gebhart/patrepeval huggingface dataset:
The Newly Developed CRF1-Receptor Antagonists, NGD 98-2 and NGD 9002, Suppress Acute Stress-Induced Stimulation of Colonic Motor Function and Visceral Hypersensitivity in Rats (2013)

Corticotropin releasing factor receptor 1 (CRF1) is the key receptor that mediates stress-related body responses. However to date there are no CRF1 antagonists that have shown clinical efficacy in stress-related diseases. We investigated the inhibitory effects of a new generation, topology 2 selective CRF1 antagonists, NGD 98-2 and NGD 9002 on exogenous and endogenous CRF-induced stimulation of colonic function and visceral hypersensitivity to colorectal distension (CRD) in conscious rats. CRF1 antagonists or vehicle were administered orogastrically (og) or subcutaneously (sc) before either intracerebroventricular (icv) or intraperitoneal (ip) injection of CRF (10 µg/kg), exposure to water avoidance stress (WAS, 60 min) or repeated CRD (60 mmHg twice, 10 min on/off at a 30 min interval). Fecal pellet output (FPO), diarrhea and visceromotor responses were monitored. In vehicle (og)-pretreated rats, icv CRF stimulated FPO and induced diarrhea in >50% of rats. NGD 98-2 or NGD 9002 (3, 10 and 30 mg/kg, og) reduced the CRF-induced FPO response with an inhibitory IC50 of 15.7 and 4.3 mg/kg respectively. At the highest dose, og NGD 98-2 or NGD 9002 blocked icv CRF-induced FPO by 67-87% and decreased WAS-induced-FPO by 23-53%. When administered sc, NGD 98-2 or NGD 9002 (30 mg/kg) inhibited icv and ip CRF-induced-FPO. The antagonists also prevented the development of nociceptive hyper-responsivity to repeated CRD. These data demonstrate that topology 2 CRF1 antagonists, NGD 98-2 and NGD 9002, administered orally, prevented icv CRF-induced colonic secretomotor stimulation, reduced acute WAS-induced defecation and blocked the induction of visceral sensitization to repeated CRD.
Fibroblast Growth Factor 2 Modulates Transforming Growth Factor β Signaling in Mouse Embryonic Fibroblasts and Human ESCs (hESCs) to Support hESC Self-Renewal (2006)

Fibroblast growth factor 2 (FGF2) is known to promote self-renewal of human embryonic stem cells (hESCs). In addition, it has been shown that transforming growth factor beta (TGFbeta) signaling is crucial in that the TGFbeta/Activin/Nodal branch of the pathway needs to be activated and the bone morphogenic protein (BMP)/GDF branch repressed to prevent differentiation. This holds particularly true for Serum Replacement-based medium containing BMP-like activity. We have reinvestigated a widely used protocol for conditioning hESC medium with mouse embryonic fibroblasts (MEFs). We show that FGF2 acts on MEFs to release supportive factors and reduce differentiation-inducing activity. FGF2 stimulation experiments with supportive and nonsupportive MEFs followed by genome-wide expression profiling revealed that FGF2 regulates the expression of key members of the TGFbeta pathway, with Inhba, Tgfb1, Grem1, and Bmp4 being the most likely candidates orchestrating the above activities. In addition, restimulation experiments in hESCs combined with global expression analysis revealed downstream targets of FGF2 signaling in these cells. Among these were the same factors previously identified in MEFs, thus suggesting that FGF2, at least in part, promotes self-renewal of hESCs by modulating the expression of TGFbeta ligands, which, in turn, act on hESCs in a concerted and autocrine manner.
Follicular lymphoma: prognostic factors for response and survival. (1986)

