gebhart/patrepeval huggingface dataset:
Tumor‐targeting properties of antibody–vascular endothelial growth factor fusion proteins (2002)

Abstract A major problem of antibody‐based targeting of solid tumors is the poor penetration of antibodies into tumor tissue. Vasoactive immunoconjugates have been proposed as a means of increasing antibody uptake in tumors. In principle, VEGF (also known as vascular permeability factor) could selectively alter vascular permeability, leading to improved tumor targeting. A possible role for VEGF in the targeting of tumor neovasculature has been postulated, based on the overexpression of VEGF receptors in tumor endothelial cells. However, quantitative biodistribution studies on this topic are not available. In this report, we describe the cloning, expression, characterization and biodistribution in tumor‐bearing mice of antibodies fused to either VEGF 120 or VEGF 164 The MAb fragments chosen for analysis were scFv(L19), specific for the ED‐B domain of fibronectin, a marker of angiogenesis, and scFv(HyHEL‐10), a negative control antibody of irrelevant specificity in mice. Neither unconjugated VEGF nor scFv(HyHEL‐10)–VEGF fusion proteins showed accumulation in the tumor (tumor:blood ratios approx. 1 at 4 hr and 24 hr postinjection). By contrast, scFv(L19)–VEGF 120 but not scFv(L19)–VEGF 164 showed significant accumulation in tumors (tumor:blood ratio = 9.3 at 24 hr) but was not superior to unconjugated scFv(L19). Preinjection of unlabeled scFv(L19)–VEGF 120 prior to administration of radiolabeled fusion protein led to increased accumulation of radiolabeled scFv(L19)–VEGF 120 in the tumor but only at very high concentrations (20 μg/mouse). © 2002 Wiley‐Liss, Inc.
Transient expression of members of the germin‐like gene family in epidermal cells of wheat confers disease resistance (1999)

The wheat genome encodes a family of germin-like proteins that differ with respect to regulation and tissue specificity of expression of the corresponding genes. While germin exhibits oxalate oxidase (E.C. 1.2.3.4.) activity, the germin-like proteins (GLPs) have no known enzymatic activity. A role of oxalate oxidase in plant defence has been proposed, based on the capacity of the enzyme to produce H2O2, a reactive oxygen species. The role in defence of germin and other members of the germin-like gene family was functionally assessed in a transient assay system based on particle bombardment of wheat leaves. Transient expression of the pathogen-induced germin gf-2.8 gene, but not of the constitutively expressed HvGLP1 gene, reduced the penetration efficiency of Blumeria (syn. Erysiphe) graminis f.sp. tritici, the causal agent of wheat powdery mildew, on transformed cells. Two engineered germin-gf-2.8 genes and the TaGLP2a gene, which all encoded proteins without oxalate oxidase activity, also reduced the penetration efficiency of the fungus, demonstrating that oxalate oxidase activity is not required for conferring enhanced resistance. Instead, activity tagging experiments showed that in cells transiently expressing the germin gf-2.8 gene, the transgene product became insolubilized at sites of attempted fungal penetration where localised production of H2O2 was observed. Thus, germin and GLPs may play a structural role in cell-wall re-enforcement during pathogen attack.
Additively Homomorphic Encryption with d-Operand Multiplications. (2008)

The search for encryption schemes that allow to evaluate functions (or circuits) over encrypted data has attracted a lot of attention since the seminal work on this subject by Rivest, Adleman and Dertouzos in 1978. In this work we define a theoretical object, chained encryption schemes, which allow an efficient evaluation of polynomials of degree d over encrypted data. Chained encryption schemes are generically constructed by concatenating cryptosystems with the appropriate homomorphic properties; such schemes are common in lattice-based cryptography. As a particular instantiation we propose a chained encryption scheme whose IND-CPA security is based on a worst-case/average-case reduction from uSVP.
Biopharmaceuticals derived from genetically modified plants (2004)

