gebhart/patrepeval huggingface dataset:
Hepatocyte growth factor stimulates chemotactic response in mouse embryonic limb myogenic cells in vitro (1999)

In this study we investigate the influence of Hepatocyte Growth Factor (HGF) on the motility of embryonic forelimb myoblasts. Using Blindwell chemotactic chambers, it was found that HGF at concentrations of 1-50 ng/ml dramatically enhanced the ability of myogenic cells to migrate. This stimulatory effect was elicited in a dose-dependent fashion and the effect was reversed with the addition of HGF neutralizing antibodies. A checkerboard analysis was performed and it revealed that HGF's effect on limb myoblast motility was through both chemokinesis and chemotaxis. HGF was also examined for its ability to stimulate myogenic cell proliferation, using MF20 antibody as the myogenic marker. At all concentrations tested, HGF did not stimulate an overall increase in the numbers of MF20-positive myoblasts in culture. To examine the chemokinetic effect of HGF on cell migration in the limb, cells were isolated from the proximal regions of the limb (areas rich in myogenic cells), exposed to HGF, labeled with DiI and transplanted into 11.5 day mouse forelimbs. After 36 h of culture, it was found that DiI-labeled limb cells, pretreated with HGF, migrated significantly further in the limb than labeled cells that have not been exposed to HGF. The chemotactic effect of HGF was also investigated by implanting beads loaded with and without HGF into the 11.5 day limb. Proximal to the beads, DiI-labeled limb cells were also transplanted. It was found that HGF was able to chemotactically attract and direct the migration of DiI-labeled limb cells. Immunohistological staining was performed with HGF antibodies to determine the distribution of HGF in the 11.5 day mouse forelimb. It was found that HGF was strongly expressed by the apical ectodermal ridge (AER), the ectoderm and the mesenchyme directly beneath the AER. Positive staining was also obtained for the myogenic regions. However, the pattern was heterogeneous--punctuated with myogenic cells expressing and not expressing HGF.
Solvent Extraction of Neodymium(III) by Functionalized Ionic Liquid Trioctylmethylammonium Dioctyl Diglycolamate in Fluorine-free Ionic Liquid Diluent (2014)

The extraction behavior of neodymium and other rare earths from nitric acid media by the functionalized ionic liquid trioctylmethylammonium dioctyl diglycolamate, [A336][DGA], was investigated. The nonfluorinated ionic liquid trioctylmethylammonium nitrate, [A336][NO3], was used as diluent. The extraction behavior of neodymium(III) in this ionic liquid solution was carried out as a function of various parameters such as the pH, concentration of the extractant, type of acidic media, temperature, concentration of salting-out agent, and concentration of the aqueous feed. The extraction behavior of [A336][DGA] in [A336][NO3] was compared with that of [A336][DGA] in the chloride-containing ionic liquid diluent [A336][Cl] (Aliquat 336). The distribution ratios obtained in [A336][DGA] were compared with those observed in molecular extractant N,N-dioctyl diglycol amic acid (HDGA), from which the anion of the ionic liquid extractant was prepared. The distribution ratio for extraction of neodymium(III) by [A336][DGA] in [A336][NO3] was higher than that for extraction by HDGA in [A336][NO3], at pH values >2. The effects of thermodynamic parameters, the stripping of neodymium(III) from the ionic liquid, and the reusability of the functionalized ionic liquid were studied in detail. The general applicability of the extraction system was illustrated by the extraction of lanthanide(III) ions other than neodymium(III).
Regulatory T Cells in Cancer (2020)

The immune system has evolved complex effector mechanisms to protect the host against a diversity of pathogenic organisms and regulatory adaptations that can curtail pathological sequelae of inflammatory events, prevent autoimmunity, and assist in tissue repair. Cancers, by virtue of their local manifestations of tissue dysfunction and destruction, inflammation, and genomic instability, can evoke these protective mechanisms, which support the progression of tumors and prevent their immune eradication. Central to these processes is a subset of CD4 + T cells, known as regulatory T (Treg) cells, that express the X chromosome–linked transcription factor FOXP3. In addition to their critical role in controlling autoimmunity and suppressing inflammatory responses in diverse biological settings, Treg cells are ubiquitously present in the tumor microenvironment where they promote tumor development and progression by dampening antitumor immune responses. Furthermore, Treg cells can directly support the survival of transformed cells through the elaboration of growth factors and interacting with accessory cells in tumors such as fibroblasts and endothelial cells. Current insights into the biology of tumor-associated Treg cells have opened up opportunities for their selective targeting in cancer, with the goal of alleviating their suppression of antitumor immune responses while maintaining overall immune homeostasis.
Antagonists of oxytocin featuring replacement with modified β‐mercaptopropionic acids at position 1 (2002)

