomal-enzyme inhibitors, and there was no evidence in pulse-chase experiments of increased intracellular degradation of glycosaminoglycan chains before secretion. It is concluded that catabolin-treated cartilage synthesizes a smaller number of normal proteoglycan molecules.
Nonlinear, three-dimensional finite-element model of skin biomechanics. (1998)

The application of nonlinear biomechanics to soft-tissue finite-element modelling has been rewarding. The results correlate well with surgical experience. With specific regard to undermining, additional insight has been gained. Undermining broad-based soft-tissue flaps has progressively limited benefits. The computational demonstration of this result, consistent with prior animal studies, has not been previously published. Future application of this technology may permit the development of more complex flaps. Animal experimentation may be reduced and/or deferred until postulated flap designs have been simulated and refined.
Robust and adaptive extraction of RFI signals from ultra-wideband radar data (2012)

In this paper, we propose a novel, robust, and adaptive technique for the extraction of radio frequency interference (RFI) signals from ultra-wideband (UWB) radar data via sparse recovery. Unlike notch-filtering techniques that have been widely employed in the past, our proposed technique directly estimates and suppresses RFI signals from the UWB radar signal directly in time domain. Therefore, it does not suffer from several detrimental side effects such as high-sidelobe distortion and target-amplitude reduction as often observed in notch-filtering approaches. In addition, the technique is completely adaptive with highly time-varying environments and does not assume any knowledge (from frequency band to modulation scheme) of the RFI sources. The proposed technique is based on a sparse-recovery approach that simultaneously solves for (i) the UWB radar signal embedded in RFI noise with large amplitudes and (ii) RFI signals. Using both simulated and real-world data measured by the U.S. Army Research Laboratory (ARL) UWB synthetic aperture radar (SAR), we show that our proposed RFI extraction technique successfully recovers the UWB radar signal embedded in large-amplitude RFI signals. An average of 12 dB of RFI suppression is consistently realized in the real radar data experiments.
Blockstack: a Global naming and storage system secured by blockchains (2016)

Blockchains like Bitcoin and Namecoin and their respective P2P networks have seen significant adoption in the past few years and show promise as naming systems with no trusted parties. Users can register human meaningful names and securely associate data with them, and only the owner of the particular private keys that registered them can write or update the name-value pair. In theory, many decentralized systems can be built using these blockchain networks, such as new, decentralized versions of DNS and PKI. As the technology is relatively new and evolving rapidly, however, little production data or experience is available to guide design tradeoffs.

In this paper, we describe our experiences operating a large deployment of a decentralized PKI service built on top of the Namecoin blockchain. We present various challenges pertaining to network reliability, throughput, and security that we needed to overcome while registering and updating over 33,000 entries and 200,000 transactions on the Namecoin blockchain. Further, we discuss how our experience informed the design of a new blockchain-based naming and storage system called Blockstack. We detail why we switched from the Namecoin network to the Bitcoin network for the new system, and present operational lessons from this migration. Blockstack is released as open source software and currently powers a production PKI system for 55,000 users.
Enzymatic Synthesis of Deoxyribonucleic Acid (1969)

Abstract Binding of DNA and d(A-T) oligomers to DNA polymerase was studied by sucrose density gradient centrifugation. A single molecule of d(A-T) oligomer is bound by the enzyme, suggesting only one binding site for DNA. The binding is reversible, does not require Mg++, and is inhibited by high concentrations of phosphate. Polymerase binds at multiple sites along single-stranded DNA, but binds to helical DNA only at nicks or at ends of molecules.
Fullerenes from the Geological Environment (1992)

By means of high-resoluton transmission electron microscopy, both C(60) and C(70) fullerenes have been found in a, carbon-rich Precambrian rock from Russia The fullerenes were confirmed by Fourier transform mass spectrometry with both laser desorption and thermal desorption/electron-capture methods to verify that the fullerenes were indeed present in the geological sample and were not generated by the laser ionization event. The mass spectra were measured under conditions sufficient to resolve the (13)C/(12)C isotopic ratios for C(60) and C(70) and indicate that these ratios correspond to the normal range of isotopic values.
Drug Resistance Caused by Multidrug Resistance‐Associated Proteins (2002)