Modern biotechnology has resulted in a resurgence of interest in the production of new therapeutic agents using botanical sources. With nearly 500 biotechnology products approved or in development globally, and with production capacity limited, the need for efficient means of therapeutic protein production is apparent. Through genetic engineering, plants can now be used to produce pharmacologically active proteins, including mammalian antibodies, blood product substitutes, vaccines, hormones, cytokines, and a variety of other therapeutic agents. Efficient biopharmaceutical production in plants involves the proper selection of host plant and gene expression system, including a decision as to whether a food crop or a non-food crop is more appropriate. Product safety issues relevant to patients, pharmaceutical workers, and the general public must be addressed, and proper regulation and regulatory oversight must be in place prior to commercial plant-based biopharmaceutical production. Plant production of pharmaceuticals holds great potential, and may become an important production system for a variety of new biopharmaceutical products.
Simple Synthesis and Characterization of Cobalt Ferrite Nanoparticles by a Thermal Treatment Method (2010)

Crystalline, magnetic, cobalt ferrite nanoparticles were synthesized from an aqueous solution containing metal nitrates and polyvinyl pyrrolidone (PVP) as a capping agent by a thermal treatment followed by calcination at various temperatures from 673 to 923 K. The structural characteristics of the calcined samples were determined by X‐ray diffraction (XRD), Fourier transform infrared spectroscopy (FT‐IR), and transmission electron microscopy (TEM). A completed crystallization occurred at 823 and 923 K, as shown by the absence of organic absorption bands in the FT‐IR spectrum. Magnetization measurements were obtained at room temperature by using a vibrating sample magnetometer (VSM), which showed that the calcined samples exhibited typical magnetic behaviors.
The role of prostaglandins in the regulation of bone metabolism. (1995)

Prostaglandins are likely to play an important role in the physiologic and pathologic responses of skeletal tissue. They are potent agonists that can stimulate and inhibit bone resorption and formation. In vivo, the major effect of exogenous prostaglandins, particularly prostaglandin E2, is to stimulate resorption and formation. These effects appear to involve replication and differentiation of osteoclast and osteoblast precursors, and to be mediated at least in part by cyclic 3' 5' adenosine monophosphate. Prostaglandins can inhibit the activity of isolated osteoclasts, probably also by a cyclic 3' 5' adenosine monophosphate-mediated mechanism. Inhibition of collagen synthesis can be seen in cell and organ cultures and appears to be caused by a receptor selective for prostaglandins of the F series and to involve activation of protein kinase C. Prostaglandin production by bone cells is regulated highly by mechanical forces, cytokines, growth factors, and systemic hormones. Prostaglandins also can amplify their own production. Regulation is associated with marked changes in the newly described "inducible" prostaglandin G/H synthase with less effect on the constitutive enzyme. Prostaglandins also may play a role in postmenopausal bone loss because estrogen deficiency, which increases bone turnover, can increase prostaglandin production in bone.
Centrifugal microfluidics for biomedical applications (2010)

The centrifugal microfluidic platform has been a focus of academic and industrial research efforts for almost 40 years. Primarily targeting biomedical applications, a range of assays have been adapted on the system; however, the platform has found limited commercial success as a research or clinical tool. Nonetheless, new developments in centrifugal microfluidic technologies have the potential to establish wide-spread utilization of the platform. This paper presents an in-depth review of the centrifugal microfluidic platform, while highlighting recent progress in the field and outlining the potential for future applications. An overview of centrifugal microfluidic technologies is presented, including descriptions of advantages of the platform as a microfluidic handling system and the principles behind centrifugal fluidic manipulation. The paper also discusses a history of significant centrifugal microfluidic platform developments with an explanation of the evolution of the platform as it pertains to academia and industry. Lastly, we review the few centrifugal microfluidic-based sample-to-answer analysis systems shown to date and examine the challenges to be tackled before the centrifugal platform can be more broadly accepted as a new diagnostic platform. In particular, fully integrated, easy to operate, inexpensive and accurate microfluidic tools in the area of in vitro nucleic acid diagnostics are discussed.
Sequential abstract-state machines capture sequential algorithms (2000)

We examine sequential algorithms and formulate a sequential-time postulate, an abstract-state postulate, and a bounded-exploration postulate . Analysis of the postulates leads us to the notion of sequential abstract-state machine and to the theorem in the title. First we treat sequential algorithms that are deterministic and noninteractive. Then we consider sequential algorithms that may be nondeterministic and that may interact with their environments.
Trafficking of cell-surface amyloid β-protein precursor: I. Secretion, endocytosis and recycling as detected by labeled monoclonal antibody (1996)