One hundred forty-eight patients with newly diagnosed follicular lymphoma were treated over a 12-year period. Twenty-two patients received radiotherapy for stage I and II disease, followed by adjuvant chemotherapy in 14 patients. One hundred thirteen were treated at presentation with short courses of chemotherapy, most often with single-agent chlorambucil for bulky stage II and stages III and IV disease. Thirteen patients were managed expectantly until there was evidence of disease progression. The median survival was 9 years. Patients treated with radiotherapy for stage I and II disease had an 83% relapse-free survival, but those with bulky stage II or stages III and IV disease treated with chemotherapy pursued a remitting and relapsing course with a 70% response rate at initial and subsequent retreatments, but a median duration of remission of 4 years in stage III and 1 year in stage IV disease (P = .041). Patients were observed in relapse and retreatment was administered as appropriate, once every 33 months on average. Poor prognosis patients could be identified by a combination of the presentation characteristics: B symptoms, hepatosplenomegaly, anemia, and abnormal liver function. These factors predicted a poor response to treatment and correlated with a short survival. Histologic subgroups were not associated with differences in survival, but transformation to a diffuse high-grade lymphoma was observed in 23 of the 72 patients (32%) at risk, with a median follow-up of 6 years and 6 months, and was associated with a very poor prognosis. The present treatment strategy has proved successful for most patients with localized disease and those older patients with indolent small volume disseminated follicular lymphoma. New approaches are being investigated for the younger poor prognosis patients.
Efficient Quenching of Oligomeric Fluorophores on a DNA Backbone (2007)

The quenching properties of a series of oligodeoxyribosides bearing fluorophore “bases” are described. Sequences of adjacent, π-stacked pyrenes exhibit stronger electronic interactions visible in both absorbance and emission spectra than pyrenes that are insulated by intervening adenines. Quenching by N,N‘-dimethyl-4,4‘-bipyridinium dichloride is efficient for excimer- and exciplex-forming oligomers, with Stern−Volmer constants comparable to conjugated polymer “superquenching” schemes.
Aripiprazole for treatment-resistant schizophrenia: results of a multicenter, randomized, double-blind, comparison study versus perphenazine. (2007)

Aripiprazole and perphenazine, at the doses used here, can improve the symptoms of schizophrenia in treatment-resistant patients who have failed to respond to olanzapine or risperidone.
Psychosis Induced by the Interaction of Memantine and Amantadine: Lending Evidence to the Glutamatergic Theory of Schizophrenia (2007)

The dopamine hypothesis of schizophrenia is an enduring theory purporting that overactivity of the dopamine system is part of the pathogenesis of this illness. This theory is supported, in part, by the fact that amphetamines, via their enhancement of dopaminergic neurotransmission, can induce psychosis. More recently, aided by the psychoticomimetic effects of N-methyl-D-aspartate (NMDA) antagonists, it seems that glutamate, as well, has a role in the pathogenesis of schizophrenia (1). We present a case of psychosis possibly precipitated by the pharmacodynamic interaction of two NMDA antagonists.
Enhancement of murine serum amyloid A3 mRNA expression by glucocorticoids and its regulation by cytokines (1994)

Macrophages are regulated by hormones, cytokines, and other substances. We examined the effects of glucocorticoids (GC) on serum amyloid A (SAA) mRNA expression using an antisense SAA3 probe, and found that dexamethasone (DEX) and triamcinolone (TC) increased SAA3 mRNA expression by macrophage cell lines in a time- and concentration-dependent manner. Both an RNA polymerase II antagonist, alpha-amanitin, and a specific GC antagonist, RU38486, inhibited the enhancement of SAA3 mRNA expression by DEX. These results show that GC lead to enhanced SAA3 mRNA transcription. Nuclear run-on experiments supported these results. Enhanced expression of SAA3 mRNA by DEX was accompanied by production of SAA3 protein. Interferon-gamma (IFN-gamma) alone showed any effect on SAA3 mRNA expression. Enhanced SAA3 expression by DEX was inhibited by treatment with IFN-gamma in a dose-dependent manner. Either transforming growth factor (TGF)-beta 1 or interleukin (IL)-4 alone showed no effect on SAA3 mRNA expression, but suppressed DEX-induced SAA3 expression. The timing of the effects of IFN-gamma and TGF-beta 1 on DEX-induced SAA3 expression differed: IFN-gamma showed its effect between 30 h before and 18 h after DEX administration, whereas TGF-beta 1 showed an effect when administered concomitantly with DEX and in the late stages after DEX administration. IL-4 mildly suppressed DEX-induced SAA3 expression when given 12 h before and after DEX administration.
Anticoagulants and inhibitors of platelet aggregation derived from leeches (2001)

