gebhart/patrepeval huggingface dataset:
Multidisciplinary perspective of hepatocellular carcinoma: A Pacific Northwest experience (2015)

Hepatocellular carcinoma (HCC) is the most rapidly increasing type of cancer in the United States. HCC is a highly malignant cancer, accounting for at least 14000 deaths in the United States annually, and it ranks third as a cause of cancer mortality in men. One major difficulty is that most patients with HCC are diagnosed when the disease is already at an advanced stage, and the cancer cannot be surgically removed. Furthermore, because almost all patients have cirrhosis, neither chemotherapy nor major resections are well tolerated. Clearly there is need of a multidisciplinary approach for the management of HCC. For example, there is a need for better understanding of the fundamental etiologic mechanisms that are involved in hepatocarcinogenesis, which could lead to the development of successful preventive and therapeutic modalities. It is also essential to define the cellular and molecular bases for malignant transformation of hepatocytes. Such knowledge would: (1) greatly facilitate the identification of patients at risk; (2) prompt efforts to decrease risk factors; and (3) improve surveillance and early diagnosis through diagnostic imaging modalities. Possible benefits extend also to the clinical management of this disease. Because there are many factors involved in pathogenesis of HCC, this paper reviews a multidisciplinary perspective of recent advances in basic and clinical understanding of HCC that include: molecular hepatocarcinogenesis, non-invasive diagnostics modalities, diagnostic pathology, surgical modality, transplantation, local therapy and oncological/target therapeutics.
Effect of clonidine as adjuvant in bupivacaine-induced supraclavicular brachial plexus block: A randomized controlled trial (2010)

Addition of a small dose of clonidine to 0.5% bupivacaine significantly prolonged the duration of analgesia without producing any clinically important adverse reactions other than sedation.
Vaults Are Dynamically Unconstrained Cytoplasmic Nanoparticles Capable of Half Vault Exchange (2010)

Vaults are naturally occurring ribonucleoprotein particles with an enormous interior volume, large enough to encapsulate hundreds of proteins. They are highly conserved and are present in nearly all eukaryotic cells ranging from 10(4) to 10(7) particles per cell. Recombinant vaults can be produced in vitro and engineered to allow cell targeting and protein packaging. These nanometer-sized particles have many desirable characteristics that may give them advantages for use as drug delivery vehicles. Using photoactivatable green fluorescent protein (PAGFP) labeled vaults, we demonstrate that the particles rapidly diffuse throughout the cytoplasm following single pixel photoactivation in live cells. Their in vivo movement remained relatively unchanged despite exposure to a variety of cellular stresses, suggesting that vaults are largely unconstrained in the cytoplasm. Fluorescence resonance energy transfer (FRET) was observed from polyethylene glycol (PEG) fused hybrid cells that expressed either CFP or YFP labeled vaults, indicating that vaults can exchange major vault protein (MVP) subunits in vivo. Investigation into the mechanism of this exchange in vitro using recombinant vaults demonstrated that they were capable of rapidly separating at the particle waist and reassembling back into whole vaults, supporting a half vault exchange mechanism. This data suggests a means whereby vaults can functionally interact with their cellular environment and deliver materials packaged within their interior.
Peak Contrast Enhancement in CT and MR Angiography: When Does It Occur and Why? Pharmacokinetic Study in a Porcine Model (2003)

Time to peak aortic enhancement is determined by the relative contributions of injection duration and contrast medium traveling time and may well be explained by contrast medium volumetric inflow and recirculation physiology.
The Significance of Lowered Jejunal Disaccharidase Levels (1976)

Disaccharidase estimations on 115 consecutive jejunal biopsies are reported. The patients were divided into four groups: 1. Normal jejunal biopsy light microscopy, not milk intolerant, 82 cases. 2. Normal jejunal biopsy light microscopy, milk intolerant, eight cases. 3. Patients with giardiasis, 11 cases. 4. Coeliac disease patients, 14 cases. The lowest disaccharidase levels were found in coeliac disease, with giardiasis cases showing intermediate levels. Poor correlation of lactase levels with milk intolerance was found. Three cases in Group 1 showing lowered lactase levels were given metronidazole and showed remission of clinical symptoms, raising the possibility that they had undiagnosed infections with Giardia lamblia.
Identification, SAR Studies, and X‐ray Co‐crystallographic Analysis of a Novel Furanopyrimidine Aurora Kinase A Inhibitor (2009)