Twenty analogues were synthesized of [Pmp1, D-Trp2, Arg8]oxytocin, PA, (Pmp = beta,beta-pentamethylene-beta-mercaptopropionic acid), a potent antagonist of the uterotonic effect of oxytocin in the rat (uterotonic test in vitro, pA2 = 7.77) and in the baboon. Systematic substitution of Pmp1 was made with beta-mercaptopropionic acids featuring replacement of the 4-methylene group of the cyclohexyl ring of Pmp with isosteric O, S, NH or with C=O. Since the more hydrophilic NH and C=O substitutions showed a sharply decreased antagonistic potency (rat uterotonic test in vitro), additional modifications were made to reduce their hydrophilicity. Acylation of the NH group with various acyl groups, and ketalization or thioketalization of C=O with more or less bulky substituents led to a partial restoration of potency, the N-carbamyl- and the 2-mercapto-2-adamantaneacetyl analogues being equipotent with PA. Internal cyclization by amidation of the NH-group with Gly-9, resulted in a bicyclic analogue, (cyclo 1-9)[(HN)Pmp1, Gly9]PA which was equipotent with PA. When Pen-6 was introduced into the bicyclic derivative instead of Cys-6, to reduce the flexibility of the rings, the resulting (cyclo 1-9)[(HN)Pmp1, Pen6, Gly9]PA had somewhat better potency (pA2 = 8.17) in the uterotonic test and no detectable activity in the antidiuretic assay. In the case of substitution of PA with beta,beta-(3-thiapentamethylene)-beta-mercaptopropionic acid, (S)Pmp, there was also an increase in inhibitory potency in the uterotonic test (pA2 = 8.08): the analogue had extremely weak antidiuretic activity. To establish the importance of the steric effects of the Pen-6 substitution, analogues [Pen6]PA and [(S)Pmp1, Pen6]PA were made and found to be very potent, with a pA2 of 8.72 and 8.86, respectively. The high potency of the latter analogue and its extremely weak action in the diuretic assay makes it an attractive candidate for studies on the inhibition of the biological effects of oxytocin and for the prevention of preterm labour.
Rhizobium japonicum mutants that are hypersensitive to repression of H2 uptake by oxygen (1982)

The synthesis of an H2 oxidation system in free-living Rhizobium japonicum wild-type strain SR is repressed by oxygen. Maximal H2 uptake rates were obtained in strain SR after derepression in 11 microM or less dissolved oxygen. Oxygen levels above 45 microM completely repressed H2 uptake in strain SR. Five R. japonicum mutant strains that are hypersensitive to repression or H2 oxidation by oxygen were derived from strain SR. The mutants were obtained by screening H2 uptake-negative mutants that retained the ability to oxidize H2 as bacteroids from soybean nodules. As bacteroids, the five mutant strains were capable of H2 oxidation rates comparable to that of the wild type. The mutants did not take up H2 when derepressed in 22 microM dissolved oxygen, whereas strain SR had substantial activity at this oxygen concentration. The O2 repression of H2 uptake in both the wild-type and two mutant strains, SR174 and SR200, was rapid and was similar to the effect of inhibiting synthesis of H2 uptake system components with rifampin. None of the mutant strains was able to oxidize H2 when the artificial electron acceptors methylene blue or phenazine methosulfate were provided. The mutant strains were not sensitive to killing by oxygen, they took up O2 at rates similar to strain SR, and they did not produce an H2 uptake system that was oxygen labile. Cyclic AMP levels were comparable in strain SR and the five mutant strains after subjection of the cultures to the derepression conditions.
Molecular characterization and biological function of the movement protein of tobacco mosaic virus in transgenic plants. (1990)