Increased life expectancy is associated with aging populations in the developed countries, and we can expect an increased incidence of cardiovascular and inflammatory diseases and cancers. A priority for medical research is to reduce such morbidity. Leeches have been demonstrated to be a useful source of drugs to treat cardiovascular diseases, as they have evolved highly specific mechanisms to feed on their hosts by blocking blood coagulation. Powerful molecules acting at different points in the coagulation cascade or in the inhibition of platelet aggregation have been purified from these animals. Moreover, clinical trials confirm their potential to treat cardiovascular diseases.
Enhancement of a High-Lift Airfoil using Low-Power Fluidic Actuators (2010)

The performance of an airfoil equipped with a high-lift system based on a single-element flap configuration is enhanced by the manipulation of vorticity concentrations near the airfoil surface using spanwise arrays of fluidic jet actuators. Spanwise periodic flow injection downstream of the juncture between the main airfoil body and the flap leads to a significant increase in the extent of flow attachment along the flap. Consequently, a substantial increase in lift at large flap deflections is produced (at δ = 40o and α = 4o, the lift is increased by up to 66% relative to baseline). It is shown that the momentum coefficient Cμ required for a given lift increment can be reduced significantly through the use of multiple actuators and by appropriate integration of the actuator jets.
Studies on the role of tetrazole in the activation of phosphoramidites (1989)

The mechanism of the tetrazole-activated coupling step in the synthesis of oligonucleotides via phosphoramidites is studied with the help of model reactions: Treatment of diethoxydiisopropylaminophosphane with two equivalents of tetrazole resulted in a diethoxy-tetrazolophosphane, whose (31P)-NMR shift of 126 ppm is identical with the signal observed during internucleotide bond formation. A series of different related diethoxy-phosphorous-acid derivatives were also synthesized; their (31P)-NMR signals between 123.9 and 130.8 ppm are additional evidence for the intermediacy of a tetrazolide species. Further NMR investigations with more basic azoles showed that tetrazole is also active as a proton donor.
Forecasts of the Scottish economy [June 2003] (2003)

While global growth is forecast to slow this year this will be more marked in the developed economies whilst growth is expected to continue more strongly in China and India. The US economy in particular is slowing due to concerns over their housing market and the impacts of the financial crisis.
Sustainable Colloidal-Silver-Impregnated Ceramic Filter for Point-of-Use Water Treatment (2007)

Cylindrical colloidal-silver-impregnated ceramic filters for household (point-of-use) water treatment were manufactured and tested for performance in the laboratory with respect to flow rate and bacteria transport. Filters were manufactured by combining clay-rich soil with water, grog (previously fired clay), and flour, pressing them into cylinders, and firing them at 900 degrees C for 8 h. The pore-size distribution of the resulting ceramic filters was quantified by mercury porosimetry. Colloidal silver was applied to filters in different quantities and ways (dipping and painting). Filters were also tested without any colloidal-silver application. Hydraulic conductivity of the filters was quantified using changing-head permeability tests. [3H]H2O water was used as a conservative tracer to quantify advection velocities and the coefficient of hydrodynamic dispersion. Escherichia coli (E. coli) was used to quantify bacterial transport through the filters. Hydraulic conductivity and pore-size distribution varied with filter composition; hydraulic conductivities were on the order of 10(-5) cm/s and more than 50% of the pores for each filter had diameters ranging from 0.02 to 15 microm. The filters removed between 97.8% and 100% of the applied bacteria; colloidal-silver treatments improved filter performance, presumably by deactivation of bacteria. The quantity of colloidal silver applied per filter was more important to bacteria removal than the method of application. Silver concentrations in effluent filter water were initially greater than 0.1 mg/L, but dropped below this value after 200 min of continuous operation. These results indicate that colloidal-silver-impregnated ceramic filters, which can be made using primarily local materials and labor, show promise as an effective and sustainable point-of-use water treatment technology for the world's poorest communities.
Primary structure of the Saccharomyces cerevisiae GAL7 gene (1985)

