gebhart/patrepeval huggingface dataset:
The Road Less Traveled: Importance of the Lesser Branches of the Celiac Axis in Liver Embolotherapy (2012)

Effective treatment of unresectable hepatic neoplasms depends on the appropriate identification of tumor arterial supply. Because hepatic tumors derive more than 90% of their blood supply from the hepatic arteries, awareness of common hepatic arterial anatomic variants (e.g., replaced or accessory left or right hepatic artery), as well as parasitized collateral vessels originating from the celiac axis (e.g., right inferior phrenic, omental, and cystic arteries) that can supply hepatic neoplasms-particularly those with a surface location-is important for safe and effective interventional therapy for these tumors. Moreover, recognition of certain nonhepatic branches arising from the hepatic arterial circulation is important for optimizing transarterial therapy and blocking the passage of treatment particles into sensitive structures, thereby preventing unwanted clinical sequelae such as gastrointestinal ulceration, skin ulceration or pain, and, rarely, ischemic cholecystitis.
Principles of Tissue Engineered Regeneration of Skeletal Tissues (1999)

The regeneration of adult skeletal tissues can be controlled by tissue engineered implants. The logic and general approach are outlined as an introduction to the manuscripts in this volume.
Thumbs up? Sentiment Classification using Machine Learning Techniques (2002)

We consider the problem of classifying documents not by topic, but by overall sentiment, e.g., determining whether a review is positive or negative. Using movie reviews as data, we find that standard machine learning techniques definitively outperform human-produced baselines. However, the three machine learning methods we employed (Naive Bayes, maximum entropy classification, and support vector machines) do not perform as well on sentiment classification as on traditional topic-based categorization. We conclude by examining factors that make the sentiment classification problem more challenging.
The Synthetic Triterpenoids, CDDO and CDDO-Imidazolide, Are Potent Inducers of Heme Oxygenase-1 and Nrf2/ARE Signaling (2005)

The synthetic triterpenoid 2-cyano-3,12-dioxooleana-1,9(11)-dien-28-oic acid (CDDO) and its derivative 1-[2-cyano-3-,12-dioxooleana-1,9(11)-dien-28-oyl]imidazole (CDDO-Im) are multifunctional molecules with potent antiproliferative, differentiating, and anti-inflammatory activities. At nanomolar concentrations, these agents rapidly increase the expression of the cytoprotective heme oxygenase-1 (HO-1) enzyme in vitro and in vivo. Transfection studies using a series of reporter constructs show that activation of the human HO-1 promoter by the triterpenoids requires an antioxidant response element (ARE), a cyclic AMP response element, and an E Box sequence. Inactivation of one of these response elements alone partially reduces HO-1 induction, but mutations in all three sequences entirely eliminate promoter activity in response to the triterpenoids. Treatment with CDDO-Im also elevates protein levels of Nrf2, a transcription factor previously shown to bind ARE sequences, and increases expression of a number of antioxidant and detoxification genes regulated by Nrf2. The triterpenoids also reduce the formation of reactive oxygen species in cells challenged with tert-butyl hydroperoxide, but this cytoprotective activity is absent in Nrf2 deficient cells. These studies are the first to investigate the induction of the HO-1 and Nrf2/ARE pathways by CDDO and CDDO-Im, and our results suggest that further in vivo studies are needed to explore the chemopreventive and chemotherapeutic potential of the triterpenoids.
Near-infrared autofluorescence imaging for detection of cancer (2004)

Near-infrared autofluorescence imaging of tissues under long-wavelength laser excitation in the green and red spectral region complemented by cross-polarized elastic light scattering was explored for cancer detection. Various types of normal and malignant human tissue samples were utilized in this investigation. A set of images for each tissue sample was recorded that consisted of two autofluorescence images obtained under 532- and 632.8-nm excitation and light-scattering images obtained under linearly polarized illumination at 700, 850, and 1000 nm. These images were compared with the histopathology of the tissue sample. The experimental results indicated that for various tissue types, the intensity of the autofluorescence integrated over the 700 to 1000-nm spectral region was considerably different in cancer tissues than in that of the contiguous non-neoplastic tissues. This difference provided the basis for the detection of cancer and delineation of the tumor margins. Variations on the relative intensity were observed among different tissue types and excitation wavelengths.
Review of the prevalence and incidence of eating disorders (2003)