We previously demonstrated, in transgenic tobacco plants, that the role of the movement protein (MP) of tobacco mosaic virus is to facilitate the cell-to-cell spread of viral progeny during infection. An analysis of different tissues of these transgenic plants indicated that the MP accumulated in leaf, stem, and root tissue. The highest levels were detected in older leaves. The relative levels of MP in leaf tissue from transgenic plants were equivalent to, or higher than, the levels of MP in tobacco mosaic virus-infected leaf tissue. Results of subcellular fractionation of homogenates of transgenic leaf tissue showed that the MP was most abundant in the cell wall fraction of older leaves and that the protein remained at high levels in the cell wall fraction as the leaves continued to age. Significant levels of the MP were detected in a crude membrane/organelle fraction and a soluble fraction in younger leaves but decreased to low levels in older leaves. These results suggest that the MP accumulates and is stable in cell walls. We have previously shown that the MP modifies the molecular exclusion limit of plasmodesmata, which is consistent with the hypothesis that plant viruses move from cell to cell through altered plasmodesmata. We show here that the ability of the tobacco mosaic virus MP to modify the molecular exclusion limit of plasmodesmata in tobacco depends on the developmental stage of the leaf. The implications of these findings on understanding virus movement and how plasmodesmata function are discussed.
ActRII blockade protects mice from cancer cachexia and prolongs survival in the presence of anti-cancer treatments (2016)

Anti-ActRII blockade is an effective intervention against cancer cachexia providing benefit even in the presence of anti-cancer therapies. Co-treatment comprising chemotherapies and ActRII inhibitors might constitute a promising new approach to alleviate chemotherapy- and cancer-related wasting conditions and extend survival rates in cachectic cancer patients.
Smart Micro- and Nanocontainers for Storage, Transport, and Release (2001)

A defined and controllable permeability of the capsule wall of hollow polyelectrolyte capsules has been achieved. The walls of these capsules can be switched between an open and a closed state with respect to macromolecules by adjusting the salt concentration of the solution in which the capsules are dispersed. The Figure shows part of the mechanism to encapsulate and release macromolecules by this method.
Adopting Inference Networks for Online Thread Retrieval (2010)

Online forums contain valuable human-generated information. End-users looking for information would like to find only those threads in forums where relevant information is present. Due to the distinctive characteristics of forum pages from generic web pages, special techniques are required to organize and search for information in these forums. Threads and pages in forums are different from other webpages in their hyperlinking patterns. Forum posts also have associated social and non-textual metadata. In this paper, we propose a model for online thread retrieval based on inference networks that utilizes the structural properties of forum threads. We also investigate the effects of incorporating various relevance indicators in our model. We empirically show the effectiveness of our proposed model using real-world data.
Realization of a human riding a unicycle by a robot (2002)

The authors describe a unicycle robot. By using a new method for detecting the posture of the robot in three dimensions, the authors conducted experiments on this robot under the proposed control method. The robot's posture is stabilized successfully both in longitudinal and in lateral directions in three dimensions. And the experimental results show that the proposed model and control method are effective and active for emulating a human riding a unicycle system. The authors believe that this is the first complete success in emulating a human riding a unicycle by a robot in the world.
Point-of-care CRISPR/Cas nucleic acid detection: Recent advances, challenges and opportunities (2020)

With the trend of moving molecular tests from clinical laboratories to on-site testing, there is a need for nucleic acid based diagnostic tools combining the sensitivity, specificity and flexibility of established diagnostics with the ease, cost effectiveness and speed of isothermal amplification and detection methods. A promising new nucleic acid detection method is Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-associated nuclease (Cas)-based sensing. In this method Cas effector proteins are used as highly specific sequence recognition elements that can be combined with many different read-out methods for on-site point-of-care testing. This review covers the technical aspects of integrating CRISPR/Cas technology in miniaturized sensors for analysis on-site. We start with a short introduction to CRISPR/Cas systems and the different effector proteins and continue with reviewing the recent developments of integrating CRISPR sensing in miniaturized sensors for point-of-care applications. Finally, we discuss the challenges of point-of-care CRISPR sensing and describe future research perspectives.
Interference Drag Associated with Engine Locations for Multidisciplinary Design Optimization (2019)