We present the nucleotide sequence of a 1599-base pair (bp) DNA fragment containing the entire GAL7 gene that encodes galactose-1-phosphate uridyltransferase of Saccharomyces cerevisiae. The deduced peptide was composed of 364 amino acid residues. The expected molecular weight was 42,005 daltons, which agreed with the observed value for the purified enzyme. The 3'-end of the GAL7 transcript mapped at a position 82 bp downstream from the UAA termination codon by the S1 nuclease protection experiment. We constructed a GAL7'-lac'Z fusion on various types of yeast plasmid vectors. The fused gene on any type of vector was induced by galactose and repressed by glucose as for the GAL7 gene on the chromosome. The response of GAL7'-lac'Z fusion to gal4 delta and gal80 delta regulatory mutations was also similar to the response of the chromosomal GAL7 gene. By using various deletions in the 5'-flanking region of the gene fusion, we delimited the sequence essential for galactose controlled expression with a 180 bp-fragment of DNA lying 92 bp upstream of the transcription initiation site.
IoT and Microservices (2015)

There are 2 billion PCs in use today across the globe. There are over 10 billion mobile phones. By 2020, it is predicted that there will be over 250 billion devices connected to the Internet. Some of these devices will be new products, but most will be existing things we use every day that will be enhanced with sensors, such as thermostats, cars, eyeglasses, wrist watches, clothing, street lamps, cars, buildings…you name it, it will likely become connected.
Amino acids and peptides. XXIX. A new efficient asymmetric synthesis of .ALPHA.-amino acid derivatives with recycle of a chiral reagent - asymmetric alkylation of a chiral Schiff base from glycine. (1978)

An efficient asymmetric synthesis of D-α-amino acid derivatives (VI) has been achieved by alkylation of the Schiff base (III), prepared from glycine tert-butyl ester and (1S, 2S, 5S)-2-hydroxypinan-3-one (II), followed by hydrolytic cleavage of the alkylated Schiff base (V). The chiral source (II) was also recovered in good yield, allowing the proliferation of the asymmetry according to the cycle of the amino acid asymmetric synthesis shown in Chart 1.
Wavelets and fast numerical algorithms (1993)

Wavelet based algorithms in numerical analysis are similar to other transform methods in that vectors and operators are expanded into a basis and the computations take place in this new system of coordinates. However, due to the recursive definition of wavelets, their controllable localization in both space and wave number (time and frequency) domains, and the vanishing moments property, wavelet based algorithms exhibit new and important properties. 
For example, the multiresolution structure of the wavelet expansions brings about an efficient organization of transformations on a given scale and of interactions between different neighbouring scales. Moreover, wide classes of operators which naively would require a full (dense) matrix for their numerical description, have sparse representations in wavelet bases. For these operators sparse representations lead to fast numerical algorithms, and thus address a critical numerical issue. 
We note that wavelet based algorithms provide a systematic generalization of the Fast Multipole Method (FMM) and its descendents. 
These topics will be the subject of the lecture. Starting from the notion of multiresolution analysis, we will consider the so-called non-standard form (which achieves decoupling among the scales) and the associated fast numerical algorithms. Examples of non-standard forms of several basic operators (e.g. derivatives) will be computed explicitly.
Heme oxygenase‐1 (HO‐1) inhibits postmyocardial infarct remodeling and restores ventricular function (2006)

We reported previously that predelivery of the anti-oxidant gene heme oxygenase-1 (HO-1) to the heart by adeno associated virus (AAV) markedly reduces injury after acute myocardial infarction (MI). However, the effect of HO-1 gene delivery on postinfarction recovery has not been investigated. In the current study, we assessed the effect of HO-1 gene delivery on post-MI left ventricle (LV) remodeling and function using echocardiographic imaging and histomorphometric approaches. Two groups of Sprague-Dawley rats were injected with 4 x 10(11) particles of AAV-LacZ (control) or AAV-hHO-1 in the LV wall. Eight wk after gene transfer, the animals were subjected to 30 min of ischemia by ligation of left anterior descending artery (LAD) followed by reperfusion. Echocardiographic measurements were obtained in a blinded fashion prior and at 1.5 and 3 months after I/R. Ejection fraction (EF) was reduced by 13% and 40% in the HO-1 and LacZ groups, respectively at 1.5 months after MI. Three months after MI, EF recovered fully in the HO-1, but only partially in the LacZ-treated animals. Post-MI LV dimensions were markedly increased and the anterior wall was markedly thinned in the LacZ-treated animals compared with the HO-1-treated animals. Significant myocardial scarring and fibrosis were observed in the LacZ-group in association with elevated levels of interstitial collagen I and III and MMP-2 activity. Post-MI myofibroblast accumulation was reduced in the HO-1-treated animals, and retroviral overexpression of HO-1 reduced proliferation of isolated cardiac fibroblasts. Our data indicate that rAAV-HO-1 gene transfer markedly reduces fibrosis and ventricular remodeling and restores LV function and chamber dimensions after myocardial infarction.
Selective coronary artery plaque visualization and differentiation by contrast-enhanced inversion prepared MRI (2006)