Only a minority of people who meet stringent diagnostic criteria for eating disorders are seen in mental health care.
Device physics of thin-film polycrystalline cells and modules: Phase 1 annual report: February 1998--January 1999 (1999)

This report describes work done by Colorado State University (CSU) during Phase 1 of this subcontract. CSU researchers continued to make basic measurements on CI(G)S and CdTe solar cells fabricated at different labs, to quantitatively deduce the loss mechanisms in these cells, and to make appropriate comparisons that illuminate where progress is being made. Cells evaluated included the new record CIGS cell, CIS cells made with and without CdS, and those made by electrodeposition and electroless growth from solution. Work on the role of impurities focused on sodium in CIS. Cells with varying amounts of sodium added during CIS deposition were fabricated at NREL using four types of substrates. The best performance was achieved with 10{sup {minus}2}--10{sup {minus}1} at% sodium, and the relative merits of proposed mechanisms for the sodium effect were compared. Researchers also worked on the construction and testing of a fine-focused laser-beam apparatus to measure local variations in polycrystalline cell performance. A 1{micro}m spot was achieved, spatial reproducibility in one and two dimensions is less than 1 {micro}m, and photocurrent is reliably measured when the 1{micro}m spot is reduced as low as 1-sun in intensity. In elevated-temperature stress tests, typical CdTe cells held at 100 C under illumination and normal resistive loads for extended periods of time were generally very stable; but those held under reverse or large forward bias and those contacted using larger amounts of copper were somewhat less stable. CdTe cell modeling produced reasonable fits to experimental data, including variations in back-contact barriers. A major challenge being addressed is the photovoltaic response of a single simple-geometry crystallite with realistic grain boundaries.
Xylose-metabolizing Saccharomyces cerevisiae strains overexpressing the TKL1 and TAL1 genes encoding the pentose phosphate pathway enzymes transketolase and transaldolase (1995)

Saccharomyces cerevisiae was metabolically engineered for xylose utilization. The Pichia stipitis CBS 6054 genes XYL1 and XYL2 encoding xylose reductase and xylitol dehydrogenase were cloned into S. cerevisiae. The gene products catalyze the two initial steps in xylose utilization which S. cerevisiae lacks. In order to increase the flux through the pentose phosphate pathway, the S. cerevisiae TKL1 and TAL1 genes encoding transketolase and transaldolase were overexpressed. A XYL1- and XYL2-containing S. cerevisiae strain overexpressing TAL1 (S104-TAL) showed considerably enhanced growth on xylose compared with a strain containing only XYL1 and XYL2. Overexpression of only TKL1 did not influence growth. The results indicate that the transaldolase level in S. cerevisiae is insufficient for the efficient utilization of pentose phosphate pathway metabolites. Mixtures of xylose and glucose were simultaneously consumed with the recombinant strain S104-TAL. The rate of xylose consumption was higher in the presence of glucose. Xylose was used for growth and xylitol formation, but not for ethanol production. Decreased oxygenation resulted in impaired growth and increased xylitol formation. Fermentation with strain S103-TAL, having a xylose reductase/xylitol dehydrogenase ratio of 0.5:30 compared with 4.2:5.8 for S104-TAL, did not prevent xylitol formation.
Manipulation of the epigenetic mark histone 3 lysine 9 tri-methylation (H3K9me3) in donor cells prior to nuclear transfer (2011)