Herein we reveal a simple method for the identification of novel Aurora kinase A inhibitors through substructure searching of an in-house compound library to select compounds for testing. A hydrazone fragment conferring Aurora kinase activity and heterocyclic rings most frequently reported in kinase inhibitors were used as substructure queries to filter the in-house compound library collection prior to testing. Five new series of Aurora kinase inhibitors were identified through this strategy, with IC(50) values ranging from approximately 300 nM to approximately 15 microM, by testing only 133 compounds from a database of approximately 125,000 compounds. Structure-activity relationship studies and X-ray co-crystallographic analysis of the most potent compound, a furanopyrimidine derivative with an IC(50) value of 309 nM toward Aurora kinase A, were carried out. The knowledge gained through these studies could help in the future design of potent Aurora kinase inhibitors.
Expression of embryonic stem cell markers and osteogenic differentiation potential in cells derived from periodontal granulation tissue (2013)

The aim of this study was to identify if cells obtained from periodontal granulation tissue possess embryonic stem cell properties and osteogenic capacities in vitro. Periodontal granulation tissue was removed from one furcation and one infrabony defect (FGTC/IGTC-furcation/infrabony defect derived granulation tissue cells) of six patients. The extracted tissues were treated with collagenase/dispase solution, cultured and passaged twice, while a fraction of them was bacteriologically analyzed. Upon reaching confluence, total RNA was extracted, followed by cDNA synthesis and real-time PCR analysis. Gene expression levels of collagen type I, alkaline phosphatase (ALP), and the embryonic stem cell markers Nanog, Oct-4, Rex-1 and Sox-2 were measured, calibrated against the housekeeping gene GAPDH. Further, osteogenic differentiation was induced. Mineralized matrix formation was confirmed by von Kossa staining, and ALP activity was measured colorimetrically. The total bacterial load amounted to 9.4 ± 14.6 × 10(6) counts/mg of tissue for IGTC, and 11.1 ± 6.1 × 10(6) counts/of tissue for FGTC. Among the embryonic stem cell markers (FGTC/IGTC), Nanog was most highly expressed (3.48 ± 1.2/5.85 ± 5.7), followed by Oct-4 (1.79 ± 0.69/2.85 ± 2.5), Sox-2 (0.66 ± 0.3/1.26 ± 1.4) and Rex-1 (0.06 ± 0.0/0.04 ± 0.0). The osteogenic differentiation process was positive in both FGTC and IGTC, judged by increased von Kossa staining, and elevated ALP activity and gene expression. This study provides evidence that infected periodontal granulation tissue harbors cells expressing embryonic stem cell markers, and exhibiting osteogenic capacities when in culture in vitro.
An FPGA-based coprocessor for ATM firewalls (2002)

This implementation of the firewall enables a high degree of traffic selectability yet avoids the usual performance penalty associated with IP level firewalls. This approach is applicable to high-speed broadband networks, and asynchronous transfer mode (ATM) networks are addressed in particular. Security management is achieved through a new technique of active connection management with authentication. Past approaches to network security involve firewalls providing selection based on packet filtering and application level proxy gateways. IP level firewalling was sufficient for traditional networks but causes a severe performance degradation in high speed broadband environments. The approach described in this paper discusses the use of an FPGA-based front end processor that filters relevant signaling information to the firewall host while at the same time allowing friendly connections to proceed at line speed with no performance degradation.
Transport limits in high-speed quantum-well lasers: experiment and theory (1992)

It is shown experimentally that the modulation bandwidth of quantum well lasers can be reduced by a factor of six due to carrier transport across undoped layers of the laser as in the separate confinement heterostructure (SCH). Analytical expressions are given for the modulation response function, resonance frequency, damping rate and K factor to include carrier transport, and it is shown that carrier transport is responsible for a low-frequency rolloff which limits the modulation response of quantum-well lasers. It also shown that carrier transport leads to a reduction in the effective differential gain, while the gain compression factor remains largely unaffected by it.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Making distortions comprehensible (2002)