In this preliminary study, we demonstrate the potential utility of CE-IR MRI for selective plaque visualization and differentiation of plaque types. The observed contrast uptake may be associated with endothelial dysfunction, neovascularization, inflammation, and/or fibrosis.
Differentiation of mammary tumors and reduction in metastasis upon Malat1 lncRNA loss (2015)

Genome-wide analyses have identified thousands of long noncoding RNAs (lncRNAs). Malat1 (metastasis-associated lung adenocarcinoma transcript 1) is among the most abundant lncRNAs whose expression is altered in numerous cancers. Here we report that genetic loss or systemic knockdown of Malat1 using antisense oligonucleotides (ASOs) in the MMTV (mouse mammary tumor virus)-PyMT mouse mammary carcinoma model results in slower tumor growth accompanied by significant differentiation into cystic tumors and a reduction in metastasis. Furthermore, Malat1 loss results in a reduction of branching morphogenesis in MMTV-PyMT- and Her2/neu-amplified tumor organoids, increased cell adhesion, and loss of migration. At the molecular level, Malat1 knockdown results in alterations in gene expression and changes in splicing patterns of genes involved in differentiation and protumorigenic signaling pathways. Together, these data demonstrate for the first time a functional role of Malat1 in regulating critical processes in mammary cancer pathogenesis. Thus, Malat1 represents an exciting therapeutic target, and Malat1 ASOs represent a potential therapy for inhibiting breast cancer progression.
Holistically-Nested Edge Detection (2015)

We develop a new edge detection algorithm that tackles two important issues in this long-standing vision problem: (1) holistic image training and prediction; and (2) multi-scale and multi-level feature learning. Our proposed method, holistically-nested edge detection (HED), performs image-to-image prediction by means of a deep learning model that leverages fully convolutional neural networks and deeply-supervised nets. HED automatically learns rich hierarchical representations (guided by deep supervision on side responses) that are important in order to approach the human ability resolve the challenging ambiguity in edge and object boundary detection. We significantly advance the state-of-the-art on the BSD500 dataset (ODS F-score of .782) and the NYU Depth dataset (ODS F-score of .746), and do so with an improved speed (0.4 second per image) that is orders of magnitude faster than some recent CNN-based edge detection algorithms.
Enhancement of IMRT delivery through MLC rotation (2002)

Multileaf collimator (MLC) based intensity modulated radiation therapy (IMRT) techniques are well established but suffer several physical limitations. Dosimetric spatial resolution is limited by the MLC leaf width; interleaf leakage and tongue-and-groove effects degrade dosimetric accuracy and the range of leaf motion limits the maximum deliverable field size. Collimator rotation is used in standard radiation therapy to improve the conformity of the MLC shape to the target volume. Except for opposed orthogonal fields, collimator rotation has not been exploited in IMRT due to the complexity of deriving the MLC leaf configurations for rotated sub-fields. Here we report on a new way that MLC-based IMRT is delivered which incorporates collimator rotation, providing an extra degree of freedom in deriving leaf sequences for a desired fluence map. Specifically, we have developed a series of unique algorithms that are capable of determining rotated MLC segments. These IMRT fields may be delivered statically (with the collimator rotating to a new position in between sub-fields) or dynamically (with the collimator rotating and leaves moving simultaneously during irradiation). This introductory study provides an analysis of the rotating leaf motion calculation algorithms with focus on radiation efficiency, the range of collimator rotation and number of segments. We then evaluate the technique by characterizing the ability of the algorithms to generate rotating leaf sequences for desired fluence maps. Comparisons are also made between our method and conventional sliding window and step-and-shoot techniques. Results show improvements in spatial resolution, reduced interleaf effects and maximum deliverable field size over conventional techniques. Clinical application of these enhancements can be realized immediately with static rotational delivery although improved dosimetric modelling of the MLC will be required for dynamic delivery.