Despite the production of live cloned animals from a range of mammalian species, the efficiency of (nuclear transfer) NT still remains low. Inadequate reprogramming of epigenetic marks in the donor cells has been identified as the key cause of this inefficiency. One repressive epigenetic mark which is known to be very stable and difficult to remove during reprogramming is H3K9Me3. The aim of this project has been to test the hypothesis that removal of H3K9me3 via over expression of its specific demethylase, jmjd2b, in donor cells prior to NT would enhance reprogramming. To test this hypothesis, mouse embryonic stem (ES) cells with tet inducible expression of jmjd2b were generated. Induction of jmjd2b in these ES cells resulted in 62-65% reduction in H3K9me3 as determined by immunofluorescence and western analysis. Use of ES cells that were induced for jmjd2b as donors during NT resulted in 8% higher number of blastocysts and 10% higher overall in vitro development compared to non-induced ES cells. However, following embryo transfers no live cloned mice could be generated. To test the pluripotency of the jmjd2b ES cells, one live germ-line chimera was generated. The overall efficiency of generating a live germline chimera was very low of 0.5%. However, the generation of this chimera enabled the generation of jmjd2b inducible mice and subsequent derivation of somatic mouse embryonic fibroblasts (MEFs), which enabled the examination of the effects of using somatic donor cells with reduced level of H3K9me3 during NT. Induction of jmjd2b in MEFs resulted in a dramatic decrease in H3K9me3 by 85-90% and 99% as determined by immunofluorescence and western analysis respectively. In contrast to the results seen with jmjd2b ES cells, use of MEFs induced for jmjd2b as donors in NT, resulted in 10 fold higher number of blastocysts and 3 fold higher overall in vitro development compared to non-induced MEFs. Although, following embryo transfers no live clones were generated, this was probably because of the small number of reconstructs (33) transferred. Thus it appears that reduction of H3K9me3 via over-expression of jmjd2b in donor cells improves in vitro reprogramming efficiency of NT reconstructs, but the greater effect seen with MEFs suggests that this type of chromatin therapy is more suitable for somatic NT.
Production and Evaluation of Antibodies for the Radioimmunoassay of Gastrin (1972)

In order to produce antibodies for use in radioimmunochemical determination of gastrin in serum, 41 guinea pigs and 72 rabbits were immunized; 15 different immunization schemes were employed; 23 animals (1 guinea-pig and 22 rabbits) produced detectable antibodies to gastrin. The antisera could bind 50% of 3 fmol (˜ 7 pg) 125I-gastrin in dilutions varying from 1:125 to 1:128,000. The binding energy expressed by the average association constant, K0, ranged from the order of 107l/mol to 1012l/mol. Only three antisera had antibodies with sufficient binding energy for radioimmunochemical determination of low physiologic concentrations of serum-gastrin (K0≥1011l/mol). One of these antisera reacted with cholecystokinin to an extent that made it unsuited for gastrin determinations in biologic fluids. The remaining two antisera were both in respect to dilution, binding energy, and specificity well suited to radioimmunoanalysis of gastrin in serum. On the basis of binding studies it appeared that 11 of the 23 gastrin antibodies were relatively homogeneous: the index of heterogeneity in these antibodies was ≥ 0.95. The high degree of homogeneity may be utilized in that straight-lined Scatchard plots may be used instead of standard curves. Otherwise the homogeneity is of no significance for the radioimmunoassay.
Silence of chromosomal amplifications in colon cancer. (2002)

Oncogene activation by gene amplification is a major pathogenetic mechanism in human cancer. Using comparative genomic hybridization, we determined that metastatic human colon cancers commonly acquire numerous extra copies of chromosome arms 7p, 8q, 13q, and 20q. We then examined the consequence of these amplifications on gene expression using DNA microarrays. Of 55,000 transcripts profiled, 2,146 were determined to map to one of the four common colon cancer amplicons and to also be expressed in normal or malignant colon tissues. Of these, only 81 transcripts (3.8%) demonstrated a 2-fold increase over normal expression among cancers bearing the corresponding chromosomal amplification. Chromosomal amplifications are common in colon cancer metastasis, but increased expression of genes within these amplicons is rare.
Cholera, Diarrhea, and Oral Rehydration Therapy: Triumph and Indictment (2003)

Cholera drove the sanitary revolution in the industrialized world in the 19th century and now is driving the development of oral rehydration therapy (ORT) in the developing world. Despite the long history of cholera, only in the 1960s and 1970s was ORT fully developed. Scientists described this treatment after the discovery of the intact sodium-glucose intestinal cotransport in patients with cholera. This new understanding sparked clinical studies that revealed the ability of ORT to reduce the mortality associated with acute diarrheal disease. Despite the steady reductions in mortality due to acute dehydrating diarrheal diseases achieved by ORT, the costly morbidity due to these diseases remains, the result of a failure to globalize sanitation and to control the developmental impact of diarrheal diseases and their associated malnutrition. New advances in oral rehydration and nutrition therapy and new methods to recognize its costs are discussed in this review.
Multi-country real-life experience of anti-vascular endothelial growth factor therapy for wet age-related macular degeneration (2014)

