gebhart/patrepeval huggingface dataset:
Imaging diagnosis of pancreatic cancer: A state-of-the-art review (2014)

Pancreatic cancer (PC) remains one of the deadliest cancers worldwide, and has a poor, five-year survival rate of 5%. Although complete surgical resection is the only curative therapy for pancreatic cancer, less than 20% of newly-diagnosed patients undergo surgical resection with a curative intent. Due to the lack of early symptoms and the tendency of pancreatic adenocarcinoma to invade adjacent structures or to metastasize at an early stage, many patients with pancreatic cancer already have advanced disease at the time of their diagnosis and, therefore, there is a high mortality rate. To improve the patient survival rate, early detection of PC is critical. The diagnosis of PC relies on computed tomography (CT) and/or magnetic resonance imaging (MRI) with magnetic resonance cholangiopancreatography (MRCP), or biopsy or fine-needle aspiration using endoscopic ultrasound (EUS). Although multi-detector row computed tomography currently has a major role in the evaluation of PC, MRI with MRCP facilitates better detection of tumors at an early stage by allowing a comprehensive analysis of the morphological changes of the pancreas parenchyma and pancreatic duct. The diagnosis could be improved using positron emission tomography techniques in special conditions in which CT and EUS are not completely diagnostic. It is essential for clinicians to understand the advantages and disadvantages of the various pancreatic imaging modalities in order to be able to make optimal treatment and management decisions. Our study investigates the current role and innovative techniques of pancreatic imaging focused on the detection of pancreatic cancer.
Laboratory protocols for mutation detection (1996)

The 3rd international workshop on mutation detection, Mutation Detection 1995, was held in Visby, Sweden from 18-21 May 1995. The meeting was held under the aegis of HUGO, the Human Genome Organisation, with financial support from Abbott Laboratories, Amersham International Plc, Applied Technology Genetics Corporation, Bio-Pad Laboratories, County Administrative Board of Gotland, European Commission, Federation of European Biochernical Societies, International Science Foundation, Nordic Academy of Advanced Study, Perkin Elmer Applied Biosystems, Pharmacia Biotech AB, Progene Lab AB, Roche Molecular Systems Inc., Sangtec Medical AB, Scandinavian Diagnostic Services, Swedish Cancer Society, Swedish Medical Research Council, Swedish Technical Research Council.
Effects of basement membrane matrix on the culture of fetal mouse hepatocytes. (1983)

The effects of laminin, fibronectin and type IV collagen, all of which are major matrix components of the basement membrane, upon fetal mouse hepatocyte culture were studied. Among these matrices, laminin showed the greatest effect on DNA synthesis, cell proliferation, the secretion of alpha-fetoprotein and cell attachment. The effects of fibronectin and type IV collagen were slight with regard to the promotion of growth and cell attachment. However, there were no differences in the secretion of albumin into the media among the groups. These results suggest that laminin may be necessary for the cellular growth and functional maintenance of immature liver cells during normal development of the liver in vivo.
Fundamentals of neural networks: architectures, algorithms, and applications (1994)

1. Introduction. 2. Simple Neural Nets for Pattern Classification. 3. Pattern Association. 4. Neural Networks Based on Competition. 5. Adaptive Resonance Theory. 6. Backpropagation Neural Net. 7. A Sampler of Other Neural Nets. Glossary. References. Index.
Replication-selective adenoviruses as oncolytic agents (2000)

Adenovirus biology and cancer biology have progressed in a complementary fashion. For example, proteins encoded at the virus’ E1 region were found to bind to the tumor suppressor proteins p53 and pRB, and these interactions played an important role in characterizing the role of these tumor suppressors in virus-dependent and -independent transformation (1, 2). Perhaps, then, it is a natural extension of this history that human adenoviruses are now being developed as anticancer agents. Ironically, although advances in genetic engineering have permitted the development of replication-disabled adenoviruses as simple delivery vehicles for therapeutic genes (3–5), replication-competent wildtype strains were actually the first to be administered safely to patients (6). Now, nearly a half-century later, replication-competent adenoviruses are once again being studied as therapeutic agents (7–9). However, genetic engineering has now been used with the goal of maximizing tumor-selective replication.
Estimating average growth trajectories in shape-space using kernel smoothing (2003)