Amyloid beta-protein, the principal constituent of amyloid fibrils found in senile plaques and blood vessels in Alzheimer's disease, is constitutively produced and released into medium of cultured cells. Amyloid beta-protein is derived by proteolysis of the beta-amyloid precursor protein by unclear mechanisms. Beta-amyloid precursor protein is a transmembrane protein which can be processed to release a large secretory product or processed in the endosomal/lysosomal pathway without secretion. Previous studies have shown that from the cell surface, beta-amyloid precursor protein may be released after cleavage or internalized without cleavage, the latter in a pathway that both produces amyloid beta-protein and also targets some molecules to the lysosomal compartment. Analysis of beta-amyloid precursor protein trafficking is confounded by the concomitant secretion and internalization of molecules from the cell surface. To address this issue, we developed an assay, based on the binding of radioiodinated monoclonal antibody, to measure the release and internalization of cell surface beta-amyloid precursor protein in transfected cells. With this approach, we showed that surface beta-amyloid precursor protein is either rapidly released or internalized, such that the duration at the cell surface is very short. Approximately 30% of cell surface beta-amyloid precursor protein molecules are released. Following internalization, a fraction of molecules are recycled while the majority of molecules are rapidly sorted to the lysosomal compartment for degradation When the C terminus of beta-amyloid precursor protein is deleted, secretion is increased by approximately 2.5-fold as compared to wild-type molecules. There is concomitant decrease in internalization in these mutant molecules as well as prolongation of the resident time on the cell surface. This observation is consistent with recent evidence that signals within the cytoplasmic domain mediate beta-amyloid precursor protein internalization.
Two-year Follow-up of Chronic Stimulation of the Posterior Subthalamic White Matter for Tremor-dominant Parkinson's Disease (2005)

Unilateral ZI/PRL stimulation is a reliable and long-term therapeutic modality and can be considered another surgical target for the treatment of tremor-dominant Parkinson's disease.
Mutations affecting the signal sequence alter synthesis and secretion of yeast invertase. (1986)

Insertion mutations previously constructed within the proximal region of the yeast invertase signal sequence did not interfere with secretion or glycosylation of the enzyme. We now describe deletion mutations within the same signal sequence. Large deletions truncating the hydrophobic core of the signal peptide prevented both secretion and glycosylation of the enzyme and increased the intracellular concentration of nonglycosylated invertase. This increase was coupled with the appearance of a new invertase polypeptide, 2 kilodaltons larger than cytoplasmic invertase. The new polypeptide was consistent in size with uncleaved (signal peptide intact) pre-secretory invertase previously identified by using in vitro translation (apparent molecular mass, 62 kilodaltons). The data on enzyme activity indicate that invertase whose secretion is aborted by large deletion mutations augments the normal pool of cytoplasmic invertase found in sucrose-fermenting yeast cells.
Towards effective neuromorphic controllers (2002)

A feedforward controller based on a multilayer neural network and several control configurations is proposed. The basic weak points of the controller are discussed and several approaches to attain better performance are investigated. These include, among other aspects, faster updating algorithms, efficient use of the available knowledge about the plant, better training procedures, hybrid configurations using nonneural control techniques, efficient definition of the structure, and initialization and prelearning of the neuromorphic controller.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
A Novel Bis-Tetrahydrofuranylurethane-Containing Nonpeptidic Protease Inhibitor (PI), GRL-98065, Is Potent against Multiple-PI-Resistant Human Immunodeficiency Virus In Vitro (2007)