This paper discuses visual information representation from the perspective of human comprehension. The distortion viewing paradigm is an appropriate focus for this discussion as its motivation has always been to create more understandable displays. While these techniques are becoming increasingly popular for exploring images that are larger than the available screen space, in fact users sometimes report confusion and disorientation. We provide an overview of structural changes made in response to this phenomenon and examine methods for incorporating visual cues based on human perceptual skills.
Modulation of activity and conduction in single dorsal column axons by kilohertz-frequency spinal cord stimulation (2016)

Kilohertz-frequency spinal cord stimulation (KHF-SCS) is a new mode of SCS that may offer better pain relief than conventional SCS. However, the mechanism of action is poorly characterized, especially the effects of stimulation on dorsal column (DC) axons, which are the primary target of stimulation. This study provides the first recordings of single DC axons during KHF-SCS to quantify DC activity that has the potential to mediate the analgesic effects of KHF-SCS.
Demoralization, Patient Activation, and the Outcome of Spine Surgery (2016)

It is now well established that psychosocial factors can adversely impact the outcome of spine surgery. This article discusses in detail one such recently-identified "risk" factor: demoralization. Several studies conducted by the author indicate that demoralization, an emotional construct distinct from depression, is associated with poorer pain reduction, less functional improvement and decreased satisfaction among spine surgery patients. However, there are indications that the adverse impact of risk factors such as demoralization can be mitigated by psychosocial "maximizing" factors-characteristics that propel the patient towards positive surgical results. One of these maximizing factors, patient activation, is discussed in depth. The patient activation measure (PAM), an inventory assessing the extent to which patients are active and engaged in their health care, is associated not only with improved spine surgery results, but with better outcomes across a broad range of medical conditions. Other maximizing factors are discussed in this article. The author concludes that the past research focus on psychosocial risk factors has limited the value of presurgical psychological screening, and that future research, as well as clinical assessment, should recognize that the importance of evaluating patients' strengths as well as their vulnerabilities.
WNT/Frizzled-2 Signaling Induces Aggregation and Adhesion among Cardiac Myocytes by Increased Cadherin–β-Catenin Complex (2000)

Wingless is known to be required for induction of cardiac mesoderm in Drosophila, but the function of Wnt family proteins, vertebrate homologues of wingless, in cardiac myocytes remains unknown. When medium conditioned by HEK293 cells overexpressing Wnt-3a or -5a was applied to cultured neonatal cardiac myocytes, Wnt proteins induced myocyte aggregation in the presence of fibroblasts, concomitant with increases in beta-catenin and N-cadherin in the myocytes and with E- and M-cadherins in the fibroblasts. The aggregation was inhibited by anti-N-cadherin antibody and induced by constitutively active beta-catenin, but was unaffected by dominant negative and dominant positive T cell factor (TCF) mutants. Thus, increased stabilization of complexed cadherin-beta-catenin in both cell types appears crucial for the morphological effect of Wnt on cardiac myocytes. Furthermore, myocytes overexpressing a dominant negative frizzled-2, but not a dominant negative frizzled-4, failed to aggregate in response to Wnt, indicating frizzled-2 to be the predominant receptor mediating aggregation. By contrast, analysis of bromodeoxyuridine incorporation and transcription of various cardiogenetic markers showed Wnt to have little or no impact on cell proliferation or differentiation. These findings suggest that a Wnt-frizzled-2 signaling pathway is centrally involved in the morphological arrangement of cardiac myocytes in neonatal heart through stabilization of complexed cadherin- beta-catenin.
Structure, serological specificity, and synthesis of artificial glycoconjugates representing the genus-specific lipopolysaccharide epitope of Chlamydia spp (1991)

The human bacterial pathogens Chlamydia spp. possess a genus-specific lipopolysaccharide as a major surface antigen, the structure of which has been determined by analytical chemistry as Kdop alpha 2-8-Kdop alpha 2-4-Kdop alpha 2-6GlcNp beta 1-6-GlcNol (Kdo, 3-deoxy-D-manno-2-octulosonic acid). Immunochemical studies on this pentasaccharide and the chemically synthesized partial structures Kdop alpha 2-8-Kdop alpha 2-4-Kdop alpha 2-6GlcNp beta, Kdop alpha 2-8-Kdop alpha 2-4-Kdop alpha, Kdop alpha 2-4-Kdop alpha, Kdop alpha 2-8-Kdop alpha, and Kdop alpha using artificial glycoconjugate antigens and monoclonal antibodies showed that fatty acids and phosphoryl groups (as present in native lipopolysaccharide) are dispensable for constitution of the genus-specific epitope and that the minimal structure to exhibit chlamydia specificity is the Kdo trisaccharide moiety.
Role of FcγRI (CD64) in erythrocyte elimination and its up‐regulation in thalassaemia (1999)