In this paper, we show how a dense surface point distribution model of the human face can be computed and demonstrate the usefulness of the high-dimensional shape-space for expressing the shape changes associated with growth and aging. We show how average growth trajectories for the human face can be computed in the absence of longitudinal data by using kernel smoothing across a population. A training set of three-dimensional surface scans of 199 male and 201 female subjects of between 0 and 50 years of age is used to build the model.
Encapsulation of Guest Molecules into a Dendritic Box (1994)

Dendrimers are well-defined, highly branched macromolecules that emanate from a central core and are synthesized through a stepwise, repetitive reaction sequence. The synthesis and characterization of dendritic boxes, based on the construction of a chiral shell of protected amino acids onto poly(propyleneimine) dendrimers with 64 amine end groups, is reported here. Nuclear magnetic resonance-relaxation and optical data show that a dense shell with solid-phase character is formed. Guest molecules were captured within the internal cavities of the boxes when these boxes were constructed in the presence of guest molecules. The diffusion of guest molecules out of the boxes into solution was unmeasurably slow because of the close packing of the shell. These monomolecular dendritic containers of 5-nanometer dimensions with physically locked-in guest molecules were characterized spectroscopically.
Parametric amplification in a torsional microresonator (2000)

We observe parametric amplification in a torsional micron-scale mechanical resonator. An applied voltage is used to make a dynamic change to the torsional spring constant. Oscillating the spring constant at twice the resonant frequency results in a phase dependent amplification of the resonant motion. Our results agree well with the theory of parametric amplification. By taking swept frequency measurements, we observe interesting structure in the resonant response curves.
Lipid-Based Passivation in Nanofluidics (2012)

Stretching DNA in nanochannels is a useful tool for direct, visual studies of genomic DNA at the single molecule level. To facilitate the study of the interaction of linear DNA with proteins in nanochannels, we have implemented a highly effective passivation scheme based on lipid bilayers. We demonstrate virtually complete long-term passivation of nanochannel surfaces to a range of relevant reagents, including streptavidin-coated quantum dots, RecA proteins, and RecA-DNA complexes. We show that the performance of the lipid bilayer is significantly better than that of standard bovine serum albumin-based passivation. Finally, we show how the passivated devices allow us to monitor single DNA cleavage events during enzymatic degradation by DNase I. We expect that our approach will open up for detailed, systematic studies of a wide range of protein-DNA interactions with high spatial and temporal resolution.
TNBS-Colitis (2000)

Disease states, such as the occurrence of gastrointestinal inflammation (Crohn's disease and ulcerative colitis), can be secondary to a host of determinants that act in conjunction to bring about pathologic change. The underlying factors that mediate the development of such mucosal inflammation has recently been brought to the forefront with the advent of animal models. The examination of these animal models have given researchers a better understanding of the mechanisms involved in the pathogenesis of inflammatory bowel disease. This review discusses one such model, TNBS-colitis, and the insights that it provides into the occurrence of IBD and its future treatment.
Transcriptional Repression of p53 Promoter by Hepatitis C Virus Core Protein (1997)

Our previous results have suggested that the putative core protein of hepatitis C virus (HCV) transcriptionally regulates cellular and viral genes, inhibits cisplatin and c-myc-mediated apoptotic cell death under certain conditions, and transforms primary rat embryo fibroblast cells with a cooperative oncogene. Because HCV appears to cause hepatocellular carcinoma, we evaluated the regulatory role of the HCV core protein on p53, a well known tumor suppressor gene, by an in vitro transfection assay. HCV core protein repressed transcriptional activity of the p53 promoter when tested separately in COS7 and HeLa cells. Deletion mutational analysis of the HCV core gene indicated that the regulatory domain involved in the repression of p53 transcriptional activity is located around amino acid residues 80-122 encompassing a putative DNA binding motif and two major phosphorylation sites. Results from this study suggest that the putative core protein may have an important biological role in the promotion of cell growth by repressing p53 transcription, and this appears to be consistent with certain earlier observations about HCV core moving into the nucleus.
Wafer plane inspection for advanced reticle defects (2008)