Three types of drug efflux pumps, the multidrug resistance gene 1 (MDR1 or ABCB1)-encoded P glycoprotein, the multidrug resistance-associated protein (MRP or ABCC1) and breast cancer resistance protein (BCRP or ABCG2) may play an important part in the intrinsic or acquired defence of cells against drugs. Recent studies have begun to show the broad tissue distribution and drug substrate specificity of the seven MRP family members (MRP1-7; or ABCC1-6 and ABCC10). MRPs are (multispecific) organic anion transporters, which can transport negatively charged anionic drugs and neutral drugs conjugated to glutathione, glucuronate or sulfate. MRP4 and MRP5 broaden the spectrum of drug resistance to nucleotide analogue drugs. Some MRPs can also transport neutral drugs if co-transported with glutathione. MRP1 and MRP5 are abundant in almost every organ and are prominently present in the brain. High levels of MRP1 are present in the epithelium of the choroid plexus. Using mutant mice lacking a functional Mrp1 gene, we have previously shown the contribution of MRP1 to the blood-CSF (cerebrospinal fluid) drug permeability barrier. Recent studies indicate that the very low levels of MRP1 or MDR1 present in fibroblasts affect their sensitivity to a wide range of clinically important cytotoxic drugs. Even low concentrations of drug transporters may therefore protect cells against drugs.
JOURNAL/jscr/04.03/00124278-201103000-00034/OV0312/v/2021-02-09T093750Z/r/image-png o2max and ventilatory threshold of trained cyclists are not affected by 28-day l-arginine supplementation (2010)

The ergogenic effect of L-arginine on an endurance-trained population is not well studied. The few studies that have investigated L-arginine on this population have not been conducted in a laboratory setting or measured aerobic variables. The purpose of the current study is to determine if 28 days of L-arginine supplementation in trained male cyclists affects VO2max and ventilatory threshold (VT). Eighteen (18) endurance-trained male cyclists (mean ± SD, age: 36.3 ± 7.9 years; height: 182.4 ± 4.6 cm; and body mass: 79.5 ± 4.7 kg) performed a graded exercise test (GXT; 50 W + 25 W·min) before and after 28 days of supplementation with L-arginine (ARG; 2 × 6 g·d) or placebo (PLA; cornstarch). The GXT was conducted on the subject's own bicycle using the RacerMate CompuTrainer (Seattle, WA, USA). VO2 was continuously recorded using the ParvoMedics TrueOne 2400 metabolic cart (Salt Lake City, UT, USA) and VT was established by plotting the ventilatory equivalent for O2 (VE/VO2) and the ventilatory equivalent for CO2 (VE/VCO2) and identifying the point at which VE/VO2 increases with no substantial changes in VE/VCO2. L-arginine supplementation had no effect from initial VO2max (PL, 58.7 ± 7.1 ml·kg·min; ARG, 63.5 ± 7.3 ml·kg·min) to postsupplement VO2max (PL, 58.9 ± 6.0 ml·kg·min; ARG, 63.2 ± 7.2 ml·kg·min). Also, no effect was seen from initial VT (PL, 75.7 ± 4.6% VO2max; ARG, 76.0 ± 5.3% VO2max) to postsupplement VT (PL, 74.3 ± 8.1% VO2max; ARG, 74.2 ± 6.4% VO2max). These results indicate that L-arginine does not impact VO2max or VT in trained male cyclists.
Electronic commerce ‐ would, could and should you use current Internet payment mechanisms? (1996)