NCT01447043.
Constitutive cell surface association between CD4 and CCR5 (1999)

HIV-1 entry into cells involves formation of a complex between gp120 of the viral envelope glycoprotein (Env), a receptor (CD4), and a coreceptor. For most strains of HIV, this coreceptor is CCR5. Here, we provide evidence that CD4 is specifically associated with CCR5 in the absence of gp120 or any other receptor-specific ligand. The amount of CD4 coimmunoprecipitated with CCR5 was significantly higher than that with the other major HIV coreceptor, CXCR4, and in contrast to CXCR4 the CD4-CCR5 coimmunoprecipitation was not significantly increased by gp120. The CD4-CCR5 interaction probably takes place via the second extracellular loop of CCR5 and the first two domains of CD4. It can be inhibited by CCR5- and CD4-specific antibodies that interfere with HIV-1 infection, indicating a possible role in virus entry. These findings suggest a possible pathway of HIV-1 evolution and development of immunopathogenicity, a potential new target for antiretroviral drugs and a tool for development of vaccines based on Env-CD4-CCR5 complexes. The constitutive association of a seven-transmembrane-domain G protein-coupled receptor with another receptor also indicates new possibilities for cross-talk between cell surface receptors.
Pharmacophore Modeling and Virtual Screening for Novel Acidic Inhibitors of Microsomal Prostaglandin E2 Synthase-1 (mPGES-1) (2011)

Microsomal prostaglandin E(2) synthase-1 (mPGES-1) catalyzes prostaglandin E(2) formation and is considered as a potential anti-inflammatory pharmacological target. To identify novel chemical scaffolds active on this enzyme, two pharmacophore models for acidic mPGES-1 inhibitors were developed and theoretically validated using information on mPGES-1 inhibitors from literature. The models were used to screen chemical databases supplied from the National Cancer Institute (NCI) and the Specs. Out of 29 compounds selected for biological evaluation, nine chemically diverse compounds caused concentration-dependent inhibition of mPGES-1 activity in a cell-free assay with IC(50) values between 0.4 and 7.9 μM, respectively. Further pharmacological characterization revealed that also 5-lipoxygenase (5-LO) was inhibited by most of these active compounds in cell-free and cell-based assays with IC(50) values in the low micromolar range. Together, nine novel chemical scaffolds inhibiting mPGES-1 are presented that may possess anti-inflammatory properties based on the interference with eicosanoid biosynthesis.
Neutrophil-derived adhesion molecules in human digital ischaemia and reperfusion. (1995)

In order to see whether leucocyte-derived adhesion molecules are involved in ischaemia and reperfusion, the total and differential leucocyte counts and expression of the LFA complex i.e. CD11a/CD18 (LFA-1), CD11b/CD18 (Mac-1) and CD11c/CD18 (p 150,95) were monitored before and after standard cold and heat tests in 8 females with Raynaud's Disease and 8 matched controls. All patients suffered from vasoconstriction during the cold test which, compared with controls, was associated with fewer granulocytes expressing significantly more CD11b/CD18 (Mac-1) integrin and a significant degree of neutropenia persisting during reperfusion. Leucocyte-endothelial adhesive interactions may therefore occur during ischaemia and reperfusion.
Dynamic focusing in ultrasound hyperthermia treatments using implantable hydrophone arrays (1994)

A prototype 16-element needle hydrophone array has been designed, fabricated and characterized. The primary use of this array is to provide acoustic feedback during ultrasound hyperthermia treatments. This feedback can be used to compensate for patient motion and tissue inhomogeneities by controlling the phased array driving patterns. It can also be used in adaptive dynamic focusing, a procedure which enables the phased array to focus at points away from specified control points. The hydrophone array consists of a PVDF sheet, which covers a silicon substrate carrier that contains the signal electrodes of the individual acoustic sensors. A complete description of the hydrophone array and its characteristics is given in this paper. The aberration correction and motion compensation algorithms are also described, and some experimental results are shown. Finally, a Taylor series based adaptive dynamic focusing method for phased arrays based on a set of discrete hydrophone array measurements is described. This algorithm does not require any prior knowledge of the applicator geometry and all the parameters needed for correction can be measured directly at the hydrophone array sensor locations.
Sequence of excitation as a factor in sympathetic-parasympathetic interactions in the heart. (1992)