This research aims to quantify the interference drag for various engine locations on a traditional “tube and wing,” 150-passenger commercial aircraft flying at 35,000 ft and Mach 0.8. Engine locations are varied in the chord wise, span wise, and vertical directions near the wing, both under and above the wing, as well as along the fuselage. Euler simulations are performed with representative powered modern engines. The results are intended to supplement empirical drag estimates suitable for multidisciplinary design environments. Large interference drag increases, as compared to the isolated air frame and engine geometry, are found to occur when the engine is placed directly above or below the wing. Interference effects are significantly reduced, and in some instances result in benefits compared to the isolated bodies, when the engines are placed fore or aft of the wing. Interference drag increases are partially explained by flow channels leading to choked flow and shock interactions between bodies.
Involvement of transcription factor encoded by the mouse mi locus (MITF) in apoptosis of cultured mast cells induced by removal of interleukin-3. (1997)

Mast cells develop when spleen cells of mice are cultured in the medium containing interleukin (IL)-3. Cultured mast cells (CMCs) show apoptosis when they are incubated in the medium without IL-3. We obtained CMCs from tg/tg mice that did not express the transcription factor encoded by the mi gene (MITF) due to the integration of a transgene at its 5' flanking region. MITF is a member of the basic-helix-loop-helix-leucine zipper (bHLH-Zip) protein family of transcription factors. We investigated the effect of MITF on the apoptosis of CMCs after removal of IL-3. When cDNA encoding normal MITF ((+)-MITF) was introduced into tg/tg CMCs with the retroviral vector, the apoptosis of tg/tg CMCs was significantly accelerated. The mutant mi allele represents a deletion of an arginine at the basic domain of MITF. The apoptosis of tg/tg CMCs was not accelerated by the introduction of cDNA encoding mi-MITF. The overexpression of (+)-MITF was not prerequisite to the acceleration of the apoptosis, as the apoptotic process proceeded faster in +/+ CMCs than in mi/mi CMCs. The Ba/F3 lymphoid cell line is also dependent on IL-3, and Ba/F3 cells show apoptosis after removal of IL-3. The c-myc gene encodes another transcription factor of the bHLH-Zip family, and the overexpression of the c-myc gene accelerated the apoptosis of Ba/F3 cells. However, the overexpression of (+)-MITF did not accelerate the apoptosis of Ba/F3 cells. The (+)-MITF appeared to play some roles for the acceleration of the apoptosis specifically in the mast cell lineage.
Early and specific gene expression triggered by rice resistance gene<i>Pi33</i>in response to infection by<i>ACE1</i>avirulent blast fungus (2007)

* Our view of genes involved in rice disease resistance is far from complete. Here we used a gene-for-gene relationship corresponding to the interaction between atypical avirulence gene ACE1 from Magnaporthe grisea and rice resistance gene Pi33 to better characterize early rice defence responses induced during such interaction. * Rice genes differentially expressed during early stages of Pi33/ACE1 interaction were identified using DNA chip-based differential hybridization and QRT-PCR survey of the expression of known and putative regulators of disease resistance. * One hundred genes were identified as induced or repressed during rice defence response, 80% of which are novel, including resistance gene analogues. Pi33/ACE1 interaction also triggered the up-regulation of classical PR defence genes and a massive down-regulation of chlorophyll a/b binding genes. Most of these differentially expressed genes were induced or repressed earlier in Pi33/ACE1 interaction than in the gene-for-gene interaction involving Nipponbare resistant cultivar. * Besides demonstrating that an ACE1/Pi33 interaction induced classical and specific expression patterns, this work provides a list of new genes likely to be involved in rice disease resistance.
Preparation of human metabolites of propranolol using laboratory‐evolved bacterial cytochromes P450 (2005)

Testing the toxicities and biological activities of the human metabolites of drugs is important for development of safe and effective pharmaceuticals. Producing these metabolites using human cytochrome P450s is difficult, however, because the human enzymes are costly, poorly stable, and slow. We have used directed evolution to generate variants of P450 BM3 from Bacillus megaterium that function via the "peroxide shunt" pathway, using hydrogen peroxide in place of the reductase domain, oxygen and NADPH. Here, we report further evolution of the P450 BM3 heme domain peroxygenase to enhance production of the authentic human metabolites of propranolol by this biocatalytic route. This system offers a versatile, cost-effective, and scaleable route to the synthesis of drug metabolites.
Calpain Inhibitors Prevent Neuronal Cell Death and Ameliorate Motor Disturbances after Compression-Induced Spinal Cord Injury in Rats (2005)