Suggests that the discussion of online payments, while ultimately being a key issue for the future Information SuperHighway, is as significant now as it ever will be. The explosive increase in the use of the Internet has seen the emergence of commercial services and pressures previously restricted to Compuserve and the like. Many predictions see this burgeoning electronic marketplace becoming a significant component of the world economy. However, this can only happen once two key problems have been addressed, namely, protecting property rights, and making payments. This has led to a frantic battle for payment mechanisms that can provide the new medium with the means of conducting transactions. Identifies the key commercial requirements that successful use of the Internet will impose on a payment mechanism. Identifies the different types of mechanisms that are proposed, on trial or in use on the Internet. Evaluates each of these mechanisms against the requirements to determine which (if any) are really suitable for electronic commerce.
Breaking the affinity ceiling for antibodies and T cell receptors (2000)

Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans the biological, physical, and social sciences.
AlGaN/GaN metal oxide semiconductor heterostructure field effect transistor (2000)

We report on the AlGaN/GaN metal oxide semiconductor heterostructure field effect transistor (MOS-HFET) and present the results of the comparative studies of this device and a base line AlGaN/GaN heterostructure field effect transistor (HFET). For a 5-μ source-to-drain opening, the maximum current was close to 600 mA/mm for both devices. The gate leakage current for the MOS-HFET was more than six orders of magnitude smaller than for the HFET.
Selective hardware/software memory virtualization (2011)

As virtualization becomes a key technique for supporting cloud computing, much effort has been made to reduce virtualization overhead, so a virtualized system can match its native performance. One major overhead is due to memory or page table virtualization. Conventional virtual machines rely on a shadow mechanism to manage page tables, where a shadow page table maintained by the VMM (Virtual Machine Monitor) maps virtual addresses to machine addresses while a guest maintains its own virtual to physical page table. This shadow mechanism will result in expensive VM exits whenever there is a page fault that requires synchronization between the two page tables. To avoid this cost, both Intel and AMD provide hardware assists, EPT (extended page table) and NPT (nested page table), to facilitate address translation. With the hardware assists, the MMU (Memory Management Unit) maintains an ordinary guest page table that translates virtual addresses to guest physical addresses. In addition, the extended page table as provided by EPT translates from guest physical addresses to host physical or machine addresses. NPT works in a similar style. With EPT or NPT, a guest page fault can be handled by the guest itself without triggering VM exits. However, the hardware assists do have their disadvantage compared to the conventional shadow mechanism -- the page walk yields more memory accesses and thus longer latency. Our experimental results show that neither hardware-assisted paging (HAP) nor shadow paging (SP) can be a definite winner. Despite the fact that in over half of the cases, there is no noticeable gap between the two mechanisms, an up to 34% performance gap exists for a few benchmarks. We propose a dynamic switching mechanism that monitors TLB misses and guest page faults on the fly, and dynam-ically switches between the two paging modes. Our experiments show that this new mechanism can match and, sometimes, even beat the better performance of HAP and SP.
Molecular determinants of dysplasia in colorectal lesions. (1994)

One hallmark of malignant potential is dysplasia, the disruption of normal morphology. While it is generally recognized that cancer is the result of a series of genetic changes, the relationship of these alterations and their timing to the advent of dysplasia remains obscure. To address this issue, 54 small benign colorectal lesions of various malignant potential were analyzed for APC and K-RAS mutations, two alterations which have been implicated in the early stages of colorectal tumorigenesis. APC mutations were closely associated with dysplasia. In contrast, K-RAS mutations were found to be remarkably common in small nondysplastic lesions which apparently have a limited potential to progress to larger tumors. These results provide evidence that the nature and order of genetic changes can have a specific impact on both tumor morphology (e.g., dysplasia) and the likelihood of tumor progression.
Photorefractive keratectomy: A technique for laser refractive surgery (1988)