Readiness of new mask defect inspection technology is one of the key enablers for insertion & transition of the next generation technology from development into production. High volume production in mask shops and wafer fabs demands a reticle inspection system with superior sensitivity complemented by a low false defect rate to ensure fast turnaround of reticle repair and defect disposition (W. Chou et al 2007). Wafer Plane Inspection (WPI) is a novel approach to mask defect inspection, complementing the high resolution inspection capabilities of the TeraScanHR defect inspection system. WPI is accomplished by using the high resolution mask images to construct a physical mask model (D. Pettibone et al 1999). This mask model is then used to create the mask image in the wafer aerial plane. A threshold model is applied to enhance the inspectability of printing defects. WPI can eliminate the mask restrictions imposed on OPC solutions by inspection tool limitations in the past. Historically, minimum image restrictions were required to avoid nuisance inspection stops and/or subsequent loss of sensitivity to defects. WPI has the potential to eliminate these limitations by moving the mask defect inspections to the wafer plane. This paper outlines Wafer Plane Inspection technology, and explores the application of this technology to advanced reticle inspection. A total of twelve representative critical layers were inspected using WPI die-to-die mode. The results from scanning these advanced reticles have shown that applying WPI with a pixel size of 90nm (WPI P90) captures all the defects of interest (DOI) with low false defect detection rates. In validating CD predictions, the delta CDs from WPI are compared against Aerial Imaging Measurement System (AIMS), where a good correlation is established between WPI and AIMS<sup>TM</sup>.
Decreased adrenergic neuronal uptake activity in experimental right heart failure. A chamber-specific contributor to beta-adrenoceptor downregulation. (1989)

The reduction of myocardial beta-adrenoceptor density in congestive heart failure has been thought to be caused by agonist-induced homologous desensitization. However, recent evidence suggests that excessive adrenergic stimulation may not produce myocardial beta-receptor downregulation unless there is an additional defect in the local norepinephrine (NE) uptake mechanism. To investigate the association between beta-adrenoceptor regulation and NE uptake activity, we carried out studies in 30 dogs with right heart failure (RHF) produced by tricuspid avulsion and progressive pulmonary artery constriction and 23 sham-operated control dogs. We determined NE uptake activity by measuring accumulation of [3H]NE in tissue slices, NE uptake-1 carrier density by [3H]mazindol binding and beta-adrenoceptor density by [3H]dihydroalprenolol binding. Compared with sham-operated dogs, RHF dogs showed a 26% decrease in beta-adrenoceptor density, a 51% reduction in NE uptake activity, and a 57% decrease in NE uptake-1 carrier density in their right ventricles. In addition, right ventricle beta-receptor density correlated significantly with NE uptake activity and NE uptake-1 carrier density. In contrast, neither NE uptake activity nor beta-receptor density in the left ventricle and renal cortex was affected by RHF. Thus, the failing myocardium is associated with an organ- and chamber-specific subnormal neuronal NE uptake. This chamber-specific loss of NE uptake-1 carrier could effectively reduce local NE clearance, and represent a local factor that predisposes the failing ventricle to beta-adrenoceptor downregulation.
Generation of the 1,3-Phosphasilolene Skeleton from Ortho-Silylated Biarylphosphonates (1998)

Treatment of diethyl 2-(3-trimethylsilyl)biphenylphosphonate 15 with excess methyllithium affords a mixture of the 2H-benzo[d]-1,3-phosphasilolen-1-one 16 together with the silyl transfer product 17. Deuterium incorporation studies show that the mechanism involves the conversion from 15 to 19 and 20, followed by formation of a siliconate intermediate 21. Cleavage of an exocyclic Si−C bond affords 16 while endocyclic C−Si cleavage leads to 17. The phosphasilolene structure 16 is confirmed by X-ray crystallography.
A study on melanin affinity of 14C-trimethoprim in male Mol:WIST and Mol:PVG rats. (1990)

Hooded (Mol:PVG) and albino (Mol:WIST) rats were used to study the distribution pattern of 14C-trimethoprim by whole body autoradiography. Accumulation of radioactivity was demonstrated in the uveal tract of the eye and the pigmented parts of the skin in the hooded rats. No radioactivity was present in the corresponding tissues in the albino rats. This difference in the distribution pattern was interpreted to reflect binding to melanin of 14C-trimethoprim and/or its metabolites.
A human monoclonal antibody neutralizes diverse HIV-1 isolates by binding a critical gp41 epitope (2005)