To examine any role of the high affinity Fcgamma class I receptor (FcgammaRI) (CD64) in erythrocyte elimination by mononuclear phagocytes (MP) in thalassaemia (thal), we investigated the in vitro interaction of beta-thalassaemic erythrocytes with monocytes (Mo) whose FcgammaR expression had been modulated by cytokines. Treatment of Mo with interferon (IFN)-gamma or interleukin (IL)-10 which up-regulate FcgammaRI, caused a dose-dependent increase in binding of beta-thalassaemic erythrocytes, whereas stimulation with IL-4 which down-regulates the receptor, reduced this interaction, in a dose-dependent manner, to that of normal erythrocytes. Binding of thalassaemic erythrocytes by IFN-gamma or IL-10-treated Mo was inhibited by FcgammaRI-specific reagents. In addition, Mo expression of FcgammaRI and HLA class II DR was determined by flow cytometry in Thai patients with HbH disease (alpha1/alpha2 or alpha1/Hb Constant Spring) (n = 15) or beta degrees -thal/HbE (n = 16). In both groups of patients FcgammaRI expression was increased as compared to normal controls (n = 14): mean fluorescence intensity (+/-SD) 124.79 +/- 38. 77 in HbH disease and 121.86 +/- 18.23 in beta degrees -thal/HbE versus 91.94 +/- 17.36 in normal controls (P < 0.01 and P < 0.001, respectively). In contrast, HLA class II DR expression was similar in patients and controls. The results suggest that, in thalassaemia, up-regulated FcgammaRI on mononuclear phagocytes plays a role in their interaction with erythrocytes and that this process can be modified by cytokines.
Shadow Matching: A New GNSS Positioning Technique for Urban Canyons (2011)

The Global Positioning System (GPS) is unreliable in dense urban areas, known as urban canyons, which have tall buildings or narrow streets. This is because the buildings block the signals from many of the satellites. Combining GPS with other Global Navigation Satellite Systems (GNSS) significantly increases the availability of direct line-of-sight signals. Modelling is used to demonstrate that, although this will enable accurate positioning along the direction of the street, the positioning accuracy in the cross-street direction will be poor because the unobstructed satellite signals travel along the street, rather than across it. A novel solution to this problem is to use 3D building models to improve cross-track positioning accuracy in urban canyons by predicting which satellites are visible from different locations and comparing this with the measured satellite visibility to determine position. Modelling is used to show that this shadow matching technique has the potential to achieve metre-order cross-street positioning in urban canyons. The issues to be addressed in developing a robust and practical shadow matching positioning system are then discussed and solutions proposed.
Multilayer Vertical Stacked Capacitors (mvstc) for 64mbit and 256mbit Drams (1991)

As DRAM cell size is being reduced, scaling stacked capacitor structures is becoming more difficult and process extensions to increase the storage area relative to the cell area have to be considered. Among the candidates being studied are horizontal 1) and vertical 2,3) multilayered capacitors.
Validation of TPX2 as a Potential Therapeutic Target in Pancreatic Cancer Cells (2009)

Our results suggest that TPX2 might be an attractive target for pancreatic cancer therapy.
Transcatheter closure of fossa ovalis atrial septal defect: a single institutional experience. (2009)