We determined the influence of differences in the time of initiation of sympathetic and vagal stimulation (both at 10 Hz) on the cardiac autonomic interactions in 16 open-chest anesthetized dogs. We always ended the concurrent sympathetic and vagal stimulations simultaneously. Sympathetic stimulation alone for 1 minute increased heart rate by 90 +/- 7 (mean +/- SEM) beats per minute, and vagal stimulation alone for 1 minute decreased heart rate by 67 +/- 5 beats per minute; i.e., the algebraic sum of these responses was an increase of 23 beats per minute. However, combined sympathetic and vagal stimulation for 1 minute actually decreased heart rate by 35 beats per minute; i.e., the vagal effects predominated. When vagal stimulation was initiated first, the chronotropic responses to combined stimulation were not significantly affected by the duration of antecedent vagal stimulation. However, when sympathetic stimulation was initiated first, the vagal predominance (disparity between the summated individual responses and the combined response) progressively diminished as we increased the duration of antecedent sympathetic stimulation. The vagal predominance diminished from a value of 67 +/- 21 beats per minute when the stimulations were initiated simultaneously to a value of 37 +/- 21 beats per minute when the duration of antecedent sympathetic stimulation was 10 minutes. Sympathetic stimulation releases not only norepinephrine but also neuropeptide Y, and this neuropeptide inhibits vagal neurotransmission. Our data suggest, therefore, that the longer the antecedent sympathetic stimulation, the greater the inhibition of vagal neurotransmission (presumably by the neuropeptide Y) and, therefore, the less pronounced the vagal predominance.
Epidermal Growth Factor Receptor (EGFR) gene copy number (GCN) correlates with clinical activity of irinotecan-cetuximab in K-RAS wild-type colorectal cancer: a fluorescence in situ (FISH) and chromogenic in situ hybridization (CISH) analysis (2009)

FISH and CISH EGFR GCN may both represent effective tools for a further patients selection in K-RAS wild-type colorectal cancer treated with cetuximab.
Progressive multifocal leukoencephalopathy in a patient with chronic lymphocytic leukemia after immunosuppressive treatment (2016)

Abstract Progressive multifocal leukoencephalopathy is a fatal viral infection of the central nervous system. Magnetic resonance imaging typically shows hyperintense T2/fluid‐attenuated inversion recovery lesions in the periventricular or subcortical white matter without contrast enhancement or gray matter involvement. Herein, we report on a case of a patient with chronic lymphocytic leukemia and developed progressive multifocal leukoencephalopathy with unusual magnetic resonance imaging findings.
Cloning and Characterization of a Saccharomyces cerevisiae Alkaline Ceramidase with Specificity for Dihydroceramide (2000)

In a previous study, we reported that the Saccharomyces cerevisiae gene YPC1 encodes an alkaline ceramidase with a dual activity, catalyzing both hydrolysis and synthesis of yeast ceramide (Mao, C., Xu, R., Bielawska, A., and Obeid, L. M. (2000) J. Biol. Chem. 275, 6876-6884). In this study, we have identified a YPC1 homologue in S. cerevisiae that also encodes an alkaline ceramidase. We show that these two ceramidases have different substrate specificity, such that YPC1p preferentially hydrolyzes phytoceramide, whereas the new ceramidase YDC1p hydrolyzes dihydroceramide preferentially and phytoceramide only slightly. Neither enzyme hydrolyzes unsaturated mammalian-type ceramide. In contrast to YPC1p, YDC1p had only minor in vitro reverse activity of catalyzing dihydroceramide formation from a free fatty acid and dihydrosphingosine and no activity with phytosphingosine. Overexpression of YDC1p had no reverse activity in non-stressed yeast cells, but like YPC1p suppressed the inhibition of growth by fumonisin B1 albeit more modestly. Deletion of YDC1 and YPC1 or both did not apparently affect growth, suggesting neither gene is essential. However, the Deltaydc1 deletion mutant but not the Deltaypc1 deletion mutant was sensitive to heat stress, indicating a role for dihydroceramide but not phytoceramide in heat stress responses, and suggesting that the two enzymes have distinct physiological functions.