Traumatic spinal cord injury (SCI) results in widespread neuronal cell death. Recent studies have suggested that activated calpain mediates neuronal cell death in the central nervous system. We conducted a study to determine whether calpain mediates neuronal cell death in the motor neurons of the spinal cord after SCI, and whether postinjury administration of the calpain inhibitors N-acetyl- Leu-Leu-Met-CHO (ALLM) and calpain inhibitor III (CI III) (MDL28170) reduces the motor disturbances in rats with a model of SCI. Adult male Wistar rats were subjected to SCI by application of a 20-g weight impactor probe to the spinal cord at T12 for 20 min. The rats were divided into three groups according to whether they were injected intravenously with 0.05-2.5 mg/kg ALLM, 10 mg/kg CI III, or 0.1% DMSO as a control every 24 h for 1 week after SCI. Calpain was activated in the spinal cord at 8 h, 24 h, and 5 days after SCI, and administration of ALLM inhibited its activation. ALLM, as compared to the DMSO vehicle alone, also significantly reduced the number of motor neurons in spinal-cord lesions that were positively labeled at 24 h after SCI with the terminal deoxynucleotidyl transferase-uridine nucleotide end-labeling (TUNEL) technique. Additionally, both the inclined plane test and footprint analysis showed markedly better motor activity after 4 weeks in rats injected with ALLM or CI III than in rats given vehicle only. These results suggest that activation of calpain plays a critical role in the neuronal cell death that follows SCI, and that calpain inhibitors may have benefit in treating the motor disturbances that follow SCI.
Fruit and vegetables, and cardiovascular disease: a review. (1997)

Although null findings may be underreported the results are consistent with a strong protective effect of fruit and vegetables for stroke and a weaker protective effect on coronary heart disease. Greater use of food-based hypotheses and analyses, would complement existing nutrient-based analyses and help guide the search for underlying causes.
Are the loan loss and fair value components of bank income rationally priced (2013)

European Community's Seventh Framework Programme
Pattern-Based Contextual Anomaly Detection in HVAC Systems (2017)

This paper presents detailed anomaly detection evaluation on operational time-series data of Internet of Things (IoT) based household devices in general and Heating, Ventilation and Air Conditioning (HVAC) systems in specific. Due to the number of issues observed during evaluation of widely used distance-based, statistical-based, and cluster-based anomaly detection techniques, we also present a pattern-based approach for anomaly detection in HVAC time-series data. The usage and number of IoT based HVAC systems are enormously increasing and will have a major share in IoT based household devices in the near future. The operational and usage log of these devices contains different sensor values logged with time, containing normal data points, and long-term anomalies. The state-of-the-art methods for anomaly detection are unable to detect these long-term anomalies, which reflect the deteriorating effect of a sensor. The presented approach overcomes this problem by building a knowledge base of long/short -term patterns based on normal data points which keep growing over the time. In addition to the detected anomalies and in contrast to the existing methods, the presented method gives meaningful anomaly score for a number of HVAC systems. We evaluate the presented approach on real operational data, collected over the period of 2.5 years. Evaluation results show that the presented approach outperforms the state-of-the-art methods for anomaly detection with the area under the curve (AUC) value of 99.4%. Discord detection results of the proposed technique on another dataset from a different domain show the generic and adaptive nature of our technique.
Desmoglein shows extensive homology to the cadherin family of cell adhesion molecules (1990)

Desmoglein is a major adhesive component of the desmosome. It is also at least one of the antigenic targets of pathogenic antibodies circulating in the sera of patients with the blistering disease Pemphigus foliaceus. To examine the molecular basis of desmosomal adhesion and to further our understanding of its disruption in various bullous disorders we have cloned cDNAs encoding four of the extracellular domains of desmoglein. The predicted amino acid sequence of these clones shows extensive homology with the cadherin class of calcium-dependent cell adhesion molecules. Desmoglein represents a novel subtype of this family.