The excimer laser offers entirely new corneal surgery procedures. In this paper, we describe conditions for one such procedure, photorefractive keratectomy, the direct reshaping of the cornea's central optical zone using tissue ablation with far ultraviolet radiation. We present equations for the required tissue ablation to achieve required refractive corrections. Conditions for beam uniformity are presented and a method of achieving better beam uniformity using beam integration by rotation is demonstrated. The healing of rabbit corneas after area ablation was observed. Five days after treatment, the surface quality of deep cuts was very irregular; the shallow cuts produced more regular results, as predicted by our calculations of beam characteristics.
Adenoviral Vector as a Gene Delivery System into Cultured Rat Neuronal and Glial Cells (1993)

Previous studies have demonstrated that a defective recombinant adenovirus can infect a wide range of postmitotic and slowly proliferating cell types such as hepatocytes, myotubes, pneumocytes and intestinal cells (Stratford-Perricaudet et al., Hum. Gene Ther., 1, 241-256, 1990; Quantin et al., Proc. Natl. Acad. Sci. USA, 89, 2581-2584, 1992; Jaffe et al., Nature Genetics, 1, 372-378, 1992). We have used a defective recombinant adenovirus, Ad.RSV beta gal, containing the Escherichia coli beta-galactosidase gene targeted to the nucleus under the transcriptional control of the Rous sarcoma virus long terminal repeat promoter (Stratford-Perricaudet et al., J. Clin. Invest., 90, 626-630, 1992) to infect non-dividing neural cells in primary culture. We show that 80-100% of neuronal and astroglial cells infected with a viral titre lower than 10(9) p.f.u./ml express beta-galactosidase for at least 1 month without cell damage. These results demonstrate the potential usefulness of recombinant adenovirus infection for the analysis of brain-specific gene regulation and for the transfer of genes into neural cells before their transplantation into the brain.
Neutral beam dump with cathodic arc titanium gettering (2011)

An incomplete neutral beam capture can degrade the plasma performance in neutral beam driven plasma machines. The beam dumps mitigating the shine-through beam recycling must entrap and retain large particle loads while maintaining the beam-exposed surfaces clean of the residual impurities. The cathodic arc gettering, which provides high evaporation rate coupled with a fast time response, is a powerful and versatile technique for depositing clean getter films in vacuum. A compact neutral beam dump utilizing the titanium arc gettering was developed for a field-reversed configuration plasma sustained by 1 MW, 20-40 keV neutral hydrogen beams. The titanium evaporator features a new improved design. The beam dump is capable of handling large pulsed gas loads, has a high sorption capacity, and is robust and reliable. With the beam particle flux density of 5 × 10(17) H∕(cm(2) s) sustained for 3-10 ms, the beam recycling coefficient, defined as twice the ratio of the hydrogen molecular flux leaving the beam dump to the incident flux of high-energy neutral atoms, is ∼0.7. The use of the beam dump allows us to significantly reduce the recycling of the shine-through neutral beam as well as to improve the vacuum conditions in the machine.
External accumulation of ions for enhanced electrospray ionization fourier transform ion cyclotron resonance mass spectrometry (1997)

Electrospray ionization (ESI) in combination with Fourier transform ion cyclotron resonance (FTICR) mass spectrometry provides for mass analysis of biological molecules with unrivaled mass accuracy, resolving power and sensitivity. However, ESI FTICR MS performance with on-line separation techniques such as liquid chromatography (LC) and capillary electrophoresis has to date been limited primarily by pulsed gas assisted accumulation and the incompatibility of the associated pump-down time with the frequent ion beam sampling requirement of on-line chromatographic separation. Here we describe numerous analytical advantages that accrue by trapping ions at high pressure in the first rf-only octupole of a dual octupole ion injection system before ion transfer to the ion trap in the center of the magnet for high performance mass analysis at low pressure. The new configuration improves the duty cycle for analysis of continuously generated ions, and is thus ideally suited for on-line chromatographic applications. LC/ESI FTICR MS is demonstrated on a mixture of 500 fmol of each of three peptides. Additional improvements include a fivefold increase in signal-to-noise ratio and resolving power compared to prior methods on our instrument.