We designed, synthesized, and identified GRL-98065, a novel nonpeptidic human immunodeficiency virus type 1 (HIV-1) protease inhibitor (PI) containing the structure-based designed privileged cyclic ether-derived nonpeptide P2 ligand, 3(R),3a(S),6a(R)-bis-tetrahydrofuranylurethane (bis-THF), and a sulfonamide isostere, which is highly potent against laboratory HIV-1 strains and primary clinical isolates (50% effective concentration [EC(50)], 0.0002 to 0.0005 microM) with minimal cytotoxicity (50% cytotoxicity, 35.7 microM in CD4(+) MT-2 cells). GRL-98065 blocked the infectivity and replication of each of the HIV-1(NL4-3) variants exposed to and selected by up to a 5 microM concentration of saquinavir, indinavir, nelfinavir, or ritonavir and a 1 microM concentration of lopinavir or atazanavir (EC(50), 0.0015 to 0.0075 microM), although it was less active against HIV-1(NL4-3) selected by amprenavir (EC(50), 0.032 microM). GRL-98065 was also potent against multiple-PI-resistant clinical HIV-1 variants isolated from patients who had no response to existing antiviral regimens after having received a variety of antiviral agents, HIV-1 isolates of various subtypes, and HIV-2 isolates examined. Structural analyses revealed that the close contact of GRL-98065 with the main chain of the protease active-site amino acids (Asp29 and Asp30) is important for its potency and wide-spectrum activity against multiple-PI-resistant HIV-1 variants. The present data demonstrate that the privileged nonpeptide P2 ligand, bis-THF, is critical for the binding of GRL-98065 to the HIV protease substrate binding site and that this scaffold can confer highly potent antiviral activity against a wide spectrum of HIV isolates.
Effect of Remote Ischemic Preconditioning on Acute Kidney Injury in Nondiabetic Patients Undergoing Coronary Artery Bypass Graft Surgery: A Secondary Analysis of 2 Small Randomized Trials (2010)

RIPC induced using transient forearm ischemia decreased the incidence of AKI in nondiabetic patients undergoing elective CABG surgery in this retrospective analysis. A large prospective clinical trial is required to study this effect and clinical outcomes in patients undergoing cardiac surgery.
Diffusion of Sb in relaxed Si1−xGex (1996)

Diffusion of antimony in relaxed Si1−xGex alloy layers grown by molecular beam epitaxy has been studied as a function of the composition for 0≤x≤0.5. The diffusivity of antimony was found to increase with the Ge alloy content, and the extracted activation energies for diffusion were found to decrease with increasing germanium content in the investigated composition range. The activation energies, however, are significantly higher than the corresponding activation energies obtained by an extrapolation between the activation energy in pure silicon and germanium.
Risk and Outcome of Breakthrough COVID-19 Infections in Vaccinated Patients With Cancer: Real-World Evidence From the National COVID Cohort Collaborative (2022)

Real-world evidence shows that patients with cancer, especially hematologic malignancies, are at higher risk for developing breakthrough infections and severe outcomes. Patients with vaccination were at markedly decreased risk for breakthrough infections. Further work is needed to assess boosters and new SARS-CoV-2 variants.
<title>Digital radiology using self-scanned readout of amorphous selenium</title> (1993)

A large area, flat panel detector is being investigated for digital radiological imaging (radiography and fluoroscopy). The detector consists of an x-ray sensitive photoconductor to interact with x-rays and convert the absorbed energy to electron-hole pairs. The released charge is collected and stored on pixel electrodes and subsequently is read out electronically with an active matrix, i.e. a two dimensional array of thin films transistors (TFTs). The basic properties of the detector based on the characteristics of the photoconductor, the active matrix and the external charge amplifiers are analyzed.
Anti-HER2 immunoliposomes: enhanced efficacy attributable to targeted delivery. (2002)

Anti-HER2 immunoliposomes produced enhanced antitumor efficacy via targeted delivery.
AR-A014418, a selective GSK-3 inhibitor, produces antidepressant-like effects in the forced swim test (2004)

The mechanism by which lithium exerts either its anti-manic or antidepressant effects remains to be fully elucidated. Although lithium inhibits the enzyme glycogen synthase kinase-3 (GSK-3) at concentrations that are relevant for treatment of bipolar disorder, it is unclear whether GSK-3-related mechanisms are responsible for its therapeutic effects in the treatment of this disease. We report that AR-A014418 (a selective GSK-3 inhibitor) induces behavioural changes that are consistent with the effects of antidepressant medications. Subacute intraperitoneal injections of AR-A014418 reduced immobility time in rats exposed to the forced swim test, a well-established model for antidepressant efficacy. In addition, the specificity of this effect is supported by our finding that AR-A014418 decreased spontaneous as well as amphetamine-induced activity. Taken together, these data support the hypothesis that lithium may exert its antidepressant effects through inhibition of GSK-3, and that novel small-molecule GSK-3 inhibitors may be useful for the treatment of bipolar disorder and depression.
Plasma amyloid β, apolipoprotein E, lacunar infarcts, and white matter lesions (2004)