Transcatheter closure of the fossa ovalis atrial septal defect with adequate rims has become the procedure of choice in recent times. We report our experience with 439 patients who were selected for percutaneous device closure and 430 of whom underwent transcatheter closure of fossa ovalis atrial septal defects from May 1997 to May 2006. Device closure was not attempted in the remaining nine patients after initial evaluation due to high right atrial pressure following balloon occlusion (n=1 not parallel, high pulmonary vascular resistance (n=1), significant coronary artery disease (n=1), or the fact that the atrial septal defect was unsuitable for device closure (n=6). The anatomical size of the atrial septal defects ranged from 7-40 mm. Six patients underwent a combined procedure at the time of the atrial septal defect device closure (balloon pulmonary valvotomy in 4 cases, balloon pulmonary valvotomy and patent ductus arteriosus device closure in 1, and pulmonary ductus arteriosus coil closure in 1). The patients were in the age group of 2-77 years, the mean age being 20 years. Major complications occurred in seven cases. In 4 patients, there was device embolization immediately after deployment; there was left atrial appendage perforation, in one patient leading to cardiac tamponade during deployment of the device, and development of pulmonary edema in two patients. The cases in which device embolization took place underwent conventional surgery for atrial septal defect patch closure, while the patient with left atrial appendage perforation underwent emergency surgery (suturing of the left atrial appendage). Both patients with pulmonary edema were managed conservatively. The immediate success rate of device closure was 96.9%. All but one patient with multiple defects had no residual shunt at follow-up. On three months' to nine years' follow-up, the device remained stable, with no significant residual shunt and no history of thrombus formation on transthoracic echocardiography.
Human Immunodeficiency Virus Type 1 p24 Antigen in Cervicovaginal Secretions (1995)

The failure to detect human immunodeficiency virus (HIV) antigen in cervicovaginal secretions (CVS) from HIV-infected women could be due in part to an in situ formation of immune complexes involving HIV antigens and cervicovaginal anti-HIV antibodies. CVS from 30 HIV-1-infected heterosexual women were assayed for p24 antigen detection by ELISA before and after acid disruption of immune complexes. Before acid treatment, free p24 antigen was detected in only 1 sample of CVS, whereas after acid dissociation, 4 (13.5%) of 30 samples had detectable and neutralizable p24 antigen. Adsorbent capacities of the CVS for recombinant p24 antigen, evaluated in an in vitro model, depended on both titer and avidity of cervicovaginal antibodies to HIV. In conclusion, local antibodies to HIV are able in vivo to bind HIV antigen within CVS and to participate in the immune exclusion of free virus particles or proteins.
Monoclonal Antibody Recognition of Histidine-Rich Peptide Encapsulated Nanoclusters (2002)

Biological systems offer insights into approaches to the problems encountered in the synthesis of nanomaterials. Histidine-rich proteins have been implicated in the biomineralization of heme, copper, and zinc. We have used the repeating consensus sequence AHHAHHAAD from the histidine-rich protein II of Plasmodium falciparum to mediate the aqueous self-assembly of several metal sulfide, metal oxide, and zerovalent metal clusters. Additionally, the surface encapsulating histidine-rich epitope is recognized by a monoclonal antibody raised against HRP II.
Modeling of test structures for efficient online defect monitoring using a digital tester (2002)

A novel methodology for digital measuring procedures and digital data analysis is presented in order to evaluate an online process control and defect monitoring. That can be done by manufacturing test chips side by side with standard chips and measuring them with the same measuring equipment-the digital tester. To achieve a fast and effective (efficient) measuring procedure and data analysis test structures will be modeled in geometry-graphs, neighborhood-graphs and connection-graphs.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Isolation of New Ribozymes from a Large Pool of Random Sequences (1993)

An iterative in vitro selection procedure was used to isolate a new class of catalytic RNAs (ribozymes) from a large pool of random-sequence RNA molecules. These ribozymes ligate two RNA molecules that are aligned on a template by catalyzing the attack of a 3'-hydroxyl on an adjacent 5'-triphosphate--a reaction similar to that employed by the familiar protein enzymes that synthesize RNA. The corresponding uncatalyzed reaction also yields a 3',5'-phosphodiester bond. In vitro evolution of the population of new ribozymes led to improvement of the average ligation activity and the emergence of ribozymes with reaction rates 7 million times faster than the uncatalyzed reaction rate.
Identification of 4-Aminopyrazolylpyrimidines as Potent Inhibitors of Trk Kinases (2008)

The design, synthesis and biological evaluation of a series of 4-aminopyrazolylpyrimidines as potent Trk kinase inhibitors is reported. High-throughput screening identified a promising hit in the 4-aminopyrazolylpyrimidine chemotype. Initial optimization of the series led to more potent Trk inhibitors. Further optimization using two strategies resulted in significant improvement of physical properties and led to the discovery of 10z (AZ-23), a potent, orally bioavailable Trk A/B inhibitor. The compound offers the potential to test the hypothesis that modulation of Trk activity will be of benefit in the treatment of cancer and other indications in vivo.