HIV-1 entry into cells is mediated by the envelope glycoprotein receptor-binding (gp120) and membrane fusion-promoting (gp41) subunits. The gp41 heptad repeat 1 (HR1) domain is the molecular target of the fusion-inhibitor drug enfuvirtide (T20). The HR1 sequence is highly conserved and therefore considered an attractive target for vaccine development, but it is unknown whether antibodies can access HR1. Herein, we use gp41-based peptides to select a human antibody, 5H/I1-BMV-D5 (D5), that binds to HR1 and inhibits the assembly of fusion intermediates in vitro. D5 inhibits the replication of diverse HIV-1 clinical isolates and therefore represents a previously unknown example of a crossneutralizing IgG selected by binding to designed antigens. NMR studies and functional analyses map the D5-binding site to a previously identified hydrophobic pocket situated in the HR1 groove. This hydrophobic pocket was proposed as a drug target and subsequently identified as a common binding site for peptide and peptidomimetic fusion inhibitors. The finding that the D5 fusion-inhibitory antibody shares the same binding site suggests that the hydrophobic pocket is a "hot spot" for fusion inhibition and an ideal target on which to focus a vaccine-elicited antibody response. Our data provide a structural framework for the design of new immunogens and therapeutic antibodies with crossneutralizing potential.
FIBRIN GLUE V SUTURED BOLSTER: LESSONS LEARNED DURING 100 LAPAROSCOPIC PARTIAL NEPHRECTOMIES (2005)

LPN with closure using fibrin glue products provides adequate hemostasis when the CS or renal sinus is not entered. When the CS or renal sinus is entered, a sutured bolster is recommended.
Femtosecond near-field spin microscopy in digital magnetic heterostructures (invited) (1996)

We have designed a low-temperature femtosecond-resolved near-field scanning optical microscope to study spatiotemporal excitonic spin behavior in magnetic semiconductor heterostructures. Local disorder introduced by focused-ion-beam implantation reduces the otherwise large Zeeman splittings in modest magnetic fields, creating a planar spin-dependent energy landscape for diffusing carriers. Near-field polarization-resolved static and femtosecond measurements map out excitonic spin behavior with ∼125 nm spatial resolution, revealing spin-dependent diffusion. We demonstrate the applicability of two distinct time-resolved techniques in the near field, and discuss limitations on the measurement of polarized luminescence from semiconductors in the near field.
Epidemiology, classification, and modifiable risk factors of peripheral arterial disease (2007)

Peripheral arterial disease (PAD) is part of a global vascular problem of diffuse atherosclerosis. PAD patients die mostly of cardiac and cerebrovascular-related events and much less frequently due to obstructive disease of the lower extremities. Aggressive risk factors modification is needed to reduce cardiac mortality in PAD patients. These include smoking cessation, reduction of blood pressure to current guidelines, aggressive low density lipoprotein lowering, losing weight, controlling diabetes and the use of oral antiplatelet drugs such as aspirin or clopidogrel. In addition to quitting smoking and exercise, cilostazol and statins have been shown to reduce claudication in patients with PAD. Patients with critical rest limb ischemia or severe progressive claudication need to be treated with revascularization to minimize the chance of limb loss, reduce symptoms, and improve quality of life.
Effects of Latrunculin-B on Outflow Facility and Trabecular Meshwork Structure in Human Eyes (2006)

Latrunculin-B increases outflow facility in postmortem human eyes. The mechanism of facility increase is most likely due to loss of mechanical integrity of the trabecular meshwork as a consequence of reduction in cell-cell and cell-matrix adhesion. The facility increase and the extent of inner wall separation from the JCT that we observed were both qualitatively similar to that reported in living monkey eyes, but the magnitude of the facility increase and morphologic changes were much less than in the living monkey. This supports the idea that inner wall separation from the JCT may modulate outflow facility.
Simultaneous Equations Systems (1995)

Abstract Linear system modelling is structured in 10 stages from the general to the specific. The dynamic statistical system is the maintained model, defined by the variables of interest, their distributions, whether they are modelled or non‐modelled, and their lag polynomials. An econometric model is a (possibly) simultaneous‐equations entity, which is intended to isolate autonomous, parsimonious relationships based on economic theory. That model must adequately characterize the data evidence and account for the results in the congruent statistical system. Model formulation, identification, estimation (using an estimator generating equation), encompassing, and evaluation are considered.
Nitric Oxide Donors (2000)