Lacunar brain infarcts and cerebral white matter lesions are frequently observed on magnetic resonance imaging scans in elderly subjects. These lesions are also frequent in patient with cerebral amyloid angiopathy. We examined whether plasma amyloid beta peptide (Abeta) levels are associated with lacunar infarcts and white matter lesions in the general population, and whether the apolipoprotein E (APOE) genotype modifies these associations. We studied 1,077 participants within the population-based Rotterdam Scan Study, who were 60 to 90 years of age and free of dementia. Cross-sectional associations were analyzed by regression models with adjustments for age, sex, creatinine levels, and hypertension. In APOE epsilon4 carriers, plasma Abeta levels were positively associated with lacunar infarcts and white matter lesions, whereas in noncarriers no associations were observed. Per standard deviation increase in Abeta(1-40) and Abeta(1-42) levels the odds ratios for lacunar infarcts were 1.72 (95% confidence interval [CI] = 1.22-2.43) and 1.93 (95% CI = 1.31-2.85), the periventricular white matter lesion grade increased by 0.32 (95% CI = 0.08-0.57) and 0.29 (95% CI = 0.00-0.57), and the subcortical white matter lesion volume increased by 0.48 ml (95% CI = 0.04-0.91) and 0.24 ml (95% CI = -0.27-0.75). Higher Abeta levels are associated with more lacunar infarcts and white matter lesions in elderly subjects who carry an APOE epsilon4 allele.
Validation of Diagnostic Tests for Infectious Diseases (2003)

Validation involves all processes that determine the performance of an assay to achieve a defined set of objectives. Only when actual data have been obtained can test parameters be assessed and confidence in results be assigned in a statistical sense. Validation is a continuous process, in which increasing knowledge about an assay is gained each time it is run. The continuous process also involves data obtained when the test is performed in hitherto untried scenarios. Since most assays begin in the research arena, the use of validated assays in the form of kits by a wider range of scientists in laboratories varying widely in expertise, equipment, and climatic conditions can cause problems. The objective in validation is to be able to define an assay in terms of statistically quantifiable parameters with measured confidence. The designation of “validated assay” is only merited when it has been defined in terms of its capacity to classify samples with regard to the presence or absence of a particular analyte. Validation relies on examination of as many factors as possible. At any stage, quantifiable parameters must be defined describing the test and mechanisms to reevaluate be put into place.
Everything you wanted to know about MPEG-7. 1 (1999)

Audio-visual information must allow some degree of interpretation, which can be passed onto, or accessed by a device or a computer code. MPEG-7 aims to create a standard for describing these operational requirements. We provide an overview on the development, functionality, and applicability of MPEG-7. We present the role of MPEG-7 and outline ideas for using MPEG-7 technology based on examples of improved versions of existing applications as well as completely new ones. The MPEG standards preceding MPEG-7 have mainly addressed coded representation of audio-visual information. MPEG-7, on the other hand, focuses on the standardization of a common interface for describing multimedia materials (representing information about the content, but not the content itself ("the bits about the bits")). In this context, MPEG-7 addresses aspects such as facilitating interoperability and globalization of data resources and flexibility of data management.
ELEVATED SERUM INTACT PARATHYROID HORMONE LEVELS IN ELDERLY PATIENTS WITH HIP FRACTURE (1989)

It has been postulated that secondary hyperparathyroidism contributes to bone loss and the high incidence of hip fractures in the elderly population, but there are no data on serum intact parathyroid hormone concentrations in these patients. In this study, serum intact parathyroid hormone (PTH) levels have been measured in 39 elderly patients with hip fracture; in addition, serum 25-hydroxyvitamin D3 and 1,25-dihydroxyvitamin D3 concentrations have been measured. Twenty patients (51.3%) had elevated serum intact PTH concentrations whilst five (12.8%) had abnormally low serum 25-hydroxyvitamin D3 levels and serum 1,25-dihydroxyvitamin D3 was reduced in only two. These results provide the first direct evidence for secondary hyperparathyroidism in elderly patients with hip fracture. Vitamin D deficiency is unlikely to be the sole cause of secondary hyperparathyroidism in these subjects and calcium deficiency by itself may also contribute.