Nitric oxide (NO) donors are pharmacologically active substances that release NO in vivo or in vitro. NO has a variety of functions such as the release of prostanoids, inhibition of platelet aggregation, effect on angiogenesis, and production of oxygen free radicals. This report discusses the chemical and pharmacological characteristics of NO donors, their effect on platelet function and cyclooxygenase, their cardiac action including myocardial infarction, and release of superoxide anions. This review stresses NO tolerance and the effect of NO donors on angiogenesis in myocardial infarction and in solid tumors.
Synaptic Pathology in Retinoschisis Knockout (Rs1−/y) Mouse Retina and Modification by rAAV-Rs1Gene Delivery (2008)

In the Rs1-KO mouse, retinal layer formation and synaptic protein expression in the OPL is normal up to P14, implying normal development of synaptic connections. Aberrant localization of synaptic proteins by P21 indicates that displacement of developing and/or mature synapses contributes to the b-wave reduction at young ages, when photoreceptor numbers and synaptic protein levels are normal. The subsequent decline in PSD95 and mGluR6 between 1 and 12 months in Rs1-KO retina mirrors the course of b-wave change and provides evidence of causal relationship between the ERG and OPL changes. These findings and the improved structural integrity of the OPL and b-wave amplitude after Rs1 gene transfer therapy provide a cellular and molecular basis for interpreting the changes in retinal signaling in this model.
Effects of Selective Vagal Stimulation on the Gallbladder and Sphincter of Oddi and Peripheral Vagal Routes Mediating Bile Evacuative Responses Induced by Hypothalamic Stimulation. (1992)

Peripheral routes of the vagus nerves to the biliary system were studied in anesthetized dogs using various selective vagal stimulation. Efferent stimulation of the gastric, hepatic, or celiac vagal branch as well as the cervical or thoracic vagal trunk induced gallbladder and Oddi's sphincter contractions, but those induced by hepatic vagal stimulation were rather small. The contraction responses in the gallbladder and sphincter of Oddi induced by thoracic vagal stimulation were greatly reduced after an external ligation around the pyloric sphincter. After administration of sympathetic blockers and atropine, vagally-induced gallbladder contractions were completely abolished and slight relaxation was seen in some animals. On the other hand, relaxation or transient relaxation followed by enhanced contractions was elicited in the sphincter of Oddi by vagal stimulation after atropine and sympathetic blockers. The relaxation response in the gallbladder after atropine and sympathetic blockers was abolished and that in the sphincter of Oddi was greatly reduced after the ligation around the pyloric sphincter. Stimulation of a ventral part of the anterior hypothalamic area induced gallbladder contraction and simultaneous relaxation of the sphincter of Oddi. These responses were completely abolished by the ligation around the pyloric sphincter in six dogs, while a slight relaxation response in the sphincter of Oddi remained in two dogs. These results suggest that the vagal fibers passing across the pyloric sphincter region are important for regulation of canine biliary motility and that extragastric vagal routes play a minor role in the nervous control of canine bile evacuation.
A structural study of Hypocrea jecorina Cel5A (2011)

Interest in generating lignocellulosic biofuels through enzymatic hydrolysis continues to rise as nonrenewable fossil fuels are depleted. The high cost of producing cellulases, hydrolytic enzymes that cleave cellulose into fermentable sugars, currently hinders economically viable biofuel production. Here, we report the crystal structure of a prevalent endoglucanase in the biofuels industry, Cel5A from the filamentous fungus Hypocrea jecorina. The structure reveals a general fold resembling that of the closest homolog with a high-resolution structure, Cel5A from Thermoascus aurantiacus. Consistent with previously described endoglucanase structures, the H. jecorina Cel5A active site contains a primarily hydrophobic substrate binding groove and a series of hydrogen bond networks surrounding two catalytic glutamates. The reported structure, however, demonstrates stark differences between side-chain identity, loop regions, and the number of disulfides. Such structural information may aid efforts to improve the stability of this protein for industrial use while maintaining enzymatic activity through revealing nonessential and immutable regions.